Champalimaud Research
Annual Report 2019 Champalimaud Research
Annual Report 2019 The Champalimaud Centre for the Unknown integrates research and clinical operations, under Champalimaud Research and the Champalimaud Clinical Centre (respectively), with the objective of developing cutting edge research side by side with excellent patient care.
The goal of Champalimaud Research (CR) is to perform world-leading fundamental and translational research. Current research work is focused on the fields of neuroscience, physiology and cancer.
As of 2019, CR hosts three programmes that explore the core research areas of the Foundation: Champalimaud Neuroscience Programme Champalimaud Physiology and Cancer Programme Champalimaud Experimental Clinical Research Programme
A Research Direction Team was appointed to coordinate this endeavour. It is comprised of three scientific directors representing the three programmes: Joe Paton, Henrique Veiga- Fernandes and Celso Matos. Together, the team will carry out the scientific aim of the Champalimaud Foundation: to explore new avenues of investigation, while reinforcing the links between research and clinical activities. 10
14 Content
The Competitive Foundation External Funding 06 80 70 Structure Education 08 84
84 Growth Events & Diversity 90 10 Culture Research 96 Labs 100 14 Scicom & Outreach Research 100 Associates 98 70 Support Units 108 Adjunct Labs Sci & Tech 72 Platforms 114 Publications 74 The Nitty Gritty 123 Leonor Beleza, President
CRAR 2019 CRAR João Silveira Botelho, Vice-president (right) António Horta-Osório, Non executive director (left)
The Foundation
Through scientific breakthroughs and clinical developments, the Champalimaud Foundation is there to help those who need it most.
The Champalimaud Foundation exists as In September 2018, during the António the legacy of Portuguese entrepreneur Champalimaud Vision Award ceremony, and industrialist, the late António de the Champalimaud Foundation announced Sommer Champalimaud. It was formally the creation of the first pancreas cancer created in 2005 under the full title: Anna research and treatment centre in the world. de Sommer Champalimaud and Dr. Carlos Montez Champalimaud Foundation. Thus, Mauricio Botton Carasso and his wife, honouring the benefactor’s parents, with Charlotte Botton, decided to work with the Leonor Beleza as President, as set out Champalimaud Foundation, contributing 50 in the will of António Champalimaud. million euros to build an innovative facility The Foundation gives full backing to its where scientists, doctors and physician- researchers who work on the frontline of scientists can work together to advance science and biomedicine. Its scientists and knowledge, take control and fight the doctors use their creativity, experience and hitherto irreducible character of a disease talents to find new and innovative ways to that has defied science for decades. approach the many questions of modern neuroscience and oncology.
06 Champalimaud Foundation CRAR 2019 CRAR Structure
Champalimaud Champalimaud Champalimaud Centre for the Clinical Centre Research Unknown
Champalimaud Research Support Units Scientific & Technological Direction Team Platforms Direction Support Celso Matos, Henrique Veiga-Fernandes, Joe Paton Events Fish Human Resources & Fellows Flow Cytometry Support Office Fly Lab Administration Glasswash & Media Preparation Research Groups Pre-award Histopathology Post-award Microscopy Experimental Physiology Neuroscience Molecular & Transgenic Tools Clinical Research & Cancer Rodent Megan Carey Scientific Hardware Eugenia Chiappe Scientific Software Mireia Castillo Bruno Costa-Silva Rui Costa Durval Costa Adriana Sánchez Dánes Gonzalo de Polavieja Rita Fior Eduardo Moreno Susana Lima Cristina João Christa Rhiner Christian Machens Markus Maeurer Henrique Veiga-Fernandes Zachary Mainen Albino Oliveira-Maia Marta Moita Science Communication Nickolas Papanikolaou Michael Orger Noam Shemesh Joe Paton Institutional communication Leopoldo Petreanu Outreach Alfonso Renart CR SAB * Carlos Ribeiro Maria Luisa Vasconcelos Regular members 2019 members Education Graduate Programme SAB * J. Anthony Movshon Gilles Laurent Martin Raff Michael Shadlen Direction Carlos Belmonte Rainer Friedrich Coordination Gilles Laurent Thomas Clandinin Teaching Lab Alessandro Treves Yang Dan Education & Courses
* The Scientific Advisory Board consist of external scientists who provide helpful guidance to CR 08 Programmes and Research Groups. CRAR 2019 CRAR Growth and 35 diversity NATIONALITIES 308 Angola The CR grew by nearly 100 By maintaining their Argentina new members since last links with the clinic, while Australia year! This increase was the establishing new ones with result of the association of the fundamental research Austria clinical research groups, department, the new Belgium previously solely affiliated Experimental and Clinical Brazil with the Champalimaud Research Programme is well Canada Clinical Centre, to CR. poised to persue its goals 467 Cape Verde in the field of translational CR MEMBERS 65.5% research. Chile PORTUGUESE Colombia Croatia Ecuador Finland France Germany Greece India Israel Italy Jamaica Japan Lesotho 159 Mauritius Norway Philippines Poland Portugal Romania
Postdocs Spain
Phd Students Research Techincians Platforms MSc Students Admin PI’s Switzerland 34.5% The Netherlands NON PORTUGUESE Turkey 26 40 108 53 98 58 84 United Kingdom United States of America Venezuela 41% Male 59% Female
10 CR Community Alentejo, 2019 Exploring new avenues of investigation, Research while Groups reinforcing the
Experimental Physiology Neuroscience & Clinical links between & Cancer Research research and clinical activities. Megan Carey Neural Circuits & Behaviour CRAR 2019 CRAR How the brain generates Brain Models Research Regions Methods and controls Rodent Cerebellum Quantitative behavioural analysis; Optogenetics coordinated movement Chemogenetics; Electrophysiology
Postdoctoral Researchers Ana Machado Catarina Albergaria Dana Darmohray Hugo Marques Jorge Ramirez * The Neural Circuits and Behaviour lab studies the cerebellum, a brain area that PhD Students is critical for coordinated motor control Ana Gonçalves and motor learning. The well-described Diogo Duarte cerebellar circuit is conserved across Jovin Jacobs species, which enables the researchers Tatiana Silva to study it in mice, a powerful animal Rita Félix (Co-Sup model that offers an array of genetic with Michael Orger) tools for measuring and manipulating activity in specific populations of neurons. MSc Student In some cases, these manipulations mirror Leonard Dupont neural conditions that exist in humans who suffer damage to the cerebellum “Several exciting things happened in 2019. Research Technicians through illness or injury. Among these, I would highlight a couple Catarina Almeida of events. The first is publishing a new Marta Maciel In 2019, the lab published an innovative research article in the journal Neuron, Virginia Casasnovas study, where they reported remarkable where we reported striking similarities similarities between the way humans between human and mouse locomotor and mice learn to adapt their manner of learning and localised a brain area walking. In addition, in that same study, that controls the temporal and spatial the researchers identified a site in the brain components of walking. that controls the two components crucial for mastering this task - space and time. Another highlight was Chairing the 2019 complex spike 10 ms Gordon Research Conference on the * Cerebellum, a top conference in our field, which took place in Switzerland in July.
Finally, my lab received a Consolidator Grant from the European Research Council A cell-attached in vivo electrophysiological recording from (ERC). This generous grant will allow us to a mouse cerebellar Purkinje cell reveals two kinds of action potentials: frequent simple spikes, and the occasional ‘complex continue investigating how the activity of spike’ (marked with an *) that gives rise to large increases in neurons throughout the brain produces postsynaptic calcium. learned and coordinated movements."
Credit: Jorge Ramirez, Carey lab Spatial and temporal locomotor learning in mouse cerebellum. careylab.org Darmohray DM, Jacobs JR, Marques HG, Carey MR. Neuron. 102(1):217-231.e4. doi: 10.1016/j. neuron.2019.01.038 16 Eugenia Sensorimotor Integration CRAR 2019 CRAR Chiappe The computational Brain Research Models Region Methods principles that govern motor Fruit fly Sensory; Electrophysiology; Premotor Optical tools; Behaviour; and sensory coordination and motor areas Virtual reality; Whiteboard; Literature for the control of goal
Postdoctoral Researchers oriented locomotion João Marques Paavo Huoviala Terufumi Fujiwara
PhD Students The research strategy of the Sensorimotor André Marques Integration lab focuses on connecting Mert Erginkaya neural activity dynamics to internal Miguel Paço representations of the brain to the Nuno Rito LAL_PN LP_PN locomotive behaviour of the fruit fly, Tomás Cruz Drosophila melanogaster. The researchers employ multiple methods to record and MSc Student reversibly perturb neural activity in Mara Bruhns behaving flies, to analyse the structure of interconnected neurons, to quantify Research Technicians different aspects of the fly’s locomotive Margarida Brotas behaviour, and to model functional Nélia Varela ME_PN IPSIN DN networks. This multidisciplinary approach, Saliha Ece Sönmez together with the ever-expanding genetic Sebastián Malagón Pérez toolkit of the fruit fly, allows the team Wynne Stagnaro to find mechanistic explanations for how multi-sensory and sensorimotor integration processes in the brain are used “In 2019, we published the results of an to guide adaptive behaviour. exciting new study in a preprint, where we AN identified that visual networks contribute to the stability of locomotion in a context- dependent manner. Specifically, in a context that is defined by the internal motor state and the goals of the fly. This work suggests models for how visual feedback is combined with internal signals to guide exploratory course control.
Using data obtained from an Electron Microscope, we have We also welcomed new researchers into the identified and reconstructed a small network contributing to lab, three doctoral students - André Marques, head-body coordination during locomotion. The network is highly Miguel Paço and Nuno Rito, and two postdocs recurrent, and contains critical interneurons (IPSIN) that connect - Paavo Huoviala and João Marques.” to premotor (LAL_PN) and visual (Me_PN and LP_PN) areas of the fly brain, as well as to neck and ventral nerve cord circuits (the spinal cord of insects). Motor context coordinates visually guided walking in drosophila. Cruz, T, Fujiwara, T, Varela, N, Mohammad, F, Claridge-Chang, A, chiappelab.org and Chiappe, ME. bioRxiv 572792. doi: https://doi. org/10.1101/572792
18 Rui Costa Neurobiology of Action CRAR 2019 CRAR How the brain generates Brain Research Models Regions Methods and selects actions Rodent Basal ganglia Optogenetics; Human Orbitofrontal cortex Electrophysiology; Behaviour
Postdoctoral Researchers Ana Cruz Andreas Klaus Catarina Carvalho Cristina Afonso Cristina Álcacer The Neurobiology of Action lab studies Daniela Pereira how the basal ganglia is involved in Joaquim Alves da Silva Cortex motor planning and decision making. Nicolas Morgenstern This brain area interacts with several Rodrigo Oliveira cortical areas, being fundamental Vitor Paixão for movement control and learning. This essential role is reflected in how PhD Students dysfunctions in these brain areas result Ivo Marcelo in important neural disorders such as Michael Pereira (Co-Sup Parkinson’s and Huntington’s disease and with Christian Machens) obsessive-compulsive disorder. By using Marcelo Mendonça a cross-level approach, from molecules (Co-Sup with Steven Striatum to neural circuits, work developed in the Kushner, Erasmus MC) Neurobiology of Action lab has contributed Nuno Loureiro (Co-Sup to expanding the knowledge of this field, with José del R. Millán, with groundbreaking findings challenging University of Texas) and updating the previously held perceptions regarding the role played by "Among this year's publications, I would like MSc Students basal ganglia subcircuits in movement. to highlight a research article published Ana Isidro in the journal Molecular Psychiatry titled Sara Abalde 'Differential effects of Foxp2 disruption in distinct motor circuits' and a perspective Research Technicians article published at the Annual Review of Sofia Marques Neuroscience titled 'What, If, and When Maria Inês Almeida to Move: Basal Ganglia Circuits and Self- Paced Action Initiation'." Visiting Researchers Jonathan Tang Loredana Stoica Differential effects of Foxp2 disruption in Data suggests that neurons in the striatum that are coactive distinct motor circuits. French CA, Vinueza Veloz during the same action, share inputs from the cortex. MF, Zhou K, Peter S, Fisher SE, Costa RM, De Circles with white markings represent neurons related to two Zeeuw CI. Mol Psychiatry. 2019 Mar;24(3):447- different actions (dotted and solid white, respectively). 462. doi: 10.1038/s41380-018-0199-x.
This schematic was adapted from: Klaus et al., Annu Rev Neurosci. 2019. What, If, and When to Move: Basal Ganglia Circuits and Self-Paced Action Initiation. Klaus A, Alves da Silva J, Costa RM. Annu Rev costa-lab.org Neurosci. 2019 Jul 8;42:459-483. doi: 10.1146/ annurev-neuro-072116-031033.
20 Gonzalo Collective behaviour CRAR 2019 CRAR de Polavieja Collective behaviour and Brain Research Models Regions Methods machine learning Zebrafish Whole brain Behaviour; Human Mathematical modelling; Machine learning
Research Scientist Fernando Martin-Maroto 0.5
Postdoctoral Researchers Francisco J. Heras Georgios Korpas At the Collective Behaviour lab, a multidisciplinary team that includes PhD Students mathematicians, physicists and biologists Antonia Groneberg (Co-Sup implements a diverse set of computational with Michael Orger) and behavioural tools. The research Francisco Romero focuses on two problems. The first one Marta Iglesias consists in understanding the rules of Tiago Costa (Co-Sup collective decision-making and motion. with Alfonso Renart) Both the data gathering process and Victoria Brugada 0.1 modelling tools make heavy use of machine learning techniques that we adapt to MSc Students study behaviour and brain activity. The Cátia Fortunato second problem the lab studies is in finding Ines Wichert mathematical approaches to learning Renata Cruz 0.05 from data and prior knowledge and that is transparent to mathematical analysis. Research Technician “In 2019, we published an AI-based Nuno Ferreira tracking software called idtracker.ai, in which we adapted deep learning to better acquire behavioural data of multiple animals in groups. This software was used in another publication that came out that same year. In that study, we demonstrated that collective motion of individuals in a 0.01 group can be modelled in a way that is very predictive and insightful.” 2 4 6 8 10 12 0
idtracker.ai: tracking all individuals in small or Applying deep attention networks as a way to model fish collective large collectives of unmarked animals. Romero- behaviour, we found that each animal has a small number of relevant Ferrero F, Bergomi MG, Hinz RC, Heras FJH, de neighbours out of the total number of fish in the group. Also, this Polavieja GG. Nature Methods. 16(2):179-182. doi: number changes in time depending on the behaviour of neighbours. 10.1038/ s41592-018-0295-5.
Taken from Heras et al. 2019. Deep attention networks reveal the rules of collective motion in zebrafish.Heras FJH, Romero-Ferrero F, Hinz RC, de Polavieja GG. polaviejalab.org PLoS Comput Biol. 15(9):e1007354. doi: 10.1371/ journal.pcbi.1007354.
22 Susana Neuroethology CRAR 2019 CRAR Lima How the brain controls Brain Research Models Regions Methods key processes in sexual Rodent Hypothalamus Electrophysiology; Ventral tegmental Optogenetics; behaviour area Anatomy; Behaviour
Postdoctoral Researchers Bertrand Lacoste (Co-Sup with Christian Machens) Constanze Lenschow Francisco Esteves Jonathan Cook The Neuroethology lab focuses its efforts Luís Moreira on understanding the mechanisms that Nicolas Gutierrez ensure sexual behaviour is promoted when fertilization is most likely to occur PhD Students and inhibited otherwise. For one, as the Ana Rita Mendes willingness of females to engage in sex is António Dias limited to periods of fertility, the team Basma Husain investigates how sex hormones modulate Baylor Brangers (Co-Sup neural activity and behaviour throughout with Zachary Mainen) the female reproductive cycle. Second, Silvana Araújo the team also studies the mechanisms Susana Valente that ensure termination of sexual interaction in males: the post-ejaculatory Research Technicians refractory period. Liliana Ferreira Margarida Duarte To gain insight into how the brain controls these fundamental processes, the team works on several brain regions, but most of their efforts are centred on the medial hypothalamus, an area that is of particular importance for female sexual behaviour. In addition, in order to understand how the refractory period after ejaculation is established in the male, the lab is also investigating the spinal cord mechanisms that control ejaculation. Despite the “During 2019 the lab was joined by a importance of ejaculation for species new postdoctoral fellow, Jonathan Cook. maintenance and well-being, very little is Jonathan completed his PhD at the Salk known about how this process is controlled. The ventromedial hypothalamus is a brain area important for Institute under the guidance of Ed Callaway integrating hormonal information and social cues. Using a viral- and Xin Jin where he investigated how based strategy, we were able to identify direct inputs across action timing is implemented in the brain. the entire mouse-brain into a group of neurons that express During his stay at the Neuroetholgy lab he progesterone receptors in this area. This illustration depicts is going to investigate the role of the medial positive staining (dots) in a small sample from a series of more preoptic nucleus for the execution of sexual than 100 slices, which spans the whole brain. behaviour. For this, Jonathan will record the neuronal activity of hypothalamic neurons in behaving animals in order to understand lima-lab.org how activity within this area can support the proper execution of this behaviour."
24 Christian Theoretical Neuroscience CRAR 2019 CRAR Machens Formulating computational Brain Research Models Regions Methods theories of brain function Monkey Frontal lobes Mathematical analysis; Rodent Visual cortex Numerical simulations Zebrafish Auditory cortex and animal behaviour Striatum Hindbrain
Postdoctoral Researchers -10 0 10 Adrien Jouary (Co-Sup with Michael Orger) Sander Keemink normal Bertrand Lacoste (Co-Sup dynamics with Susana Lima) To develop models of information William Podlaski processing in the brain, the Theoretical Neuroscience lab uses mathematical PhD Students kill 30% analysis and numerical simulations. These Allan Mancoo neurons tools allow the researchers to formulate Gonçalo Guiomar (Co-Sup their ideas and intuitions in a precise with Joe Paton) manner and thereby put them to test using Michael Pereira (Co-Sup real data. Specifically, the team focuses on with Rui Costa) triple no. several ‘higher-order’ regions such as the Oihane Horno (Co-Sup neurons frontal cortices that are involved in turning with Leopoldo Petreanu) sensory information into decisions. Nuno Calaim Severin Berger The team is comparing experimental inject data across different species and Research Technician voltage noise brain areas in order to find common Joana Carmona principles of how information is being represented in the brain. The team also MSc Student engages in the development of new Amber Brands perturb methods to summarise the activity of synapses neural populations in useful ways and to Visiting Researcher compare population activity across areas. Mirjana Maras They work in close collaboration with “In 2019, I had the privilege of co-organising several experimental labs, both within and the most important conference in the field outside of the Champalimaud Centre for of theoretical neuroscience - Cosyne, which add synaptic the Unknown. was held in Lisbon for the first time this year. delays The thesis work of João Semedo, a former doctoral student in the lab who graduated in 2018, was published in the journal Neuron Unlike man-made machines, biological systems such as the in April. Several months later, Nuno Calaim, brain are robust to many perturbations and even their partial another doctoral student, defended his PhD destruction. Shown here is a simulation of a neural network that thesis titled ‘Robustness of spike coding maintains its functionality - generating an oscillation - despite the networks’.” death of neurons, increased levels of voltage noise, perturbations of synaptic connections, etc. Cortical areas interact through a communication subspace. Semedo JD, Zandvakili A, Machens CK, machenslab.org Yu BM, Kohn A. Neuron. 102(1):249-259.e4. doi: 10.1016/j.neuron.2019.01.026.
26 Zachary Systems Neuroscience CRAR 2019 CRAR Mainen How brains use perceptual Brain Research Models Regions Methods information to create and act Rat Cortex Optogenetics; Theory; Mouse Raphe nuclei Behaviour; on models of the world, the Human Electrophysiology role of confidence, uncertainty
Postdoctoral Researchers and neuromodulators in these Cindy Poo Fanny Cazettes Gautam Agarwal processes Guido Meijer Hanne Stensola 1 Julia Huntenburg Until recently, most research on cognitive Mattia Bergomi 1st person phenomena, such as perception and Romain Ligneul experience ? decision-making was done mainly in human Tor Stensola and non-human primates. Together with a handful of colleagues, Mainen, head of PhD Students the System Neuroscience lab, has helped Baylor Brangers (Co-Sup to show that rodents, in fact, share many with Susana Lima) It’s a face! of primates’ cognitive abilities. Indeed, in Pietro Vertechi It’s a circle! 2008, his lab was the first to discover neural Dario Sarra activity that reflected decision confidence Kcénia Bougrova in any species, a feat that was done in rats. Madalena Fonseca (Co-Sup 2 Though research projects with human with Noam Shemesh) 2nd person Solène Sautory (Co-Sup data subjects have more recently started in MEG recordings the lab, this approach still dominates the with Leopoldo Petreanu) pupillary dilation Tiago Quendera (Co-Sup Systems Neuroscience lab today, where with Albino Oliveira-Maia) rodents are the stars, allowing the use of 3 advanced genetic and molecular tools or MSc Students 3rd person not available in humans and non-human José Miguel Teixeira data primates. Using these tools, the team is able João Morais to combine multiple techniques, which allow them to record and manipulate the neural Senior Technicians circuits that control confidence and decision- Olivier Winter making in relevant brain regions, such as the Niccolo Bonacchi cortex and the midbrain. The team places a major focus on the midbrain serotonin Research Technicians system, which they believe to play a key Eleni Smaradgi Experiments in cognitive science using human subjects rely on role, along with other neuromodulators, in Inês Laranjeira first-person experience, even if they try to reduce its inherent regulating learning and decision-making. Lucas Soares subjectivity by operationalising it with more objective third-person Theory and modelling are also a vital Megha Patwa methods (EEG, pupil dilation, etc.). Still, experiments depend on component of the work done in the lab “In 2019, the Wellcome Trust awarded Beatriz Godinho the reports through which subjects, acting as sensors, intentionally because of the inherent complexity involved. the International Brain Laboratory (IBL) Margarida Duarte communicate their experience to the experimenter. Rigato, Rennie 10 Million BP. These generous funds will and Mainen argue that the importance of these reports, which they The members of the Systems Neuroscience support IBL in its effort to understand Intern lab are a diverse group, with backgrounds Sofia Morou name second-person methods, should be acknowledged. brainwide circuits for complex behaviour. ranging from biology to mathematics, The consortium counts with 21 labs Lab Manager engineering and even philosophy. Lab around the world, including ours. We are Catarina Pimentel mainenlab.org members also count on collaborations with looking forward to the next phase of this many groups at the CR. challenging and exciting endeavour."
28 Marta Behavioural Neuroscience CRAR 2019 CRAR Moita Defensive and social Brain Research Models Regions Methods behaviour Rat Amygdala Development of Fruit fly Auditory thamalus behavioural tasks; Cortex Genetics; Optogenetics; Physiology to study neuronal circuits
Postdoctoral Researchers Andreia Cruz Anna Hobbiss (Co-Sup with Cesar Mendes, CEDOC) Clara Ferreira Natalia Barrios Once a threat is detected animals Ricardo Neto Silva need to choose the appropriate action. Ricardo Zacarias While the action displayed by an animal depends on several factors, there is little PhD Students understanding of how the choice between Matheus Farias different defence strategies is made. Mirjam Heinemans For example, the existence of a refuge nearby may dictate the escape strategy Research Technicians deployed by the prey. Another factor that Catarina Mendes (MSc plays a crucial role in regulating defensive student) responses is the social environment. Sofia Silva (MSc student For instance, many times defensive and Fly platform tech) behaviours are carried out at the level of Rui Gonçalves the population, such as shoaling in fish. Once a defensive behaviour is selected a number of physiological changes implement its execution, from changes in Motion signal muscle activity to changes in heart rate “In 2019 the results of one of the projects (speed x ) and mobilization of energy. of the lab were published in a preprint. In this study, we investigated which factors To address the question of the neural influence the response of animals to social mechanisms of defence against an cues that communicate the existence of external threat, the Behavioural a threat, such as the freezing behaviour Neuroscience lab uses the fruit fly as a displayed by other individuals. We model system. It’s amenable to the search demonstrated that personal experience for the neural mechanism of behaviour, significantly influences the response and it allows the study of the behaviour of displayed by an individual to social cues. In this experiment, the freezing response of a group of flies to a large groups of individuals. This is the ideal We believe that this insight provides a threatening stimulus (an expanding dark circle) was tested. The model system due to its large collection framework to study how the neural circuits more threatening events happened, the longer the flies took to of powerful genetic tools, a rapidly involved in the self-experience of defensive move again. This pattern suggests that the level of activity reflects increasing number of approaches to study behaviours overlap with the ones involved the level of safety. Specifically, in groups, the movement of others neural circuits, and an expanding set of in socially triggered defensive behaviours." can constitute a cue of safety leading to further activity. This behavioural paradigms. Therefore, the schematic illustrates the experimental setup, and how the motion team is developing assays to dissect the signal is calculated. mechanisms of choice and implementation Freezing displayed by others is a learned cue of defensive responses in Drosophila. of danger resulting from co-experiencing fchampalimaud.org/researchfc/groups/ own-freezing and shock. Andreia Cruz, Mirjam grupo-behavioral-neuroscience Heinemans, Cristina Marquez, Marta A. Moita doi: https://doi.org/10.1101/800714
30 Michael Vision to Action CRAR 2019 CRAR Orger Determine the principles on Brain Research Models Regions Methods which sensorimotor circuits are Zebrafish Whole brain High-speed behaviour tracking; 2-photon calcium imaging; organised and reveal how activity Light-sheet microscopy; Optogenetics dynamics unfold throughout the
Postdoctoral Researchers whole brain during behaviour Adrien Jouary (Co-Sup with Christian Machens) Raquel Jacinto Sabine Renninger The Vision to Action lab uses a combination PhD Students of advanced optical, genetic and Antonia Groneberg behavioural methods in zebrafish. In (Co-Sup with Gonzalo Group raised recent years, zebrafish have emerged de Polavieja) as an attractive model system, as they António Lucas Martins exhibit a robust set of instinctive visually Elena Hindinger guided behaviours, while their brain, which Jens Bierfeld follows a typical vertebrate pattern, is Joaquim Contradanças sufficiently small and transparent so that Rita Félix (Co-Sup with researchers can non-invasively image the Megan Carey) activity of each of its neurons. Specifically, the team visualises changes in levels of MSc Student calcium ions, a marker of neural activity, Pedro Tomás Silva while performing high-speed behavioural tracking to make a detailed, quantitative Senior Technicians analysis of visually-evoked swimming Aaron Ostrovsky and eye movements. In addition, the team Edite Figueiras develops genetic tools in order to probe and manipulate defined circuit elements Research Technicians with high specificity. Adinda Wens Isolation raised Alexandre Laborde Recently, the team has developed a Bernardo Esteves high-speed, real-time tracking system Rita Esteves that has allowed them to systematically Sofia Freitas characterise the swimming behaviour of Lucas Soares zebrafish larvae in response to a variety of different stimuli. Using a computational Intern approach to behaviour classification, “Along with 12 other researchers across Elisa Morbiato called unsupervised machine learning, Europe, we secured funding for the Zebrafish they have identified a core set of swimming Neuroscience International Training Hub Responses of zebrafish larvae to lateral line inputs depend on movements and demonstrated how they are (Zenith). The aim of ZENITH is to train a new social experience. Each line shows the trajectory of a swim bout in used flexibly across different behaviours. generation of neuroscientists in cutting-edge response to a water vibration. Each line type (smooth, dotted, etc.) approaches that bridge biology, physics and represents a different kinematic category. mathematics to uncover the mysteries of brain formation and function. The ZENITH PhD program will train 15 students, hosted fchampalimaud.org/researchfc/groups/ by 13 laboratories, who will undertake grupo-vision-to-action collaborative projects that address major questions in neuroscience."
32 Joe Paton Learning CRAR 2019 CRAR Learning, decision-making Brain Research Models Regions Methods and cognition Rodent Basal ganglia Behaviour; Thalamus Neurophysiology; Frontal areas of the Calcium imaging; cerebral cortex Optogenetics; Mathematical modelling
Postdoctoral Researchers Bassam Atallah Cristina Domnisoru Georg Raiser Tiago Monteiro The Learning lab studies how information PhD Students about dynamic, internal variables can Bruno Cruz be encoded across networks of neurons “In 2019 we completed a study where we Gonçalo Guiomar (Co-Sup Thy1 Sst and how that information is transformed detailed how the two main projection cell with Christian Machens) by the circuitry of the basal ganglia into types in the striatum contribute to distinct Margarida Sousa Cortex adaptive behaviour. One of the lab’s aspects of motor control and action Mauricio Toro contributions to the field was the discovery selection. Specifically, using a combination A2a Filipe Rodrigues that information about elapsed time can of calcium imaging and opotgenetic Renato Sousa (Co-Sup with ChAt Thalamus be encoded in a wave-like activity pattern manipulations during a carefully designed Rui Oliveira, ISPA & CR) PV D1R Npas1 that travels across populations of neurons behavioural task, we found that indirect ChAt PV within a brain region called the striatum. pathway projection neurons are activated Research Technicians Striatum An additional discovery made by the lab by and necessary for the proactive Ben Zarov GPe STN DAT SNc showed that subjective time perception suppression of specific actions. These Daniela Domingues can be directly controlled by manipulating neurons are preferentially lost in the early GPi Margarida Pexirra the activity of dopamine neurons within stages of Huntington’s disease, wherein SNr a brain structure called the substantia patients exhibit uncontrolled movements nigra in mice. The loss of these neurons is called chorea. In contrast, we found that the major contributing factor to symptoms direct pathway neurons were not activated of Parkinson’s disease, a condition which by action suppression and inhibiting them is known to be associated with impaired had no effect on action suppression or timing capabilities in patients. selection, but rather disrupted the vigor with which actions were produced. Another Other projects in the lab target genetically major neurological disorder of the basal and anatomically targeted cell types ganglia, Parkinson’s disease, is associated across the basal ganglia, thalamus and with a slowing of movement called frontal areas of the cortex. These frontal bradykinesia. Thus, our work maps distinct areas specifically are optimal sites for symptoms of neurological disorders onto studying timing behaviour as they are specific cell types within the basal ganglia. thought to be involved in the association of experienced positive outcomes with This study was recently published as a Schematic showing a sample of genetically modified mouse lines the choices and actions that have led to preprint in bioRxiv, and is currently under that label specific cell types within cortico-basal ganglia circuitry. them, or in other words, creating a mental revision in a peer-reviewed journal." The lab uses these mice to monitor and manipulate targeted connection between causes and positive neurons to understand how the circuit operates in the control effects. A deeper understanding of these of behaviour. areas could have far reaching implications Dorsolateral striatal circuits support broadly for grasping how people function in both opponent aspects of action suppression healthy and pathological conditions such and production. Bruno F. Cruz, Sofia Soares, patonlab.org as addiction or Parkinson’s disease. Joseph J. Paton. bioRxiv. doi: https://doi. org/10.1101/2020.06.30.180539.
34 Leopoldo Cortical Circuits CRAR 2019 CRAR Petreanu How the brain builds Brain Research Models Regions Methods a representation of the Rodent Visual cortex Imaging; Electrophysiology; Behaviour environment from sensory stimuli
Postdoctoral Researcher Camille Mazo
PhD Students Gabriela Fioreze Hedi Young The Cortical Circuits lab applies a Marina Fridman Cell 1 Cell 2 structure-to-function approach to Oihane Horno (Co-Sup understand the neural basis of visual with Christian Machens) perception. The researchers use optical Radhika Rajan and electrophysiological techniques to Rodrigo Dias study the wiring logic of cortical circuits Solene Sautory (Co-Sup in areas that are required for visual with Zachary Mainen) perception in rodents. The team applies Marie Fayolle advanced optical methods to map the Beatriz Moura connectivity of axons that link distant areas of the neocortex with unprecedented Research Technicians detail. They also measure the activity Margarida Baeta of the same circuits in mice performing Beatriz Belbut perceptual tasks using two-photon imaging, high-density microelectrode arrays and whole-cell recordings.
This combined approach allows the researchers to understand both the computations implemented by cortical circuits as well as how they emerge from the underlying neuronal network. They are “In 2019, we published a preprint about a testing to what extent conserved circuits study focusing on the inter-connectivity rules motifs perform similar computations across of neurons in the visual cortex of mice. Our the neocortex and how sensory evidence results reveal distinct circuitry architecture and internal factors are combined to build a that supports a role of these circuit elements coherent model of the world. in hierarchical recurrent computations.
Another highlight is the graduation of Marina Fridman, a doctoral student in the The strength of distant cortical inputs onto two different neurons lab, who successfully defended her thesis, in the mouse visual cortex (each neuron projecting to a different titled: ‘Contextual modulation of visual area) is illustrated here by dot-density (higher density dots thalamocortical circuits’.” correspond to stronger inputs).
Laminar-specific cortico-cortical loops in mouse visual cortex. Hedi Young, Beatriz petreanulab.org Belbut, Margarida Baeta, Leopoldo Petreanu. bioRxiv. doi: https://doi.org/10.1101/773085
36 Alfonso Circuit Dynamics & Computation CRAR 2019 CRAR Renart Identifying the specific Brain Research Models Regions Methods computations underlying flexible Rodent Auditory Cortex Behaviour; Human Prefrontal Cortex Electrophysiology; Analysis; Theory sensory-and memory-guided decisions and describing their
Postdoctoral Researcher Mid/Superficial units implementation in terms of the 0.3 Davide Reato /unit 2 dynamics of populations of neurons PhD Students
João Afonso DPrime Juan Castiñeiras Mafalda Valente 0.2 Raphael Steinfeld Tiago Costa (Co-Sup with Gonzalo de Polavieja) The Circuit Dynamics and Computation Frederico Severo (Co-Sup lab is interested in identifying generic with Noam Shemesh) 0.1 Stimulus principles underlying decision making, Response both at an algorithmic level, and ultimately Research Technicians in terms of their implementation in the André Monteiro brain. Their current work revolves around 0 0.2 0.4 0.6 Time (s) Christina Juhlin three lines of research: Ricardo Monteiro (i) the neural basis of classic 0.3 Deeper units psychophysical regularities — which /unit
MSc Students 2 provide quantitative signatures of Ildefonso Pica perceptual decisions; (ii) normative models Íris Damião of perceptual choice; (iii) how different DPrime aspects of the dynamics of cortical Undergraduate Student 0.2 circuits — such as their overall level of Miguel Bengala synchronization or the interplay between different cortical layers — impact sensory discriminations.
0.1 The lab seeks for experimentally Stimulus accessible consequences of these Response computational principles. Their research strategy places emphasis on exploiting 0 0.2 0.4 0.6 Time (s) manipulations and analysis of behaviour in order to specify the computations underlying a particular task. They also Responses of neurons in the auditory cortex of a mouse performing seek to relate these computations and the a delayed frequency discrimination task. Although neurons in both activity of neural populations recorded “In 2019, the lab was very active in terms the mid/superficial and the deep layers represent the identity of the using large-scale electrophysiology. of dissemination. We presented our work sound during sound presentation (dotted rectangle), this information in the Advanced School for Modeling decays in time. Neurons in the deep layers represent the upcoming of Behaviour (Barcelona, September), response of the mouse during the delay period. the Predictive Brain Conference (Marseille, September), the US Society for Neuroscience (Chicago, October) and the renartlab.org International Society for Psychophysics (Antalya, November)."
38 Carlos Behaviour and Metabolism CRAR 2019 CRAR Ribeiro The neural mechanisms Brain Research Models Regions Methods of nutrition Fruit fly Whole brain Neurogenetics; Optogenetics; Neuroanatomy; Molecular biochemistry; Nutritional & microbial manipulations; Behaviour
Postdoctoral Researchers Daniel Münch Darshan Dhakan Gili Ezra-Nevo Ibrahim Taştekin Silvia F. Henriques To study the neural mechanisms of nutrition, Zita Carvalho-Santos the lab uses the fruit fly, one of the most Raquel Barajas-Azpeleta powerful and versatile genetic animal model currently available due to its long PhD Students history of important contributions to Dennis Goldschmidt medicine and our understanding of biology. Patrícia Francisco The fruit fly allows researchers to combine a wide array of tools and approaches: Research Technicians genetic circuit manipulations, activity Célia Baltazar imaging, automated quantitative methods Lúcia Serra for studying behaviour, microbiome Rita Figueiredo manipulations and tissue-specific large scale RNAi screens. Team members use Fulbright Scholar these tools to implement an integrative Brittany Petros neuroscience approach, necessary to solve this whole-organism problem. Visiting Scientist Teiichi Tanimura When animals lack specific nutrients they (Nagoya University) develop a craving for food containing them. The mechanisms in the brain driving Lab Manager animals to choose foods with nutrients Ana Paula Elias their bodies need are largely unknown. To investigate this important question, the team developed a new behavioural setup called the “optoPAD” with which they can create “virtual taste realities” for flies. "optoPAD" combines advanced optical and genetic techniques The flies had been genetically engineered with touch-screen technology to monitor and control feeding to express light sensors in sweet or bitter behaviours and taste sensations in fruit flies. This schematic cells on their “tongue”. The researchers “Disseminating our work to a wider shows the "optoPAD" system, which is based on the use of closed- used light to stimulate these taste neurons audience is an important goal for us. loop capacitance measurement of feeding, with optogenetic when the animal touched specific food We were therefore extremely honored manipulation of neurons in behaving flies. The interaction of the patches making it believe that the food to have our work featured in an ARTE fly with the food source triggers the activation of the LED, which contained specific nutrients. This open- documentary on the effect of food on the controls the activity of specific neurons in the brain of the fly. source technology opens new avenues brain. In ‘Eat Yourself Smart and Happy’ The image was adapted from: Moreira et al. 2019. for dissecting the brain processes driving we join a group of experts from around the nutrient specific cravings. world to discuss how we use Drosophila at the Champalimaud Foundation to explore ribeirolab.org the impact of food and the microbiome on our eating decisions."
40 Maria Luisa Innate Behaviour CRAR 2019 CRAR Vasconcelos Identification of the neural Brain Research Models Regions Methods circuits and mechanisms that Fruit fly Whole brain Optogenetics; Imaging; Behaviour; Genetics control innate, or instinctive, behaviours
Postdoctoral Researcher Cecilia Mezzera
PhD Students Cristina Ferreira Eliane Ochôa Arez To dig down into the neural circuitry of Miguel Gaspar innate behaviour, the Innate Behaviour lab focuses on two main behaviours – the Research Technician relatively simple avoidance of a repulsive Sophie Dias odour and the more intricate courtship behaviour. Both behaviours are studied in the fruit flyDrosophila melanogaster, a powerful model system that offers a wide range of advanced techniques. These include genetic manipulations to help identify which neurons are involved in specific behaviours, optogenetic tools to monitor the activity of neurons, and highly detailed video monitoring to establish the most precise relationship between behaviour and neural activity.
Using this combined approach, the team was able to establish a direct link between neural activity and behaviour, when they discovered a group of neurons (called apterous neurons) that have direct control “In 2019 we published our work over sexual receptivity in female flies. demonstrating that the lateral horn When the researchers silenced these mediates innate olfactory responses. We particular neurons, females significantly used a behavioural experiment in which reduced their receptivity towards males. fruit flies avoid carbon dioxide to test the Besides, they were able to pinpoint a involvement in this response of different specific behavioural hallmark that was neurons in the lateral horn. We found affected - the walking pace of the female. that two sets of neurons mediate carbon Together, these results represent an dioxide response. These neurons do not Optogenetic activation of descending neurons induces ovipositor important step towards gaining a better mediate the avoidance response to the extrusion. A schematic of a fly nervous system with descending understanding of the neural mechanisms other aversive odors tested, indicating neurons labeled in black. that control female receptivity. For the next selectivity for carbon dioxide." step, the team is trying to pin down the neural circuitry these neurons tap into to find out how they exact this powerful effect Avoidance response to CO2 in the lateral horn. on the behaviour of the female. Varela N, Gaspar M, Dias S, Vasconcelos ML. vasconceloslab.org PLoS Biology. 17(1):e2006749. doi: 10.1371/ journal.pbio.2006749.
42 Bruno Systems Oncology CRAR 2019 CRAR Costa-Silva How the exchange of Region Research Models of Interest Methods extracellular vesicles, a Mouse Whole organism Flow cytometry; Cell culture; Animal models of natural form of communication cancer in the body, can be utilized by
Postdoctoral Researchers cancerous tumours for growth Ana Gregório Silvia Baptista and metastasis PhD Students Christine Semira Joana Maia Julia Elzanowska Nuno Couto The general interest of the Systems Senior Research Oncology lab is to understand how the Technician crosstalk between tumour cells and Christian Bodo non-tumour cells supports or prevents oncologic disease. Specifically, the lab Research Assistant studies how the exchange of extracellular Maria Carolina S. Moraes vesicles, a natural form of communication in the body, can be utilised by cancerous Visiting Scientist tumours for growth and metastasis. Recent Andreia Otake results from the team have shown not only that these vesicles are different in cancer patients, but also that they can activate healthy cells at remote locations to support tumour metastasis.
Following these results, the lab currently focuses on developing animal models of tumour initiation, progression and metastasis, in combination with the characterisation of extracellular vesicles isolated from tumour cell lineages and oncologic patients with diverse clinical profiles. By using this approach, the lab aims to gain a mechanistic understanding We showed the application of a new technology to the follow-up of this form of communication with the end of the response of pancreatic cancer patients to chemotherapy. goal of developing tools for early detection, “The Flow Cytometry strategy developed Reduction in the plasma levels of specific extracellular vesicles follow-up and treatment of cancer. in our group enables detailed population populations identified in our lab were linked to positive analysis of extracellular vesicles. When responses to therapy, while increment of these populations compared to conventional methods, it correlated with loss of response. This illustration depicts the decreases sample volume requirements characteristic data obtained with this method. while substantially reducing the overall processing time. By doing so, it multiplies by hundreds of times the number of different costasilvalab.org analytes that can be studied from a single collection of biofluid."
44 Eduardo Cell Fitness CRAR 2019 CRAR Moreno The mechanisms by which Region Research Models of Interest Methods cells of multicellular Human Epithelial Genetics; Mouse and neuronal tissue Microscopy; Fruit fly Live imaging animals perform fitness detection and selection
Postdoctoral Researchers of neighbouring cells Ana Cristina Queirós Catarina Brás Pereira Dina Coelho Da Silva The group studies the mechanisms of cell Mario Aguilar competition in processes such as ageing, development, tissue regeneration and cancer. PhD Students Work from the team has provided significant Andrea Spinazzola insight into these mechanisms, including Andrés Gutiérrez the identification of “fitness fingerprints”, a Denise Camacho molecular code used by cells to exhibit their Irene Argudo fitness level. According to their findings, Maria Bettencourt fitness fingerprints allow neighbouring cells Maria Carolina Rodrigues to recognise and eliminate less-fit cells. The Mariana M. dos Reis team showed that this process happens during ageing, regeneration and cancer. MSc Students Specifically, they found that fitness-based Antonio Palma cell selection could be manipulated to delay “During 2019 my team and I have found new Catarina Costa ageing and tissue fitness decay as well as to pathways regulated by mechanical forces Leonor Peixoto prevent the expansion of cancer (cancer cells (Moreno et al., Curr. Biol., 2019) and the role of often exhibit themselves as “superfit” cells, fitness fingerprints in human cancer (Madan Research Technicians which leads to the elimination of healthy cells et al., Nature, 2019). Our results show that Joana Couceiro around them). A new type of competition ancient mechanisms of cell recognition and Miguel Pinto was discovered and named “mechanical selection are active in humans and affect Pedro Durão competition” in which a high density of cells oncogenic growth. The Madan et al. study leads to compression of tissue and thereby was selected as one of the best discoveries Interns to cell elimination. They are currently in of the year by the European Association of Inês Ribeiro the process of testing whether mechanical Cancer Research (EACR)." Nuno Gouveia competition is important for tumour Nuno Valério expansion into healthy tissue. Sofia Martins Competition for space induces cell elimination Work in the lab is done in the fruit fly animal through compaction-driven ERK downregulation. Visiting Scientists model, where they apply advanced genetic Moreno E, Valon L, Levillayer F, Levayer R. Current Esha Madan techniques to manipulate the functions of Biology. 29(1):23-34. doi: 10.1016/j.cub.2018.11.007. Rajan Gogna genes related to cell fitness, in combination with microscopy and live imaging. The team Flower isoforms promote competitive growth in This illustration represents a pupal brain of Drosophila in a studies epithelial tissue, which is known to cancer. Madan E, Pelham CJ, Nagane M, Parker scenario where competition is blocked by knocking-out azot, give rise to 95% of cancer types, including TM, Canas-Marques R, Fazio K, Shaik K, Yuan the “fitness checkpoint”. Circles represent neurons. Filled circles breast, lung and skin cancer. They also Y, Henriques V, Galzerano A, Yamashita T, Pinto are azot-expressing neurons that were marked to die, but have study the role of fitness-based cell selection MAF, Palma AM, Camacho D, Vieira A, Soldini not, because azot was blocked. among neurons during brain development, D, Nakshatri H, Post SR, Rhiner C, Yamashita H, neurodegeneration and brain ageing. Also, Accardi D, Hansen LA, Carvalho C, Beltran AL, they have recently started studying the Kuppusamy P, Gogna R, Moreno E. Nature. 2019 moreno-lab.org conservation of the process in human cells Aug;572(7768):260-264. doi: 10.1038/s41586- and mouse models. 019-1429-3.
46 Christa Stem Cells and Regeneration Lab CRAR 2019 CRAR Rhiner How adult stem cells can switch Region Research Models of Interest Methods from being dormant to actively Fruit fly Entire brain Genetics; RNA-sequencing; Confocal microscopy; dividing in situations relevant Behavioural assays for tumour formation or tissue
Postdoctoral Researcher regeneration after injury Marta Neto
PhD Students Anabel Rodriguez Simões Mariana Santos The Stem Cells and Regeneration lab is interested in isolating the factors that MSc Students bring about the activation of adult stem Andreia Augusto cells during tissue regeneration after injury Margarida Caio or tumour formation. To that end, the team studies the molecular mechanisms through Research Technician which neural stem cells are activated and Carolina Alves produce new nerve cells in the adult brain.
The methods utilised in the lab include genetics, RNA-sequencing, high-end confocal microscopy and behavioural assays to test recovery of neural function. The team applies these methods in the adult fruit fly brain, within a region called the optic lobe.
Recent work from the lab has resulted in the discovery of damage-responsive stem cells in this area and the identification of several candidate genes that are thought to underlie this process. Currently, the team is characterising these genes while concurrently working on identifying other brain regions that are able to regenerate. Ultimately, the team’s discoveries may lead to new therapies to facilitate tissue “In 2019 we set-up and optimized the repair, such as brain regeneration after procedures to isolate small populations This schematic shows a phase in a programme that drives stroke, and preventing dysregulated stem (200-300 cells) of dividing cells from the neural stem cell activation upon brain injury. In this phase, cell proliferation that may lead to tumour adult fly brain, which gives us access to we isolated regenerating cells after traumatic brain injury formation. the gene expression profiles of rare stem from dissociated adult fly brains. In the following phase, we cell population and their progeny at the performed RNA sequencing to identify early signatures which population and single cell level. The crucial can switch on dormant neural progenitor cells that are capable points in the workflow consist in preparing a of forming new neurons in the damaged brain area. single cell suspension of intact neurons, glia and other cells from freshly dissected and dissociated brains and sort the cells by in rhinerlab.org house Flow Cytometry within a short time to obtain native expression patterns."
48 Adriana Cancer and Stem Cell Biology CRAR 2019 CRAR Sánchez Danés Understand the mechanisms Region Research Models of Interest Methods involved in pediatric and adult Rodent Skin Clonal analysis; Human Brain Transcriptomics; Genetic mouse models cancer progression of cancer; Organoids and imaging techniques
Lab Manager Raquel Gonçalves
Most tumours are heterogeneous at the cellular and (epi)genetic levels. This heterogeneity has been proposed to be responsible for tumour progression, metastasis and resistance to therapy. The goal of the Cancer and Stem Cell Biology Lab is to understand the contribution of the different tumour cell populations and genetic alterations to cancer progression and response to therapy.
The team pursues this goal by combining genetic lineage tracing, clonal analysis, imaging techniques, tumour organoid cultures and functional experiments in vivo and in vitro. Specifically, the researchers use the most frequent human cancer – basal cell carcinoma – and one of the most common pediatric cancers – medulloblastoma – as the models for their studies.
This illustration represents basal cell carcinoma tumours (black) in the skin. These tumours can arise upon the deletion of the “I was delighted to integrate my lab in the Ptch1 gene. Champalimaud Physiology and Cancer Research Programme in late 2019 (via the ERA Chair project QuantOCancer) and look forward to showcasing our research and fchampalimaud.org/researchfc/groups/ building collaborations. New lab members - grupo-cancer-and-stem-cell-biology technicians and postdocs - will be joining the lab in February 2020. Welcome!”
50 Henrique Immunophysiology Veiga-Fernandes CRAR 2019 CRAR The role of cross-talk between Region Research Models of Interest Methods neurons of the peripheral Rodent Mucosal barriers, Genetic; Molecular such as the intestine and cellular and the lungs approaches; Flow nervous system and the immune cytometry; Confocal microscopy; In vivo models of disease system in the prevention and
Postdoctoral Researchers resolution of disease Cristina Godinho da Silva David Brea-Lopez Julie Chesné Manuela Ferreira María Martínez The Immunophysiology lab explores the Marko Sestan role of cross-talk between neurons and Rita Domingues the immune system in the prevention and Roel Klein Wolterink resolution of disease. To that end, the team Roksana Pirzgalska mainly focuses on mucosal barriers, such as the intestine and the lung. These organs PhD Students are in permanent contact with the external Ana Filipa Cardoso environment and have a complex and Kristin Fischer dense network of neuronal and immune Miguel Rendas cells. This combination of features makes Rita Domingues these organs an optimal site to reveal Vânia Cardoso how the neural and immune systems work together to preserve health. Research Technicians Bruno Raposo Using this approach, the lab has recently Ericka Dinis revealed a surprising role of the neural Ines Godinho network that surrounds these organs: Sara Correia immune regulation. The team discovered that while the immune system is the MSc Students one that actively fights infection, the Ana Beatriz Rasteiro neurons are the ones that are in charge Gonçalo Malpica of detecting the invasion and setting the “We found that circadian-controlled Raquel Silva immune response in motion. These findings neuroimmune circuits operate at an Raquel Soares may have tremendous potential in the organismal level to regulate the function of design of novel therapeutic approaches group 3 innate lymphoid cells (ILC3s), shaping Visiting Scientists to disease as they pinpoint new selective intestinal health and lipid metabolism, in mice. David Malta targets that can be harnessed in allergy, Patrícia Bastos inflammation, obesity and cancer. Our findings shed light into how Carolina Duro environmental cues, such as light/dark Liliana Correia cycles, impact on immune cell function and This schematic represents neuron-labeling of the mouse tissue physiology.” Lab Manager suprachiasmatic nuclei - the brain region that controls the Hélder Ribeiro organism’s circadian rhythm. Different shapes (circles and bars) Light-entrained and brain-tuned circadian represent neurons labeled for different cell markers. circuits regulate ILC3s and gut homeostasis. Administrative Assistant Godinho-Silva C, Domingues RG, Rendas M, Vasco Correia Raposo B, Ribeiro H, da Silva JA, Vieira A, Costa RM, Barbosa-Morais NL, Carvalho T, Veiga- veigafernandeslab.org Fernandes H. Nature. 2019 Oct; 574(7777):254-258. doi: 10.1038/s41586-019-1579-3.
52 Mireia Molecular and Experimental Pathology CRAR 2019 CRAR Castillo-Martin Identification of molecular Region Research Models of Interest Methods signatures in neoplastic cells Human Pancreas Cell cultures; Tumour xenografts; Immunohistochemistry; and characterization of immune Multispectral microscopy; Flow cytometry; comparative pathology infiltrates in different carcinomas
Research Assistant with the aim to develop novel Javier Martín-Fernández
MSc Students therapeutic options Andreia Maia Inês Franco Isabel Pimenta Susana Dias
Bachelor Student Ana Raquel Borralho
The Molecular and Experimental Pathology Lab has the main goal of studying tissue specimens by using state-of- the art technologies. On one side, the research focus is the characterisation of specific molecular signatures in human cancer tissue specimens by combining “During this last year I have established genomic and phenotypic information, different collaborations with other basic merging tumour mutational status with investigators inside the Champalimaud multispectral immunofluorescence Centre for the Unknown and from other expression results. On the other side, countries to develop novel multiplex the team aims to study the immune immunofluorescence panels to be analysed cells in the tumour microenvironment with the multispectral microscope. in order to understand the mechanisms of immunescape and to develop novel We have also worked on the improvement therapeutic approaches to overcome it. of immunostaining and clearing techniques We have recently developed a new method of formalin-fixed paraffin embedded (FFPE) for 3D imaging analyses of thick tissue tissue blocks, in order to produce 3D images specimens with the idea of improving the of human pancreatic ductal adenocarcinoma knowledge of spatial distribution of tumour specimens. Put together, these two cells and surrounding microenvironment. methodologies may completely change the An illustrative representation of a 3D image of human way we look at tissue specimens opening new pancreatic intraepithelial neoplasia (upper-right) and adjacent insights in histopathology analyses. ductal adenocarcinoma (left) from a representative Formalin- fixed paraffin-embedded tissue block. Areas rich in molecules At the end of 2019, we have submitted characteristic of tumour cells (CK19 and AGR2) are represented the study of Andreia Maia’s master thesis by circles and bars (respectively). Areas of overlap are for publication and it will be published represented by squares. soon in Clinical Cancer Research. In this manuscript we describe the importance fchampalimaud.org/researchfc/groups/ of ΔNp63 and AGR2 in the progression of grupo-molecularexperimentalpathology non-muscle invasive bladder cancer and their clinical implications.”
54 Durval Radiopharmacology CRAR 2019 CRAR C. Costa Improvement and Region Research Models of Interest Methods dissemination of Human Multiple organs Quantitative radiopharmaceutical imaging (SPECT and radiopharmaceutical-based PET/CT); Algorithms for radiation dosimetry diagnostic and therapeutic
Mathematician approaches in research and Francisco Oliveira
Physicists medicine Paulo Ferreira Rui Parafita
Researcher Sílvia Almeida Pharmaceutical Chelator Radionuclide Pharmacist Ana Capacho The clinical use of radiopharmaceuticals PhD Students for SPECT (Single Photon Emission Carla Oliveira anti-PD-L1 DTPA Indium-111 Computed Tomography) and PET Sara Ferreira (Positron Emission Tomography) is based on the pharmacodynamics MSc Students and pharmacokinetics properties of N HO HO Claudia Constantino NN radionuclide labelled molecules. The Miguel Andrade O N O cellular and sub-cellular specific binding “The Radiopharmacology lab is linked to Mariana Silva 3HCI of radiopharmaceuticals helps in the O all the ongoing activities within the Nuclear Rita Oliveira diagnosis and therapy of several diseases Medicine clinical service. For that reason, NCS by identifying the functional abnormality we call ourselves “Nuclear Medicine- Research Technicians within tissues and cells. Radiopharmacology”. Our ultimate aim is Ana Canudo to provide a diagnostic and therapy service Bárbara Freitas SPECT and PET imaging processing and of excellence and try to organise research Helena Delgado analysis are crucial to obtain meaningful and new developments related to the use Juliana Correia and quantitative data to classify disease of radiopharmaceuticals. We cooperate Mariana Silva stages and assess response to therapy with other departments at CF as well as with Marisa Machado regimens. The Radiopharmacology team external institutions to pursue our goals. So far, Rita Oliveira is dedicated to developing and using during the 8 years in which the lab has been Sandra Chaves new radiopharmaceuticals, to improving running, we have been successful in securing Sónia Teixeira PD-L1 is a molecule that is present in some populations of radiation dosimetry incumbent to the use of more than 2M€ of research-grant funds. Miguel Andrade tumour cells and has been the target of certain immunotherapy internal radiation sources, and to improve treatments. This diagram outlines the labelling of an anti-PD-L1 processing and analysis by developing Our latest achievement is the successful Nuclear Medicine antibody with a radionuclide. This radiopharmaceutical will allow software to classify and quantify disease grant application under the COMPETE Physicians whole-body in-vivo assessment of tumour PD-L1 expression. due to cellular functional abnormalities. PORTUGAL 2020 funding scheme. The Angelo Silva When its development is complete, it will help determine which goal of the project is to develop methods Joana Castanheira patients are more likely to respond favourably to certain types of to better analyse, classify and quantify Sofia Vaz immunotherapy treatment. PET/CT with radiopharmaceutical data, to Carla Oliveira ultimately improve diagnosis of patients fchampalimaud.org/researchfc/groups/ with Lymphoma and their response to grupo-radiopharmacology treatment. The project started in August 2019 and will end in July 2022."
56 Cancer Development Rita Fior & Innate Immune Evasion CRAR 2019 CRAR Cancer, immunology, Region Research Models of Interest Methods tumour microenvironment Zebrafish Whole body Zebrafish xenografts; Cell biology; Molecular biology
Lab Manager Bruna Costa
Postdoctoral Researchers Marta Estrada Raquel Mendes The Cancer Development & Innate Immune Evasion lab persues two main PhD Students research objectives: Mayra Martinez Vanda Póvoa The first is to develop tools for personalised medicine. Despite advances MSc Students in targeted cancer treatments, we still Ana Varanda lack methods to predict how a specific Micaela Domingues cancer in a specific patient will respond to a given therapy. Consequently, Research Assistants patients go through rounds of trial-and- Cátia Almeida error, to find the best treatment, often Ana Logrado (Co-Sup with subjected to unnecessary toxicity. The lab Cristina João, CR) is developing a system where patient- derived tumour-samples are implanted into zebrafish larvae. These “avatars” are used as sensors for cancer behaviour and personalised therapy screening (Fior et al, 2017). Early results are very promising and the team is currently pursuing this venue of research in various cancer types.
The second goal of the lab is to study how tumours evade the immune system. To thrive, tumour cells employ mechanisms that circumvent the immune response. By “In 2019, I was nominated and elected combining live imaging, genetic and chemical member of the board of the international tools, the team is studying the process of Zebrafish Disease Model Society. This innate immune evasion and intra-tumoral organisation society produces regular clonal interactions using the zebrafish- meetings and also promotes public larvae xenograft model. The researchers awareness of the zebrafish model through believe that understanding the process of outreach initiatives. This illustration represents a zebrafish larvae injected with innate immune rejection/ evasion may lead human cancer cells (in black). to new avenues of anti-cancer therapies Another highlight happened early in 2019, to be combined with immune-checkpoint when our research was featured in the blockers, increasing efficacy rates and taking first issue of the year 2019, of the journal fchampalimaud.org/researchfc/groups/grupo- immunotherapy to more patients. National Geographic. It was part of a cancer-development-and-innate-immune-evasion special issue on ‘How personalised medicine is transforming your health cares".
58 Cristina Myeloma and Lymphoma Research Programme CRAR 2019 CRAR João To improve the diagnosis, Region Research Models of Interest Methods immunophenotypic and Human Blood Clinical studies; Bone marrow Liquid biopsies; Secondary lymphoid miRNA; Proteomics; molecular characterization tissues Cell culture; Computational algorithms of Multiple Myeloma
Postdoctoral Researcher and Lymphoma Emilie Arnault Carneiro
PhD Students Bruna Ferreira Joana Caetano The experimental work of the Myeloma Lymphoma Research Programme includes MSc Student a broad spectrum of research activity, Carolina Pestana where clinical haematologists from the Haemato-Oncology Unit and non- Research Technicians clinical researchers from Champalimaud Filipa Barahona Research, work together to expand their Raquel Lopes knowledge of the biology of mature lymphoid neoplasms and their treatment. Allied Clinical Team Paulo Lúcio, MD PhD Currently, we have several experimental Manuel Neves, MD research projects in collaboration with Sónia Leocádio, MD, PhD research groups including the Systems Student Oncology Group, the Computational Marisa Salgado, Nurse Clinical Imaging Group and the Cancer Teresa Borges, Nurse Development and Innate Immune Evasion “In 2019, our team grew and started Laura Fernandes, Nurse Group. These projects address questions implementing the grant we received from such as mechanisms of progression Fundação para a Ciência e a Tecnologia of Multiple Myeloma, novel methods (FCT), fully establishing the lab as part of of evaluating bone disease, minimal Champalimaud Research. residual disease in multiple myeloma and tailored therapy based on “in vitro” drug We also established additional research sensitivity evaluation. collaborations. Internally, we initiated three research projects supported by internal kickstarters grants (two in collaborations with Nickolas Papanikolaou and one with Rita Fior), thereby expanding our internal relationships with other labs at CR. Externally, we established a close Illustrative 3D representation of different immune cell collaboration with Rune Matthiesen’s populations identified in multiple myeloma using a group at CEDOC. multiparametric flow cytometry approach. Finally, I would also like to highlight communication with the scientific community. We presented our original work at the European Hematology Association fchampalimaud.org/researchfc/groups/ meeting in Amsterdam and at the Portuguese Society of Hematology meeting grupo-myeloma-lymphoma in Braga.”
60 Markus Immunotherapy / ImmunoSurgery CRAR 2019 CRAR Maeurer Developing methodologies Region Research Models of Interest Methods for clinically relevant Rodent Multiple organs Cell culture; RNA & DNA sequencing; Flow Cytometry; Cell-cell targeted immune recognition interaction analysis; Computational techniques; Live cell- cell imaging against cancer
Postdoctoral Researcher Joana Lérias
MSc Students Carolina Condeço João Martins The Immunotherapy / ImmunoSurgery Inês Silva lab is currently setting up a research and clinical structure to offer cellular treatment Research Technicians for cancer patients with a strong pre- Eric de Sousa clinical and clinical interaction to: (i) better Pedro Noronha understand the tumour-host relationship; Georgia Paraschoudi (ii) map each patient’s individual mutational burden and the immunological ‘texture’ Visiting Scientist of the patient’s immune responses Martin Rao (‘adaptomics’ ); and (iii) identify biologically relevant immunological strategies for improved cellular therapy concepts in the treatment of patients with cancer.
“In 2019, The Immunotherapy/Immunosurgery lab has been implementing two experimental platforms for deciphering anti-cancer immune responses and for developing biologically and clinically relevant methods. Namely: (i) micro-dissecting tissue specimens on the single cell level; and (ii) Functional anatomy of immune cell – tumour interactions. The studying cell - cell interaction using ‘live molecular composition of a sample of a pancreatic tumour and microscopy’ that can monitor immune cell the immune cells present in the tissue, is presented. This analysis - tumour interaction continuously from one links the detailed molecular structure of individual immune hour up to an entire week. These methods cells to tumour recognition, that will allow to design biologically can be performed using matched tumour - relevant, targeted immunotherapies. cell line and anti-cancer directed immune cells, or even freshly isolated cancer tissue from biopsies. This approach will aid in fchampalimaud.org/researchfc/groups/ testing which immunological strategy is grupo-immunotherapy-immunosurgery most advantageous for expanding anti- tumour immune response."
62 Albino Neuropsychiatry CRAR 2019 CRAR Oliveira-Maia To advance the understanding Region Research Models of Interest Methods of neuropsychiatric disorders Human Prefrontal cortex Gustatory Mouse Ventral tegmental psychophysics; area Behaviour; Calcium and their treatment Basal ganglia imaging; Optogenetics; Transcranial magnetic stimulation; SPECT
Senior Scientist Ricardo Matias
Postdoctoral Researchers Ana Fernandes Carolina Seybert Julia Queiroz The Neuropsychiatry Unit started in 2013, as Joaquim Alves da Silva an interface between the Champalimaud Clinical Centre and the Champalimaud PhD Students Neuroscience Programme. The team Gabriela Ribeiro combines clinical care and translational Gonçalo Viegas Cotovio research in mental and behavioural health, focusing on topics that are close to the MSc Students research interests of the neuroscience Daniel Silva branch of Champalimaud Research. Francisco Viana Sofia Marques At the Neuropsychiatry Unit, psychiatrists and psychologists both deliver care at the Research Technicians Clinical Centre, and work with other clinical Libat Weizman and non-clinical researchers to deepen Margarida Oliveira knowledge about neuropsychiatric disorders and their treatment. Adjunct Members (Clinic) Bernardo B.Corrêa José Oliveira Jaime Grácio Silvia Almeida Luzia Travado José Maria Bravo Marques
Collaborators Beatriz Costa (Clinical Research Unit) Diana Frasquilho (Breast Unit) “In 2019 we started the NEUROCOMP study, Berta Sousa (Breast Unit) funded by FCT and BBRF. This study involves Maria João Susano Functional connectivity network map of brain lesions associated multimodal assessment of patients with (Anesthesiology Dep.) with mania in patients with secondary bipolar disorder. Across obsessive-compulsive disorder, including Raquel Lemos (ISPA) two different patient cohorts, mania lesions had shared clinical characterisation, behavioural Daniel Houghton (UCP) functional connectivity to the right orbitofrontal cortex, right tasks, neuroimaging and measurements of Eva Nogueira (FPCEUP) inferior temporal gyrus and right frontal pole, that was not inflammatory and immune markers. This Ana Maia (CHLO) observed for control lesions. year we also obtained an H2020 grant from João Ramos (CHLO) the European Commission, that will fund Pedro Rodrigues (CHPL) fchampalimaud.org/researchfc/groups/ a Consortium proposing to use Artificial Tiago Quendera (Mainen) Intelligence to identify early markers of grupo-neuropsychiatry depression in patients with cancer.”
64 Nickolas Computational Clinical Imaging CRAR 2019 CRAR Papanikolaou Development of novel Region Research Models of Interest Methods computational models with Human Multiple organs Modeling of biomedical signals (diffusion, perfusion); Texture a focus on Radiomics and and radiomics analysis on standard of care medical images methods for quantitative
Postdoctoral Researcher Prostate cancer image analysis Eunice Carrasquinha
PhD Students José Maria Moreira João Santinha The current research activities of the Computational Clinical Imaging Group, focus Research Associates on the application of mathematical modeling, João Santinha statistics, and software development to Miguel Chambel support biomedical and clinical research, Ana Castro Verde mainly in the field of medical image processing, visualisation, and analysis. The core research focus of the group is the development of clinically meaningful radiomics signature that will help clinicians Normal prostate tissue on the decision making process regarding disease detection, characterisation, prediction of treatment response and prognostication of clinical outcomes.
“The CCIG has extended the International Radiomics Network by signing new members to the network from France, Austria, Italy, Greece and Sweden acting as a hub, providing radiomics modeling expertise to common projects in the fields of breast cancer, pancreatic cancer, and brain tumours. The network today comprises well known academic hospitals like Huddinge Our Prostate Cancer Detection Model was based on a Karolinska in Stockholm, Sweden, Hopitan Convolutional Network for Classification and Detection and Beujon in Paris, France, Institute Europeo Transfer Learning. It was trained on approximately 30K patches di Oncologia in Milan, Italy and AKH in of digital histopathology images (like the one illustrated above), Vienna, Austria. I was elected as Fellow in providing very high accuracy (94.3%) for automatic detection of the International Cancer Imaging Society prostate cancer. The model was developed in collaboration with and was assigned to organize a single day FC Pathology service (Prof. Antonio Beltran) and was the topic of hands-on workshop for Radiomics starting the master thesis of Mrs Carolina Seabra. from the fall of 2020. As a recognition of the expertize of CCIG, I was invited to be fchampalimaud.org/researchfc/groups/ the section editor on AI, Radiomics and grupo-computational-clinical-imaging-group Machine Learning at the official journal of ICIS, which is Cancer Imaging."
66 Noam Preclinical MRI CRAR 2019 CRAR Shemesh Advanced Magnetic Region Research Models of Interest Methods Resonance at ultrahigh Human Multiple organs Ultrahigh field magnetic resonance imaging (MRI); Functional field for fundamental and microstructural and metabolic imaging; Optogenetics, Behaviour translational research in
Postdoctoral Researchers neurobiology and cancer Andrada Ianus Clémence Ligneul Cristina Chavarrías Julia Huntenburg Rafael Henriques fMRI is a non-invasive, powerful tool Rui Simões for studying various neuroscience and Sónia Gonçalves biomedical questions. Current fMRI Tal Shemesh methods work by performing indirect measures of neural activity by following Visiting Scientists accompanying changes in blood volume Cassandra Sampaio and oxygenation level. However, changes Joana Cabral in blood flow, in addition to being an indirect measure, occur over a timescale of Collaborator seconds, while neural activity occurs within Magda Teles a fraction of a single second.
PhD Students This difference in time scale points out Carlos Bilreiro an obvious limitation of current fMRI Frederico Severo techniques – they are too slow to resolve Inês Santiago many important processes in the brain. To Madalena Fonseca address these issues, the team’s first steps, (CoSup with Zachary for which they have received support from Mainen) the European Research Council, have been Rita Gil focused on developing novel techniques that harness the power and versatility of MSc Students MRI to perform direct measurements of Bárbara Costa neural activity on a much faster timescale. Rita Alves For instance, the team harnesses ultrahigh magnetic fields and diffusion to image the Research Technicians dynamics of (hypothetical) cell swellings Beatriz Cardoso that are known to be coupled with neural Francisca Fernandes activity, as well as neurotransmitter release Ruxanda Lungu in the brain. These various measurements This illustration depics a precancerous lesion in a mouse are performed in-vivo using state of pancreas observed through MRI microscopy. the art 9.4T and 16.4T scanners, in both anaesthetized and behaving rodents.
“Two of my students secured PI positions: Jelle Veraart, who is now an assistant professor in NYU, and Madalena Fonseca shemeshlab.org who joined the University of Oxford as a senior research associate.”
68 Using two-photon imaging of zebrafish larvae brains and neuronal population analysis techniques, we can define and map populations that
CRAR 2019 CRAR carry different types of information. In this illustration, different shapes Research represent subpopulations of neurons related to rotational and translational motion. Associates
CR’s Research Associates Ruth Diez del Corral Eric DeWitt Claudia Feierstein are senior investigators Development of Neural Circuits Computational Cognitive Neural Circuits for Visuomotor who manage independent Decision Science Behaviour projects in association with Associated with the Vision to Action lab particular labs at CR. Team: Mariana Viegas, MSc student Associated with: Systems Neuroscience lab Associated with: the Vision to Action Lab
The nervous system is composed of a large Efficiently learning the costs and benefits of How does our brain use information to select variety of neuronal and glial cell types that different behaviours is necessary for making appropriate behaviours? We address this are interconnected to create functional informed choices and critical to the success of question by looking at zebrafish, a small circuits. The connectivity of neurons is adaptive systems, both natural and artificial. fish which at the larval stage is small and largely established during embryonic Our group is interested in understanding transparent, making it easy for us to peek development when neurons extend this learning and decision making process in into their brains noninvasively. Using state- projections to contact their targets. Most of humans, animals, and groups using theoretical of-the-art microscopes, we can then image the molecular mechanisms implicated in this models to guide behavioural and neural the activity of the whole brain, while tracking process so far, have been identified mainly experiments. Our primary research focus is on their behaviour using high-speed cameras. using cell cultures and their interaction and how choices are made in mammalian brains role in the context of the whole organism is using reinforcement learning as a theoretical We can then ask: how can the larva’s still an open question. framework. Reinforcement learning is a general behaviour, or its sensory environment, theoretical framework that describes how an explain the neuronal activity that we With the use of techniques such as confocal animal or artificial system should (or could) solve measure? In the last year, in collaboration and light-sheet microscopy for whole the problem of choosing the ‘best’ behaviour with the Machens lab, we applied analysis embryo and brain imaging together with in any given situation. By comparing behaviour methods to investigate how large groups transgenic zebrafish strains expressing and neural activity to the predictions of specific of neurons process information. In this fluorescent proteins in specific neuronal reinforcement learning models, we hope to both way, we hope to understand how different subpopulations, we are exploring the improve the models and better understand circuits in the brain contribute to different extension of the early neural projections in the computations of the brain. Our group also processes, from sensation to selection of a the living zebrafish embryo. uses neuroscience to inform and develop other behavioural response. computational and theoretical approaches, like deep reinforcement learning neural networks and behavioural economic models. We are now exploring group learning and decision making, leveraging the computational experimental approach used to study individual behaviour.
The process of extension of We believe in collaborative, cooperative neuronal projections can be science and work with many groups in followed in the zebrafish embryo by imaging specific neurons (grey) Champalimaud Research as well as in other at different times (top, bottom). institutions worldwide.
70 CRAR 2019 CRAR Adjunct Labs
In addition to research labs located at the Champalimaud Adam Kampff Rui Oliveira Centre for the Unknown, Intelligent Systems Social NeuroEndocrinology the research team of CR also Affiliation: The Sainsbury Wellcome Affiliation: Instituto Superior de has adjunct labs, which work in Centre, University College London Psicologia Aplicada & Instituto complementary scientific areas. Gulbenkian de Ciência The goal of the Intelligent Systems lab is to identify the general principles of The main research interest of the Social brain function that support intelligent NeuroEndocrinology lab is the integrative behaviour and to implement them study of social behaviour that combines in machines. Specifically, they the study of proximate causes (gene focus on how the brain constructs a modules, hormones, neural circuits, representation of the environment: How cognitive processes) and ultimate effects is this representation learned? How (evolutionary consequences). In particular, is it encoded in the activity of neural the team is interested in understanding networks? How is it used to control how brain and behaviour can be shaped adaptive behaviour? by the social environment, and how the cognitive, neural and genetic mechanisms underlying plasticity in the expression of social behaviour have evolved.
The Kampff lab is now testing novel devices for simultaneously recording from large populations of neurons throughout the brain.
72 In 2019, CR investigators published CRAR 2019 CRAR
Publications
58 Research Articles
CR’s publications during 2019 mirror the expanding scope of the programme. They include novel insights in fundamental research topics as well as in clinical fields. Many publications are the fruit of collaborative interactions among different groups within the Champalimaud Centre for the Unknown.
29 Review Articles
6 Conference Proceedings Articles
4 International Groups Recommendations
1 Book 4 Book Chapters
74 2
Highlights CRAR 2019 CRAR Where is Zebrafish “avatars” can Publications George? Ask this help decide software to who should look at the receive crowd 1 radiotherapy treatment A team of researchers at the Outcompeting Collective Behaviour lab Untangling To date, there is no method developed a state-of-the- Major How sleepless for clearly determining art tracking software called cancer space and whether radiotherapy will idtracker.ai. The software breakthrough nights be an effective treatment uses a mix of conventional time in the for individual cancer Suppressing the capacity algorithms and artificial in centuries compromise patients. This is a significant of tumours to destroy the intelligence to reliably track 2 brain problem as patients may healthy tissue that surrounds each and every individual in be unnecessarily subjected old puzzle the health of them is essential for fighting a moving crowd of dozens. to potentially severe side cancer. A study by the Cell How do our brains know effects. A new assay, your gut Fitness lab in human-derived idtracker.ai: tracking all individuals Weber’s law is the most when and where to place developed by the Cancer tumours reveals a potential in small or large collectives of firmly established rule of our feet in order to prevent unmarked animals. Romero- Development and Innate way of doing just that. The psychophysics — the science Why are individuals that us from tripping each time Ferrero F, Bergomi MG, Hinz RC, Immune Evasion lab, study reveals a competition Heras FJH, de Polavieja GG. Nature that relates the strength have irregular schedules we find ourselves on a new offers a promising solution mechanism used by human Methods. 16(2):179-182. doi: 10.1038/ of physical stimuli to the more susceptible to terrain such as an icy path, s41592-018-0295-5. with rapid, personalised cancer cells for killing their sensations of the mind. gut inflammation and or a sandy beach? In an radiotherapy compatibility neighbours and demonstrates Despite being almost 200 obesity? A study by the innovative study, scientists testing, using zebrafish as that combining substances years old, no clear way Immunophysiology lab at the Neural Circuits avatars. that block this mechanism with and Behaviour lab, find has been found to select reveals a link between gut 1 chemotherapy results in more remarkable similarities Developments in zebrafish avatars among its many proposed immune function and the effective tumour elimination. between the way humans as radiotherapy sensitivity reporters explanations. Now, brain’s circadian clock that These findings may lead to the and mice learn to adapt - towards personalized medicine. scientists from the Circuit may very well be the answer. development of novel cancer Costa B, Ferreira S, Póvoa V, Cardoso Dynamics & Computation their manner of walking and MJ, Vieira S, Stroom J, Fidalgo P, Light-entrained and brain-tuned therapies. pinpoint a site in the brain Rio-Tinto R, Figueiredo N, Parés lab have discovered a new circadian circuits regulate ILC3s and O, Greco C, Ferreira MG, Fior R. psychophysical rule that that controls two components gut homeostasis. Godinho-Silva C, Flower isoforms promote competitive EBioMedicine. 102578. doi: 10.1016/j. allowed them to identify Domingues RG, Rendas M, Raposo B, growth in cancer. Madan E, Pelham crucial for mastering this task ebiom.2019.11.039. Ribeiro H, da Silva JA, Vieira A, Costa CJ, Nagane M, Parker TM, Canas- – space and time. a unique and robust RM, Barbosa-Morais NL, Carvalho Marques R, Fazio K, Shaik K, Yuan Y, explanation of Weber’s law. T, Veiga-Fernandes H. Nature. Henriques V, Galzerano A, Yamashita Spatial and temporal locomotor 574(7777):254-258. doi: 10.1038/ T, Pinto MAF, Palma AM, Camacho D, The mechanistic foundation of learning in mouse cerebellum. s41586-019-1579-3. Vieira A, Soldini D, Nakshatri H, Post Darmohray DM, Jacobs JR, Weber’s law. Pardo-Vazquez JL, SR, Rhiner C, Yamashita H, Accardi Marques HG, Carey MR. Neuron. Castiñeiras-de Saa JR, Valente D, Hansen LA, Carvalho C, Beltran 102(1):217-231.e4. doi: 10.1016/j. M, Damião I, Costa T, Vicente MI, AL, Kuppusamy P, Gogna R, Moreno neuron.2019.01.038. Mendonça AG, Mainen ZF, Renart E. Nature. 572(7768):260-264. doi: A. Nature Neuroscience. 22(9):1493- 10.1038/s41586-019-1429-3. 1502. doi: 10.1038/s41593-019-0439-7.
76 78 Publications CRAR 2019 e43924. doi: 10.7554/eLife.43924. pii: 8. Elife. C. Ribeiro SJ, Walker I, Tastekin K, Steck C, Baltazar D, Goldschmidt PM, Itskov JM, Moreira circuit basis of feeding behaviours. the study to system optogenetics optoPAD choice. food underlies that circuitry neural the into insight important provide may turn which in organism, model this in behaviour feeding toolset available to study the extends significantly the scientific community, with shared freely being now is which tool, new This sensations in fruit flies. behaviours and taste feeding control and monitor screen technology to techniques with touch- genetic and optical lab Behaviour and Metabolism createdrealities by the taste creating virtual for system developed anewly is optoPAD takes aleap . It combines advanced advanced combines . It into taste into , a closed-loop Virtual Virtual reality reality Full 2019 publications list can be found on page 124 page on found be can list publications 2019 Full 3
3 10.1158/0008-5472.CAN-18-3682 doi: 79(9):2435-2444. Research. Cancer N. Shemesh C, Matos A, Beltran B, Costa-Silva N, Loução MJ, Barata J, Maia R, Theias A, Galzerano A, Ianus J, Santinha I, infiltration intoSantiagolymph mesorectal nodes. MRI maps tumour perturbation Susceptibility for other malignancies. implications future have may and patients cancer rectal for strategy treatment define help can acharacterisation Such by malignant cells with high accuracy. infiltrated been have nodes lymph whether identify to able is that methodology, MRI MRI lab Preclinical by the led Unknown, the clinicians at Centre the Champalimaud for team of and scientists multidisciplinary 22”, a “Catch Tothis of out a way find removal during surgery. can only be precisely upon assessed nodes lymph these of However, status the tumour. the remove to surgery standard radiotherapy to prior are administered the or chemotherapy if outcome clinical abetter have may patients nodes, lymph adjacent infiltrates cancer rectal When “Catch of 22” rectal , developed a new noninvasive noninvasive anew , developed Solving the Solving cancer
CRAR 2019 CRAR Competitive 3 External Funding 9
In 2019, CR 79 Researchers were awarded 12 projects & 21 individual funding schemes for €8.67M the sum of
4
17
A total of 37 142 external competitive funding schemes were running in CR during 2019.
Awarded in 2019 and will begin in 2020
Awarded and began in 2019
Previously awarded and still running in 2019
Individual Funding & Fellowships Projects
80 Highlights CRAR 2019 CRAR Fellowships
Funding Roeland Wolterink, Five postdoctoral María López and a postdoctoral researcher researchers were Marko Sestan, two at the Veiga-Fernandes lab, awarded the highly- postdoctoral researchers was award a prestigious competitive Horizon 2020 at the lab of Henrique fellowship by the Cancer Marie Curie Individual Veiga-Fernandes, received Research Institute to Fellowships: David Brea long-term fellowships by study the architecture López (Veiga-Fernandes the European Molecular International and language of lab); Julia Huntenburg Biology Organization pulmonary neuroimmune (Mainen lab); Maria (EMBO). collaborations communication. Martinez (Veiga-Fernandes lab); Rui Simões (Shemesh lab); and Ibrahim Tastekin The Champalimaud Centre for the Unknown (Ribeiro lab). is part of the Horizon 2020 Consortium project “Predicting Effective Adaptation to Projects Breast Cancer to Help Women to BOUNCE Back”, as a 4th site for the clinical studies of the project. Locally, the project is coordinated The Champalimaud Research by Fatima Cardoso, head of the Breast Unit Programme at the Champalimaud Clinical Centre. has been recognised as an Excellent R&D Two CR groups are involved in the project Unit in the 2017/2018 R&D Institutional - Albino Oliveira-Maia and Nikolaos Evaluation call conducted by the Papanikolaou. Portuguese National Foundation for Science and Technology (FCT). As a result, the Mireia Castillo-Martin and Bruno Programme will receive financial support Costa-Silva both participate in Health from the FCT in the sum of €1.7 Million, for Research Projects funded by the la Caixa the period of 2020 through 2023. Foundation. The projects the researchers are contributing to are titled: “Eradicating prostate cancer metastasis before clinical Megan Carey manifestation”, and “Defining the role head of the Neural Circuits and Behaviour of exosome-secreted micropeptides in lab was awarded a Consolidator Grant pancreatic cancer”, respectively. of €2 Million by the European Research Council. These funds will be used to further her investigation into how the activity of neurons throughout the brain produces learned and coordinated movements.
José Oliveira (Oliveira Maia lab) received a NARSAD Young Investigator Award by the Brain and Behaviour Research Foundation to pursue his research project on the influence of markers of immune dysfunction on orbitofrontal cortex recruitment during a decision-making task in obsessive-compulsive disorder.
82 Full Competitive External Funding list can be found on page 128 84 CRAR 2019 programmes, advancedprogrammes, courses and workshops. educating regarded has CR beginning, Since the Doctoral Programme and the Advanced CAJAL considerable efforts development the to considerable efforts and Among these, two main endeavours are the are endeavours main two these, Among implementation of outstanding educational of outstanding implementation International Neuroscience & Physiology & Neuroscience International To this end, the CR has been dedicating scientists as one of its main objectives. objectives. main of its one as scientists Education Training Courses. Highlights CRAR 2019 CRAR Joaquim Contradanças and Miguel Paço, International Neuroscience of the INPDP class of 2017/18 received Boehringer Ingelheim Fellowships.
& Physiology Doctoral This prestigious fellowship is awarded to Education “outstanding junior scientists worldwide Programme - INPDP who wish to pursue an ambitious PhD project in basic biomedical research in an internationally leading laboratory”. The students will continue to develop their research projects, while acquiring leadership The INPDP aims at providing During the first year of this four-year programme, and communication skills through an students with a broad and students attend courses that cover basic topics in exclusive training programme provided by integrative education in contemporary biology and neuroscience. The courses the Boehringer fellowship programme. neuroscience with a focus have a strong practical component, which includes a on the neuronal and circuit variety of experimental preparations. During this year, basis of behaviour. students also perform laboratory rotations, which allow them to familiarise themselves with the research done A main goal of the in the different labs and help them with selecting the lab programme is to foster where they will conduct their doctoral research. Students and encourage active are followed by a thesis committee which monitors their participation, independence progress and provides input throughout their graduate and critical thinking of the education. The INPDP is an accredited programme and students. INPDP students degrees are granted by one of our two academic partners, come from all over the Universidade Nova de Lisboa and the Instituto Superior world and from a range de Psicologia Aplicada. PhD students enjoy a vibrant of backgrounds, including academic environment at the Champalimaud Foundation, the life sciences, physics, with a weekly schedule of both internal and guest psychology, mathematics seminars, as well as access to a wide range of meetings and computational sciences. and workshops. INDP students also have the opportunity and funding to organise their own advanced courses, as well as an annual retreat.
Education committee: Graduate programme 2019 Eugenia Chiappe, Christa Scientific Advisory Board, Rhiner, Joe Paton visiting committee: Carlos Belmonte, Instituto de Coordinator: Neurociências de Alicante; Thiago Carvalho Gilles Laurent, Max Planck Institute for Brain Research; Managers: Alessandro Treves, Simone Zacarias, Neuroscience coordinator, Maria Teresa Dias International School for Advanced Studies Class of 2019 Standing (L→R) Jaime Arlandis Sitting (L→R) Rita Figueiredo Beatriz Belbut Merit Kruse Sofia Freitas Ines Dias Violetta LaFranca Raquel Silva Joana Carmona Anh Nguyen
86 CRAR 2019 CRAR CAJAL Advanced Interacting with Neural Circuits July 14 - August 3 Neuroscience Education Understanding how activity in neural circuits drives Directors: Training Programme behaviour is a fundamental problem in neuroscience. Leopoldo Petreanu Making this link requires detailed information about the cell (CR), Michael types and their connectivity, as well as the spatiotemporal Häusser (Univ. College London), patterns of activity in neural circuits in the intact brain Menno Witter (Kavli during behaviour. Moreover, probing causal relationships Institute for Systems between cellular and circuit-level processes and behaviour Neuroscience) requires perturbation of specific elements of the circuit in a temporally and spatially precise manner.
This is a three-week course combined a lecture series featuring top speakers from around the world with a practical “hands-on” introduction to the latest methods for probing neural circuits. The aim was to first teach students the theoretical foundation of the techniques (weeks 1 and 2), and then provide them with sufficient practical experience (weeks 2 and 3) so that they will be able to establish these approaches when they return to their laboratories.
Computational Neuroscience August 11-31
Computational Neuroscience is a rapidly evolving field whose Directors: methods and techniques are critical for understanding and Brent Doiron modelling the brain, and also for designing and interpreting (Univ. of Pittsburgh), Maria Geffen (Univ. experiments. Mathematical modeling is an essential tool to of Pennsylvania), cut through the vast complexity of neurobiological systems Jakob Macke and their many interacting elements. (Technical Univ. of Munich), The CAJAL Advanced Neuroscience Training This three-weeks school taught the central ideas, methods, Joe Paton (CR) Programme consists of six yearly courses, and practice of modern computational neuroscience through two held at the Champalimaud Centre for a combination of lectures and hands-on project work. Each the Unknown in Lisbon and four in Bordeaux morning was devoted to lectures given by distinguished Neurocampus. These two institutes were international faculty on topics across the breadth of chosen to be the first centres in Europe that experimental and computational neuroscience. During the will host recurring neuroscience training rest of the day, students worked on research projects in courses, following a model that has been teams of two-three people under the close supervision of successfully running in the USA for decades. expert tutors and faculty.
88 Find the Thesis list on page 139 CRAR 2019 CRAR Events
To complement research-related activities, CR also organises scientific events on a regular basis.
23 7 5 Colloquia Theory Conferences Seminars Seminars
4 1 1 Courses Annual Retreat Hackathon
90 Highlights CRAR 2019 CRAR Symposium Champalimaud Research participants enjoying a coffee break at the Symposium 2019: Darwin’s Café terrace Events Tissue Environment in Health and Disease October 8-10
The IUBMB Focused Meeting — 2019 Champalimaud Research Symposium Tissue Environment in Health and Disease — was held at the CCU from the 8th to the 10th of October 2019. The Symposium addressed how intrinsic and extrinsic environments impact on tissue homeostasis.
The meeting featured keynote lectures by Professor Elaine Fuchs and Professor Richard Locksley, who headed a diverse list Elaine Fuchs Judith Campisi of 17 distinguished speakers. In addition, the Keynote Buck Institute & Berkeley Lab, The Rockefeller University, USA USA symposium included several talk presentations by selected participants (based on abstract- Richard Locksley Jun Huh submission) and daily poster sessions. Keynote Harvard University, USA University of California San Francisco, USA Jürgen Knoblich The topic was highlighted from different Institute of Molecular angles and included a discussion on the Ajay Chawla Biotechnology, Austria homeostatic mechanisms that underlie University of California San Francisco, USA Lucy Erin O’Brien inflammation, injury, ageing and oncogenic Stanford University School of transformation in different tissues of our Andrea Brand Medicine, USA body. Invited speakers have therefore The Gurdon Institute, UK covered aspects from immunology, cell María Dominguez Bart Deplancke Neuroscience Institute of signaling, genetics and tissue regeneration EPFL, Switzerland Alicante, Spain in different model organisms. Christa Rhiner Mathias Heikenwälder Champalimaud Research, German Cancer Research The Symposium was held at the CCU, on Portugal Center, Germany the waterfront in central Lisbon. This unique venue, together with an exciting list of Clemens Schmitt Tor Erik Rusten invited speakers, has fostered a lively and Max-Delbrück-Center for Oslo University Hospital, Norway stimulating scientific meeting. Molecular Medicine, Germany Symposium chairs: Organisers: Christa Rhiner, Eduardo Ana Casaca, Eduardo Moreno Yasmine Belkaid Moreno and Henrique Patrícia Correia Champalimaud Research, National Institute of Allergy Veiga-Fernandes and Pedro Alves Portugal and Infectious Diseases, USA
92 Symposium on Imaging
CRAR 2019 CRAR Hallmarks of Cancer. Pancreatic Cancer: From
Events Cell Biology to Treatment November 15
The “Imaging Hallmarks of Cancer” symposium was organised by Celso Matos, CR co-Director and Head of the Imaging Department at the Champalimaud Clinical Centre, in collaboration with the European School of Radiology (ESOR).
This advanced multidisciplinary symposium bridged basic biological science and modern clinical practice with a special focus in pancreatic cancer. Internationally renowned experts reviewed the challenges and opportunities in pancreatic cancer research, highlighting the potential of modern imaging modalities to drive breakthroughs in pancreatic cancer, and to envision new developments in pancreatic cancer treatment.
Cool Tools for Science: Users Innovation May 29
In its 1st edition, “Cool Tools For Science” - an event for Life Sciences and Health researchers - gathered more than 70 participants, from Portugal and abroad. Users of research infrastructures were invited to present customised tools developed by themselves to solve problems for which there is no general solution available. 26 tools from a multiplicity of research areas were presented in short pitches and/or demonstrations. Prizes were given to the coolest innovation and to the coolest presentation.
Event organisers: Local organisers: Biodata.pt; CONGENTO; RNEM - João Cruz and Laura Ward The Champalimaud Auditorium in Portuguese Mass Spectrometry repose between talk sessions Network
94 Know more about CR 2019 Events on page 134 Highlights CRAR 2019 CRAR Culture Kickstarter The CR Kickstarter is a new internal funding mechanism designed to promote internal collaborative projects and the development of shared ideas and resources. In this initiative, which has been successfully running at CR since 2016, a portion of each lab’s budget is allocated to projects proposed in this system. Anyone may propose projects, which must involve, or benefit, a group wider than one lab, along with a minimum required budget. If the project can gain enough support and meets the eligibility requirements, it will be funded. CISS In 2019, 16 new projects received support from the CR community that addressed a range of needs. These include projects Champalimaud dedicated to developing analysis and behavioural software, purchasing technical Internal Seminar equipment and producing various types of Series educational events. Organisers: Pedro Garcia da Silva Each week, two CR researchers deliver Marta Moita a 25-minute presentation about Zachary Mainen their work, after which they receive feedback and questions from the CR community. These events, in addition to creating an atmosphere that facilitates collaboration, also provide a platform for junior researchers to advance their skills in preparing and delivering oral presentations to large audiences. As the CR community grows, its culture evolves with it. In the last few years, CR members introduced several new initiatives, as well as carried on with long-lasting, successful activities, such as the An example of a annual retreat, thereby continuously enriching the Kickstarter project social and scientific life at CR. where behavioural rigs were built using tools developed at CR (Bonsai and HARP). The rigs will be used by several CR labs to study visual attention and expectation in mice.
96 The monthly charity bake sale started in 2017 Greener labs - by a group of CR members dubbed “The Greener planet: increased use of CRAR 2019 CRAR Baking Lab”, who decided to channel their love reusable experimental Monthly Charity of baking towards charity. Besides the long equipment can help list of dedicated bakers who rotate between reduce waste Bake Sale events, other volunteers also contribute with juice, coffee and tea that benefactors receive
Culture for free to accompany their afternoon pastry.
In 2019, the group organised 11 events to support both national and international charities. Ben Ashby. Unsplash.com Ashby. © Ben Green Team @ CCU CR Annual Retreat
Motivated by the environmental crisis facing The Annual Retreat is a major event that society, and conscious of the large carbon and gathers all CR members in a remote location waste footprint of biomedical sciences, in 2019 for a period of four days. The retreat serves various initiatives were started by the CCU the purpose of familiarising individual community. These included a recycling scheme scientists with each other’s work while for disposable coffee capsules; the bulk buying creating a sense of community. It combines of reusable coffee capsules; distributing scientific events, such as poster sessions, reusable water bottles to all staff; removing with creative cultural and social activities. all plastic cups from water machines and As the CR continues to grow in numbers including ‘Green Tips’ in the weekly newsletter. and scope of research, these events, now Organisers: more than ever, serve as an important Irene Argudo These small steps galvanised the creation of means of maintaining the scientific culture of Márcia Matos Victòria Brugada a community-led group - the Green Team collaboration and cooperation at CR. @CCU - with the goal to conserve natural Charities: resources and transform the CCU into a Nuvem Vitória positive example of environmentally friendly June 25–28 Ajuda de mãe practices in research and medicine. The Plataforma de apoio aos refugiados Green Team @CCU is currently collaborating Location: Help Moçambique with research teams in the UK to explore Vila Galé Clube CC Parede and test the best ways to conduct our work de Campo, Alentejo Maria Cristina Foundation in an environmentally responsible manner, Retreat committee: Missão Patas Felizes and in 2020, with Lisbon the Green Capital of Make a Wish Foundation Catarina Pimentel Patrícia Correia UNICEF_Syria Children Europe, aims to create a network of institutes Gonçalo Guiomar Roksana Pirzgalska Refood Lapa in Lisbon to share environmental best Irene Argudo Ruth Diez del Corral Oceanos sem plásticos practices in medicine and research. João Pereira Susana Lima
98 Highlights CRAR 2019 CRAR Neuronautas:
projectAr watch talk act young brain chasing coral explorers - CR’s Academia Gulbenkian do 26sep -9pm Conhecimento is off
champalimaud centre for the to a great start unknown
free entrance
register at: events.ar.fchampalimaud.org The ambitious citizen science project “Neuronautas”, which was selected in 2018 Science to be part of the first Academias Gulbenkian do Conhecimento , ran its “pilot” edition in First ProjectAr 2019. The Neuronautas academy aims to train young people to follow their curiosity, Communication Watch - Talk - Act: question their own assumptions and challenge the unknown. To this end, a team of scientists, science communicators and alumni of the “Chasing Coral” Champalimaud Foundation, developed an experimental methodology where highschool & Outreach students explore concepts in neuroscience by This new event series, which sprung out learning how to effectively utilize commonly of the outreach event-series, Ar | Respire available equipment and software. Connosco, aims to raise awareness for emerging societal issues while backing Team: them up with science. ProjectAr links the Goncalo Lopes, Danbee Kim, Nuno Loureiro, screening of movies and documentaries Rita Baptista, João Frazão, Catarina Ramos with an open conversation, that will hopefully raise awareness for emerging societal issues from a scientific perspective. One of CR’s stated goals is to share knowledge not In the first ProjectAr, which happened only within the scientific community but also with during “Global Climate Change week”, we organised a free, public screening of the the community at large. Many CR researchers, documentary “Chasing Coral”. The film at all career stages, adopt this vision and choose was followed by two short presentations by marine biologists, and an open discussion to organise and participate in various outreach among all participants.
activities, both at and outside of the CCU. Team: Catarina Pimentel, Patrícia Correia, Catarina Ramos, Eline Smaragdi, Rita Figueiredo, Marta Correia, Diogo Matias, Alexandre Azinheira, Pedro Alves, Kristin Fischer, Tatiana Silva, Tiago Quendera, Laura Ward, Francisco Romero
100 102 Science Communication CRAR 2019 “Metacognition Lab: “la Caixa” Infância “la Learning to Learn” The Educational Educational The receives BPI a project project Award
André Mendonça, Catarina Ramos Team: Foundation. Champalimaud the from Técnico, neuroscientists and from TreeTree2 and Instituto Superior engineers of by ateam implemented will beThe developed programme and Neuroscience and Learning. Machine to dedicated be will two courses first The indisciplines a coherent and integrated way. toapproaches of the learning different Portuguese courses that apply metacognition no currently are there as need, educational answersThis an programme important method. study the “calibrate” to and the understanding of these concepts facilitate to aim courses These know. you Metacognition relates to what knowing learn. to how learn to users helping of goal the with process, learning the to techniques promote the application of metacognition 2019 Awards. aims to The programme Infância Caixa” “la BPI the of winners the of one was aAprender), Aprender (Laboratório de Metacognição: LaMAA
Filipe Rodrigues, Hugo Marques, João Frazão Team: programming andtheweb. and its applications inour dailylives, health, a widerange of topics includingrobotics teenagers, mostlygirls,developed skillsin event, duringwhichabout150children and A team of CRscientists participated inthe São Lourenço dosÓrgãos inCape Verde. 29 September) attheislandof Santiago, in place over thecourse of four days (26to Africa Science Week Cape Verde 2019took The third event of theNext Einstein Forum - Artificial Intelligence Intelligence Artificial Next Einstein Forum and Programming: Programming: and in Health, Robotics Robotics Health, in Cabo Verde Africa Verde Africa Cabo
Science Week Know more about Outreach on page 136 page on Outreach about more Know Ana Gerschenfeld, Catarina Ramos, LiadHollender Team: The full playlist is available on www.youtube.com biology’s greatest mysteries. of some tackle they as Unknown the for investigators of Centre the Champalimaud by the made breakthroughs recent most the features series This Snapshots”. “Science series short-videos the was 2019 A highlight special of Magazine Ar during visitors world-wide. more than drawing were 15.000 published, pieces unique 29 2019, In science-twist. a with all interviews, and poems comics, videos, short discoveries, recent about news features Magazine Ar behaviour? collective of study the revolutionise method AI anovel can How gut? your of health the influence nights sleepless do How With visitors, 15,000 reaching curious curious reaching
Ar Magazine is is Magazine Ar minds around around minds the globe the
Outside the CCU Thank
CRAR 2019 CRAR you
Outreach 120 years of Colégio HAC. IST Valsassina. Albino O.Maia Ana Cruz F. C. Gulbenkian Jobshop. Instituto Ana Fernandes Superior Técnico (IST) Anna Pezzarossa 2nd Citizen Sceince Beatriz Belbut Meeting. Academia Jortec. Fac. Ciência Bruna Costa Nacional das Ciências e Tecnologia UNova Carlos Ribeiro At the CCU Catarina Brás 2nd Excellence in Next Einstein Forum. Catarina Pimentel Cape Verde Christian Machens Science Communication Clara Ferreira Level Workshop. European Danbee Kim of interaction Research Council, Brussels Special Team. IST Academia Gulbenkian Daniel Nunes Davide Accardi do Conhecimento Science on Stage Brain Awareness Week. Denise Camacho “Neuronautas” 5 Festival. Cascais Fábrica das Artes Edite Figueiras 4 Eline Smaragdi Job shadowing Wider than the Sky Congressos dos Filipe Rodrigues 3 public events. Cozinheiros. LX Factory Francisco Romero LaMAA: Laboratório F.C. Gulbenkian Gautam Agarwal de Metacognição 2 Gonçalo Lopes Aprender a Aprender Hugo Marques 1 Inês Soeiro MICRODay João Afonso 600 300 100 50 25 5 5 10 15 20 25 12 Initiatives 20 Volunteers ~2250 Public João Frazão João Marques ProjectAR: high school Number of Number of Joe Paton participants volunteers "Chasing Coral" college Julia Huntenburg Level Kcénia Bougrova of interaction School visits families Kristin Fischer Laura Ward adults 5 Leonor Morgado Lucas Martins scicommers 6 Initiatives 4 Margarida Anjos Maria Inês Vicente 3 45 Volunteers Target Marta Estrada audience Matheus Farias ~1100 Public 2 Michael Pereira Mirjam Heinemans 1 Nuno Calaim Nuno Loureiro 600 300 100 50 25 5 1 2 3 4 5 Patrícia Correia Number of high school Number of Pedro Alves participants volunteers Rita Baptista college Rita Fior Brain Awareness Week images Ruth Diez del Corral Online and videos campaign ~2500 families Sander Keemink adults Simone Zacarias Science snapshot videos new followers Susana Lima (CR Youtube) scicommers Tatiana Silva Teresa Dias Thabèlò Khoboko Target Thiago Carvalho audience Tiago Costa Tiago Quendera Zach Mainen
104 CRAR 2019 CRAR
Facilitating research with dedicated administrative and technical support
106 CRSU Highlights CRAR 2019 CRAR
Graduate Programmes Office CR Support @ IST Jobfest
The Graduate Programmes Office responded to the invitation of the AEIST (Associação de Units Estudantes do Instituto Superior Técnico) to participate in the IST Jobfest of 2019, with a team counting two INPDP students - Matheus Farias and Lucas Martins and both programme managers - Simone Zacarias and The CR Support Units (CRSU) Maria Teresa Dias. provide all administrative, financial The INPDP booth had a steady crowd of and operational assistance to the undergraduate students, attracted by the CR community. Accompanying the setup the team brought from the CCU. The students stayed a while, chatting with the evolution and growth of CR, the INPDP student about their research and support provided to CR’s scientists also experience at the programme. continuously grows in organisation and capacities. The CRSU team aims to provide all science administration, Science Communication Office: management and communication CR in the Media support to boost the work of scientists, maximising the focus on research. In 2019, the Science Communication Office produced 17 press releases and liaised 22 media requests. Several press releases evoked significant interest in the media, such as those that announced the publication of research articles from the de Polavieja, Ribeiro and Veiga-Fernandes labs. These articles featured innovations in the fields of collective behaviour, food-choice and the interaction between the immune and the nervous systems, respectively. A notable media request was made by the magazine National Geographic. The magazine interviewed CR investigator Rita Fior for an article about breakthroughs in personalised medicine.
108 Matthew Waring. Unsplash.com Waring. © Matthew Among the long list of responsibilities of CRSU’s operations manager is the safety and functionality of the CCU’s Open Labs. CRAR 2019 CRAR Lab Administration Human Resources & Fellows Support The Laboratory Administrator team provides support to the scientists working Office at CR so that they can focus on research.
Support units Every laboratory is assigned a Lab Administrator that works closely with the PIs Every person that joins CR enters through and lab managers assisting the labs in their the HR & Fellows Support Office. Whether ordering process, budget management, it’s a PI or an intern or simply a guest, the travel arrangements, and other tasks HR & Fellows Support Office advises on necessary to managing the lab. The lab all essential procedures: contracts, social administrators coordinate with other CR security, medical insurance, etc. The Office support units and CF departments such as also supports all CR recruiting processes, post-award, logistics, accounting, IT, and including that of the graduate programme. maintenance, as well as external agents such as suppliers, service providers, and CR has almost 430 affiliated fellows, 330 of shipping companies. whom have ongoing fellowship contracts with the Champalimaud Foundation Coordinator: Raquel Gonçalves Lab administrators: Vesna Petojevic, Telma Carrilho, (CF). The Office’s role is to facilitate Lauren Noblet, António Raposo, Rita Saraiva, Ana communication between CR and CF’s Central Margarida Nunes Administration departments, as well as to ensure that all commitments to the fellows are met.
HR liaison: Teresa Carona HR & fellows assistant: Pedro Alves Direction Support Events Team The Events unit supports scientific events organised by CR. From the large annual events like the CR Retreat and Symposium The Direction Support Team receives, to our weekly CISS and Colloquium, the delegates and implements direct team will be able to help you with all instructions from the Research Direction event-related details, from conception Team and the Director of Research Support. and planning to logistical details such as This team also serves as a primary contact travel and accommodation, venue set- point for any problem-solving needs within up, catering and event management. This CR, being able to advise on the resources unit also supports the Faculty’s events and available to the CR community. other ad-hoc events such as Ar events and other outreach initiatives. The team Director of research support: Ryan Herbert Executive coordinator: Inês Soeiro also consolidates the management of Operations manager: Cátia Feliciano all communal AV equipment, as well as Financial manager: Joaquim Teixeira expertise in videography and photography. The Human Resources & Fellows Support Office helps Coordinator: Patrícia Correia CR members through the maze Events organiser: Ana Casaca of Portuguese bureaucracy so Events assistant: Pedro Alves that they can relax and focus AV technician: Alexandre Azinheira on their work.
110 CRAR 2019 CRAR Office for Graduate Program Sponsored Office Programmes This Graduate Program Office runs mainly
Support units through the Teaching Lab and Classroom, the Post-Award hubs of our PhD programme and all courses happening at CR. The team deals with the Visit from an CR’s Post-Award team at the Office for administrative and logistic aspects of the elementary Sponsored Programmes (OSP) provides INPDP programme, the CAJAL courses and school during support in management and administration other teaching events. The team also manages the 2019 Brain Awareness Week. of external funds for research, including the CR library, the Teaching Lab space, and the financial and scientific reporting, eligibility of Classroom bookings. The Office also provides expenditure, compliance and external audits. assistance to the student's social events, supports the INPDP recruiting process, and The Post-Award team also functions as a hosts the annual INPDP SAB visits. facilitator of more bureaucratic aspects of grant management, thereby creating a bridge Graduate programme managers: Maria Teresa Science Project Managers between the CR Scientific Community and the Dias, Simone Zacarias funding agencies. Post-award’s support is also Communication provided by a resident team of project officers The Project Managers are responsible from Verbochave, Consultoria Lda. for the day-to-day implementation of Office large scale institutional and consortia Coordinator: Joaquim Teixeira projects. They play a pivotal liaison role, Scientific Officer: Francisco Semedo acting as the centre of communication Project Officers: Carina Quintal, Helena Duarte, The Science Communication Office is for all internal and external stakeholders, Henrique Moreira, Inês Bonifácio, Pedro Monteiro, responsible for disseminating information monitoring project progress, identifying Sofia Venâncio, Vanda Vicente. on the activities and ongoing or emerging risks, coordinating technical reporting and objectives of the Champalimaud Research ensuring effective dissemination. to all relevant parties. In particular, this Unit is responsible for maintaining fluent Managers: João Cruz, Laura Ward Pre-Award internal and external communication channels, including CR’s online presence, liaising with the media and the production The Pre-Award team, among other of communication documents / materials, responsibilities, provides support to the such as the annual report. In parallel, this researchers hosted at the Champalimaud Unit coordinates science communication Center for the Unknown – CCU throughout initiatives that range from science education the first stages of the grant life cycle: and outreach events to the organization of i) the identification of external funding scientific meetings. The team is also able to opportunities for research; ii) the preparation support the CR community in their scientific and submission of research applications endeavours, with in-house scientific design from the initiative of the researchers to and illustration. external funding; iii) the negotiation of successfully funded projects up to the signing Coordinator: Catarina Ramos of the official documents. Science writers: Ana Gerschenfeld, Liad Hollender Science education & outreach officer: Raquel Gomes Coordinator: Joana Lamego Student checking out zebrafish Graphic designers: Diogo Matias, Marta Correia Grant managers: Andreia Tavares, Bruno Ceña, larvae at the INDPD stand at Science graphic designer: Gil Costa Filipa Cardoso, Mariana Santa-Marta the IST Jobfest. Multimedia producer: Alexandre Azinheira
112 Scientific and Technological Platforms
The Scientific and Technological Platforms of the Champalimaud Centre for the Unknown carry out technical-scientific and specialised support work for the activities of research groups and clinicians. They operate in a wide range of areas, from the development of sophisticated technologies in animal models, imaging tools, hardware and software, to resource management and research infrastructures. Platforms Highlights CRAR 2019 CRAR Histopathology platform: Implementing techniques for Zebrafish retina captured in an innovative imaging chamber. advanced tissue analysis Susana Dias, Histopathology Platform Histopathology Dias, Susana In 2019, the histopathology platform has ©
Platforms 00:00 24:00 implemented several new techniques for tissue processing and analysis. Among these are clearing techniques necessary for preparation of the tissue for
ABBE Platform microscopy, implementation of paraffin © services for fine sectioning of tissues and 4-µm thick
NTR+/Mtz- section of a mice additional histochemistry techniques for kidney stained tissue analysis, such as the identification of with Masson’s structural abnormalities. trichrome (20x). Masson’s trichrome is used to differentiate Fly platform: Landing in the between
NTR+/Mtz+ collagen fibers Drosophila World – Drosophila and smooth Introductory Course muscle.
The first "Landing in the Drosophila World Advanced BioImaging and Course" took place in September 2019 at the Champalimaud Centre for the Unknown. BioOptics Experimental The course was an initiative of CONGENTO, platform: Introducing state-of- that was carried out through the joint efforts the-art imaging tools of three institutions: CEDOC, CF, and IGC, Glasswash and Histopathology and the participation of 19 invited speakers In 2019, the Advanced BioImaging from these research centres. These were Media Preparation Platform and BioOptics Experimental platform intense days, but well enjoyed by everyone, successfully concluded its first research both organisers and students. Platform project titled “Use of light-sheet imaging The Histopathology platform provides to assess pharmacological manipulation technical and scientific support to the CR effects on zebrafish neural development”, Scientific Hardware Platform: The Glasswash and Media Preparation community regarding tissue processing, which led to the realisation of an innovative Pushing Science Forward With Platform (GMPP) provides clean and sectioning, staining and clearing. The imaging chamber for drug testing. sterilised labware such as glass,plastics and platform processes mouse, rat, human, fly The chamber is optically transparent, Open-Source Hardware instruments to researchers and laboratories; and zebrafish samples through different biocompatible and of small inner volume, prepares commonly used solutions, media techniques, such as paraffin embedding, and is capable of imaging cleared During 2019, the Scientific Hardware culture and standards for Research groups vibratome and cryostat sectioning, samples in the centimeter scale from platform kept expanding its open-source and platforms. The GMPP also prepares immunohistochemistry of thin sections organs of rodents to entire organisms tools portfolio and spreading the word complex or new formulations, requested for and thick blocks, staining techniques (such as zebrafish larvae). The project was among the neuroscience community. researchers; helps and advises the research and several clearing techniques. In accepted for an oral presentation at the Through a close connection with the most community about biosafety rules, good addition to implementing cutting-edge Spanish & Portuguese Advanced Optical popular open-source projects, the platform practices and waste management. Finally, techniques, according to needs of the Microscopy Conference of 2019. is now well known and is a worldwide GMPP also provides bacteriological control scientific community, the Histopathology reference when it comes to open-source in several platforms and clinical unities. platform is also responsible for protocols hardware. This was the year where the optimisation. platform shipped more open-source tools Platform manager: Maria Vito around the globe. All these units were Laboratory technicians: Patrick Teca , Soraia Histopathology technicians: Susana Dias, Sérgio developed in-house. Rodrigues, Maria Madalena Seixas Casimiro, Inês Marques, Maria Inês Romano
116 “Hands-on” experience at the Landing in the Drosophila World – Drosophila Introductory Course. CRAR 2019 CRAR Platforms Advanced Fish Platform BioImaging The Fish Platform oversees an animal facility housing and breeding zebrafish, and BioOptics the second most used animal model in biomedical research, with very rigorous Experimental health and welfare standards. It works closely with the Molecular and Transgenic Platform (ABBE) Tools platform to provide advanced Fly Platform research services such as transgenic and gene-edited zebrafish and also The Advanced BioImaging and BioOptics collaborates with other institutions and The Fly platform provides state-of-the Experimental (ABBE) platform provides companies to develop new protocols art conditions for breeding, maintenance training and access to a variety of and technologies. Its ambitious research and manipulation of Drosophila to all CR cutting-edge light microscopes and image service portfolio and scientific program researchers. Apart from management analysis software. have granted the Platform a substantial and maintenance of all shared equipment international reputation through and spaces, it provides technical services 2019 was a year of progress in the ABBE several peer-reviewed publications and Flow Cytometry ranging from core activities such as medium platform. The team was joined by Anna presentations at international meetings. production and stock maintenance, to higher Pezzarossa, a microscopy and imaging The Fish Platform is also part of Platform technically demanding procedures such specialist. In addition, the platform increased (CONGENTO), where it plays a pivotal as organ dissection, staining and embryo its light-sheet fluorescence microscopy role by delivering zebrafish services and microinjection. Importantly, by closely capabilities with the acquisition of a light- providing facility management consulting to The goal of the Flow Cytometry Platform working with other CR Platforms, the Fly sheet based machine. On the imaging both the national and international research is to offer technical and scientific advice platform is in a position to offer full turnkey analysis side, the facility also increased communities. regarding the use of flow cytometry projects to its users. Such examples include its range of services with “Merlin” - a new instruments to Champalimaud Foundation transgenic and mutant stock generation (from workstation with cutting edge capabilities. Coordinator and head: Ana Catarina Certal community and also to external research strategy choice and vector design to embryo Facility manager: Joana Monteiro (CONGENTO) groups. This platform provides training microinjection, fly screening, genotyping and In May, 2019, the platform, in concert with Research technicians: Mariana Sampaio, Olivia in flow cytometry concepts, expertise for stock balancing) done in close collaboration the national PPBI network of microscopy Knight (CONGENTO), Inês Oliveira experimental planning and support in with the MTT Platform, or the registry of brain Facility technicians: Carolina Cabrera (CONGENTO), instrument’ operation and data analysis. confocal imaging (from organ dissection and departments, has opened its doors to the Seidy Semedo, Maria João Pereira public with MICRODia: an outreach event staining to confocal imaging and registry), for high-school students. The day included Since 2017, the Flow Cytometry platform is part done in close collaboration with the ABBE a visit to the facility where the students of the FLxFlow community – a Portuguese and Software platforms. The Fly platform is learned about the principles of fluorescence network for Flow Cytometry, which aims to part of the trans-institutional infrastructure and had the possibility to see their own DNA bring together core Flow Facilities in the Lisbon CONGENTO, through which it offers services using microscopy. area with the goal of enabling the access of to external users as well. scientists to cutting edge applications. Coordinator: Pedro Garcia da Silva Coordinator: Isabel Campos Group head: Davide Accardi Coordinator: Pedro Garcia da Silva Manager: Liliana Costa Senior technician: Anna Pezzarossa Group head: Ana Vieira Technicians: Catarina Craveiro, Carina Portugal, Ana Technician: Leonor Morgado Technician: Renato Colaço Reis, Sofia Silva, Patrícia Valentim, Zichiena Zovo
118 HARP board at the Scientific Hardware
CRAR 2019 CRAR Platform Scientific Software Platform
The Scientific Software Platform aims Platforms to support high-level scientific research by providing high-quality software support and ensuring the performance of CR computational infrastructures. With educational backgrounds in Software, Electrical and Physics Engineering, Rodent Platform Molecular and the platform’s team members have a broad range of skills and knowledge in Transgenic Tools areas such as computer vision, image The Rodent platform is primarily responsible processing, machine learning, hardware for the maintenance and veterinary control, graphics, web, data management assistance of all CR rodent animal models, Platform and systems administration. In 2018, the strictly following European Guidelines team focused on the development of (Directive 2010/63/UE of September 22, The Molecular and Transgenic Tools Platform the PyBpod and Python Video Annotator 2010), National Laws (Decree Law 113/2013, (MTTP) performs complex cloning and for behavioural analysis, and on the of August 7) and Federation of European gene editing projects. It assists users during Scientific Hardware improvement of the data flow pipeline. Laboratory Animal Science Associations all stages from the conceptual design by The later improvement was achieved with (FELASA) guidelines and recommendations providing support in molecular biology the construction of a high performance concerning laboratory animal welfare, Platform strategies from basic services to complex computational and storage cluster and by scientific use and proper education/training cloning of knock-out and knock-in constructs the installation of an internal high-speed of all personnel performing animal work. to generate new cellular, zebrafish, fly or The platform is responsible for developing network to connect the data acquisition mouse models. and participating in projects that have equipment to the computational resources. Apart from managing and maintaining a high impact on science. As they are all shared equipment and spaces in the The MTTP also harbours a viral-vector intrinsically inseparable, the field of Coordinator: Pedro Garcia da Silva facility, Rodent platform staff members are production service and has several electronics and mechanics are addressed. Group head: Ricardo Ribeiro also providing daily care and monitoring of collaborations for continuous development The platform provides the full pipeline of Cloud specialist: Joao Baúto animals during housing and experiments. and implementation of new viral systems. hardware development from requirement Data manager: Hugo Cachitas Importantly, all CR labs can also rely on Software developer: Luís Teixeira The platform acts as a hub of shared specification and analysis, design, the platform for a comprehensive colony resources and expertise not only for the CR, development, implementation, validation management ranging from weaning and but also for the national and international procedures and test execution. It also sampling to genotyping, complying with research communities, academic and handles diverse services, including 3D the best animal welfare practices and industry, by providing services through printing services, day-to-day support refinement and reduction policies. The CONGENTO. and management of both electronic and Rodent platform also runs a set of highly mechanical workshops. Software Platform © Software specialised and technically demanding Coordinator and head: Ana Catarina Certal services, some of which are done in close Molecular tools manager: Ana Raquel Tomás Hardware developers: Filipe Carvalho, Artur Silva, collaboration with the MTT Platform. Virus and cell manager: Ana Cunha (CONGENTO) Paulo Carriço Research technicians: Mariana Velez, Daniela Freire Technicians: Dario Bento, Laurent Lachaud Coordinator: Isabel Campos Veterinary: Dolores Bonaparte Manager: Rita Torre Technicians: Catarina Craveiro, Ana Pereira, Cláudio Macedo, Erineo Silva, Eduardo André, Wilcilaya Pontes This image shows software Colony managers: Ana Vaz, Bruno Novais, Ana Rita developed by the Scientific Gonçalves, Carlos Silva, Joshaba Abreu, Wilma Software Platform for annotation Sobral, João Pereira, Leonor Gomes of behavioural videos.
120 edit photo CRAR 2019 CRAR
The Nitty Gritty
For those who want to know more in detail what we’ve done
122 Diffusion Kurtosis Imaging maps Intragenic antagonistic roles Muscle contributions to upper- Sexually dimorphic neuronal neural damage in the EAE model of protein and circRNA in extremity movement and work from a inputs to the neuroendocrine of multiple sclerosis. Chuhutin A, tumourigenesis. Guarnerio J, Zhang musculoskeletal model of the human dopaminergic system governing
CRAR 2019 CRAR Publications Hansen B, Wlodarczyk A, Owens Y, Cheloni G, Panella R, Mae Katon shoulder. Seth A, Dong M, Matias R, prolactin release. Esteves T, Shemesh N, Jespersen SN. J, Simpson M, Matsumoto A, Papa Delp S. Frontiers in Neurorobotics. doi: FF, Matias D, Mendes AR, Neuroimage. 208:116406. doi: A, Loretelli C, Petri A, Kauppinen 10.3389/fnbot.2019.00090. * Oliveira- Lacoste B, Lima SQ. Journal of Clusterdv: a simple density-based 10.1016/j.neuroimage.2019.116406. S, Garbutt C, Petur Nielsen G, Maia group Neuroendocrinology. 31(10):e12781. Research Articles clustering method that is robust, Deshpande V, Castillo-Martin doi: 10.1111/jne.12781. general and automatic. Marques JC, Effects of nongaussian diffusion on M, Cordon-Cardo C, Dimitrios S, Neuroleptic malignant syndrome: Orger MB. Bioinformatics. 35(12):2125– “isotropic diffusion” measurements: Clohessy JG, Batish M, Pandolfi PP. a concealed diagnosis with Short echo time relaxation- A retinal circuit generating a 2132. doi: 10.1093/bioinformatics/ An ex-vivo microimaging and Cell Research. 29(8):628-640. doi: multitreatment approach. Velosa enhanced MR spectroscopy reveals dynamic predictive code for bty932. simulation study. Jespersen SN, 10.1038/s41422-019-0192-1. A, Neves A, Barahona-Corrêa JB, broad downfield resonances. Publications oriented features. Johnston J, Olesen JL, Ianuş A, Shemesh N. Oliveira-Maia AJ. BMJ Case Reports. Gonçalves SI, Ligneul C, Shemesh N. Seibel SH, Darnet LSA, Renninger Comparison of the 90Y-labelled glass Journal of Magnetic Resonance. Label-free nanosensing platform doi: 10.1136/bcr-2018-225840. Magnetic Resonance in Medicine. S, Orger MB, Lagnado L. Neuron. microspheres liver radioembolisation 300:84-94. doi: 10.1016/j. for breast cancer exosome 82(4):1266-1277. doi: 10.1002/ 19;102(6):1211-1222.e3. doi: 10.1016/j. dosimetry with the estimated jmr.2019.01.007. profiling. Ferreira N, Marques A, optoPAD, a closed-loop optogenetics mrm.27806. neuron.2019.04.002. dosimetry obtained from pre- Águas H, Bandarenka H, Martins R, system to study the circuit basis treatment 99mTc-MAA SPECT images Engram-specific transcriptome Bodo C, Costa-Silva B, Fortunato E. of feeding behaviors. Moreira JM, Spatial and temporal locomotor A single microrna-hox gene reconstructed with and without profiling of contextual memory ACS Sensors. 4(8):2073-2083. doi: Itskov PM, Goldschmidt D, Baltazar C, learning in mouse cerebellum. module controls equivalent attenuation correction. Demino L, consolidation. Rao-Ruiz P, Couey 10.1021/acssensors.9b00760. Steck K, Tastekin I, Walker SJ, Ribeiro Darmohray DM, Jacobs JR, movements in biomechanically Ferreira P, Oliveira FPM, Costa DC. JJ, Marcelo IM, Bouwkamp CG, C. Elife. 8. pii: e43924. doi: 10.7554/ Marques HG, Carey MR. Neuron. distinct forms of drosophila. Issa Computer Methods in Biomechanics Slump DE, Matos MR, van der Loo Latent TB infection (LTBI) - eLife.43924. 102(1):217-231.e4. doi: 10.1016/j. AR, Picao-Osorio J, Rito N, Chiappe and Biomedical Engineering: Imaging RJ, Martins GJ, van den Hout M, mycobacterium tuberculosis neuron.2019.01.038. ME, Alonso CR. Current Biology. & Visualization. 7:651-9. doi:10.1080/21 van IJcken WF, Costa RM, van den pathogenesis and the dynamics of Patient-specific gamma-index 29(16):2665-2675.e4. doi: 10.1016/j. 681163.2018.1542348. Oever MC, Kushner SA. Nature the granuloma battleground. Rao analysis to evaluate 99mTc-MAA as a State-dependent geometry of cub.2019.06.082. Communications. 10(1):2232. doi: M, Ippolito G, Mfinanga S, Ntoumi predictor for 90Y glass microspheres population activity in rat auditory Competition for space induces cell 10.1038/s41467-019-09960-x. F, Yeboah-Manu D, Vilaplana C, liver radioembolisation dosimetry. cortex. Kobak D, Pardo-Vazquez Active control as evidence in elimination through compaction- Zumla A, Maeurer M. International Ferreira P, Oliveira FPM, Parafita JL, Valente M, Machens CK, Renart favor of sense of ownership in driven ERK downregulation. Moreno Evaluation of principal component Journal of Infectious Diseases. R, Girão PS, Correia PL, Costa DC. A. Elife. 8. pii: e44526. doi: 10.7554/ the moving virtual hand illusion. E, Valon L, Levillayer F, Levayer R. analysis image denoising on multi- 80S:S58-S61. doi: 10.1016/j. Computer Methods in Biomechanics eLife.44526. Brugada-Ramentol V, Clemens I, de Current Biology. 29 (1), 23-34. doi: exponential MRI relaxometry. ijid.2019.02.035 and Biomedical Engineering: Imaging Polavieja GG. Consciousness and 10.1016/j.cub.2018.11.007 Does MD, Olesen JL, Harkins KD, & Visualization. 7:583-9. doi:10.1080/21 Susceptibility perturbation MRI Cognition. 71:123-135. doi: 10.1016/j. Serradas-Duarte T, Gochberg Learning optimal decisions 681163.2018.1501768. maps tumor infiltration into concog.2019.04.003. Compound haploinsufficiency of DF, Jespersen SN, Shemesh N. with confidence.Drugowitsch mesorectal lymph nodes. Santiago Dok2 and Dusp4 promotes lung Magnetic Resonance in Medicine. J, Mendonça AG, Mainen ZF, Perfusion magnetic resonance I, Santinha J, Ianus A, Galzerano A, Acute-onset atrial fibrillation tumorigenesis. Chen M, Zhang J, 81(6):3503-3514. doi: 10.1002/ Pouget A. Proceedings of the as a biomarker for sorafenib- Theias R, Maia J, Barata MJ, Loução following an electrically induced Berger AH, Diolombi MS, Ng C, Fung mrm.27658. National Academy of Sciences treated advanced hepatocellular N, Costa-Silva B, Beltran A, Matos generalized convulsion in a J, Bronson RT, Castillo-Martin M, of the United States of America. carcinoma: A pilot study. Campos M, C, Shemesh N. Cancer Research. patient treated with clozapine and Thin TH, Cordon-Cardo C, Plevin Flower isoforms promote 116(49):24872-24880. doi: 10.1073/ Candelária I, Papanikolaou N, Simão 79(9):2435-2444. doi: 10.1158/0008- electroconvulsive therapy. Urzal R, Pandolfi PP. Journal of Clinical competitive growth in cancer. pnas.1906787116. A, Ferreira C, Manikis GC, Caseiro- 5472.CAN-18-3682 F, Oliveira-Maia AJ, Barahona- Investigation. 129(1):215-222. doi: Madan E, Pelham CJ, Nagane M, Alves F. GE Portuguese Journal of Corrêa JB. The Journal of ECT. doi: 10.1172/JCI99699. 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VipIMAGE 2019 pp 208-216. pp 2019 VipIMAGE Pares O, 2019: Costa EVipIMAGE DC. FPM, ParafitaR,Girão PS, Correia PL, radiation Ferreira therapies. P, Oliveira of multiple (external and internal) help liver calculations dosimetry Voxel-based computational tools Athens. Bioinformatics and Bioengineering, 19th International Conference on Kartalis N, Papanikolaou N. 2019 IEEE Tsagkatakis G, GC, Manikis Marias K, A, Pentari pancreas. on A study DW-MRI: on Representations Sparse 10.1016/S1470-2045(19)30309-2. doi: 20(6):e302-e312. Oncology. Lancet S. Lentzsch JJ, Lahuerta M, Cavo M, Drake BM, Wirk D, Dytfeld BC, Lipe N, Abildgaard WM, F, Chen Schjesvold H, Einsele R, Schots E, Ocio H, Ludwig N, Raje S, Kumar S, Giralt H, Goldschmidt J, Miguel San RA, Kyle E, Zamagni E, Terpos JG, Berdeja N, Donk de van J, Du E, Riva R, García-Sanz KC, Anderson C, Joao S, MV, Lonial Mateos BGM, SV, Durie Rajkumar S, J, Hillengass Usmani disorders. cell on imaging in monoclonal plasma group consensus recommendations International myeloma working clinph.2019.11.002. Clinical Neurophysiology. doi: 10.1016/j. U. Ziemann D, Szekely M, Schecklmann H, Sahlsten S, Rossi I, F, Rektorová W, Rachid Poulet A, E, Quartarone Padberg F, A, Oliviero Palm U, Paulus Nguyen JP, Nyffeler T, Oliveira-Maia AJ, B, Leocani Nardone R, Londero L, A, Hummel FC, Langguth Jääskeläinen SK, A, Hasan C, Grefkes SR, V, Filipović J, DH, Brunelin Benninger Di Lazzaro C, Baeken A, JP, Aleman Lefaucheur (rTMS): An update (2014-2018). transcranial magnetic stimulation the therapeutic use of repetitive Evidence-based guidelines on C João of Group * doi: 10.3324/haematol.2019.224204. Haematologica. 104(12):2358-2360. H. Einsele JFS, T, Miguel Facon H, Ludwig R, Hajek M, Delforge J, P, Bladé Lucio MA, Dimopoulos H, Goldschmidt H, MV, Nahi Mateos G, Cook M, P, Boccadoro P, Sonneveld European Myeloma Network. Moreau consensus statement from The a myeloma: multiple for therapy Chimeric antigen receptor T-cell 10.1172/JCI128877. Investigation. 129(9):3482-3491. doi: Xavier RJ, Netea MG. Journal of Clinical LS, van Crevel R, Vankalayapati R, Schlesinger E, Nemes MM, Mhlanga KD, MakarMaeurer M, KW, Mayer-Barber Divangahi Hanekom M, W, Hill PC, tuberculosis vaccination. Khader SA, Targeting innate for immunity Innate Working Immunity Group18. Collaboration for TB Vaccine Discovery Bill and Melinda Gates Foundation Recommendations International Groups doi: 10.1016/j.ijid.2019.02.024. of Infectious Diseases. 80S:S1-S5. Zumla InternationalM, Journal A. CF, Goscé Abubakar L, I, Maeurer Reyn von D, Gijsel de B, Marais A, Y, Oliveira SP, Cardoso RF, Detjen Yang Q, Mao GB, Migliori S, Tiberi K, Kranzer CU, Köser TD, McHugh I, Honeyborne DE, Kirwan C, S, Ugarte-Gil Krishnamoorthy MP, Hergens JN, Öhd K, Gaskell R, Allen D, F, Moore Ntoumi J, Ippolito G, G, Gualano Chakaya series. diseases tuberculosis theme International journal of infectious - TIME” “It’s theme: 2019 24th World tuberculosis day March 2600(19)30036-0. 195-197. doi: 10.1016/S2213- The Lancet Medicine. Respiratory A. Zumla M, Maeurer J, Chakaya I, infection. tuberculosis for latent Mycobacterium Towards optimal treatment Radiology. Papanikolaou N. Hellenic Journal οf Radiomics in E, oncology. Sala Editorial Content: ISBN 978-3-030-11812-9. Zilhão. R. and Fior R. Editors: 2019. and hijack their own planet. Elsevier. rules the break cells -when Cancer of Biology Cell and Molecular Ribeiro M, J. Castillo-Martín on oncologic patients’ management. pathology perspective and impact Chapter 9. Case Studies: molecular eISBN: 978-981-14-2186-0, 2019. 10.2174/97898114218601190101; doi: T. e-book. Kalir. Editor: 2019. Innovations. Benthman Science. Ovarian Cancer- Challenges and Kalir C, Cordon-Cardo T.A, Firpo M, B., Castillo-Martin G,Carrasco-Avino Greenbaum cancer. ovarian epithelial of Chapter 4. Genomic analysis 978-3-030-11812-9. ISBN 1-20. Molecular and Cell Biology of Cancer, Fior R. planet. own their hijack and Cancer-when cells break the rules 978-3-030-11812-9. ISBN 117-139. Cancer, of Biology Cell and Molecular R. V, Fior Póvoa system. immune the of hijacking Cancer immunoediting and Boo 11812-9. 978-3-030- ISBN Springer. R. Zilhão R, Fior planet. own their hijack and rules the break cells when Cancer- of Biology Cell and Molecular Books k Chaptersk Petersen E, Rao M, M, Rao E, Petersen Abubakar Call/Programme: ERC-2018-POC Noam Shemesh Carlos Ribeiro Susana Lima Active period: 01/01/19-30/06/20 Sensing activity-induced Harnessing the power of closed-loop Female socio-sexual behavior: cell swellings and ensuing neuronal to identify the circuit basis role of hypothalamic neuronal
CRAR 2019 CRAR Funding Bruno Costa-Silva (Coordinated neurotransmitter releases for of decision making activity across the reproductive by: STICHTING VUMC) in-vivo functional imaging sans Call/Programme: Grants for Scientific cycle European Liquid Biopsies Academy hemodynamics — DIRECT-fMRI Research 2016/2017 Call/Programme: ICDT 2014 Rita Fior - Towards widespread clinical Call/Programme: ERC-2015-STG Active period: 2017-2019 Active period: 01/06/16-31/12/19 Institutional Projects Erythrocyte Surveillance - the immune application of blood-based Active period: 01/03/16-28/02/21 system looking within? diagnostic tools Christian Machens Call/Programme: APBRF Call/Programme: H2020-MSCA- Henrique Veiga-Fernandes Fundação para a Ciência e a Robustness and Energy-Efficiency European Commission - Active period: 21/08/18-31/12/21 ITN-2017 Glia-derived factors in innate Tecnologia of Spiking Neural Networks Funding Horizon 2020 Active period: 01/01/18-31/12/21 lymphoid cell sensing and intestinal Call/Programme: 02/SAICT/2017 defence Megan Carey Active period: 14/06/18-13/06/21 Call/Programme: ERC-2014-CoG Human brain project specific grant Brain and Behavior Research Susana Lima The nature of error signals during Hypothalamic circuits for the Active period: 01/06/17-30/06/20 locomotor learning Bassam Atallah (Mainen lab) agreement 2 Foundation Spatial Attention: dissecting the Call/Programme: H2020-SGA- selection of defensive and mating Call/Programme: 02/SAICT/2017 behaviour in females Henrique Veiga-Fernandes Active period: 01/10/18-30/09/21 cortical and subcortical circuitry FETFLAG-HBP-2017 Romain Ligneul (Mainen lab) Neuroimmune activation as a novel during rapid routing of sensory Active period: 01/04/18-31/03/20 Call/Programme: ERC-2017-COG From Neuronal Firing to Behavior: Active period: 01/03/18-28/02/23 therapeutic approach for IBD — Rui Costa information Breaking Down the 5-HT Chain Events NeurIMM Call/Programme: 02/SAICT/2017 Leveraging the unique organismic Determining the basal ganglia circuits Call/Programme: 2017 NARSAD Young Zachary Mainen Call/Programme: ERC-2017-PoC involved in repetitive behaviors in Active period: 01/06/18-31/05/21 approach to health and disease Investigator Grant Active period: 01/09/17-28/02/19 of the Champalimaud Foundation Modulation of cortical circuits and autism spectrum disorders Active period: 15/01/18-14/01/20 predictive neural coding by serotonin Call/Programme: ICDT 2014 Eran Lottem (Mainen lab) through the inception of a Serotonergic Control of Decision- quantitative biomedicine research — 5HTCircuits Active period: 01/05/16-30/04/19 José Oliveira (Oliveira-Maia lab) Call/Programme: ERC-2014-ADG/ European Commission Making and Impulsivity programme focused on cancer Influence of markers of immune Call/Programme: 02/SAICT/2017 Call/Programme: H2020- ERC-2014-ADG FP7-Seventh Framework Nicolas Morgenstern (Rui Costa lab) dysfunction on orbitofrontal cortex Active period: 01/01/16-31/12/20 Call/Programme: Norma Transitória Active period: 01/09/18-31/08/21 WIDESPREAD-2016-2017 recruitment during a decision making Programme Active period: 01/10/18-30/09/23 BPD task in obsessive-compulsive disorder Marta Moita Active period: 01/01/19-31/12/24 Cindy Poo (Mainen lab) Call/Programme: NARSAD Young Actively Frozen - contextual Rui Costa Odors and memory: neural Investigator NEURALCHUNK— Neural bases of mechanisms for encoding Fundação para a Ciência e a modulation of freezing and its Bruno Costa-Silva (Coordinated Active period: 15/07/19-14/07/21 neuronal basis (A-FRO) action chunking in basal ganglia by: Rui Oliveira, Fundação Calouste contextual information in Tecnologia Call/Programme: ERC-2018-CoG subcircuits Gulbenkian) olfactory cortex Active period: 2019-2024 Call/Programme: ERC-2013-CoG Developmental and Call/Programme: 02/SAICT/2017 Unidade de I&D Programa Breast Cancer Now Active period: 01/11/14-31/10/19 transgenerational effects of oxytocin- Active period: 01/10/18-30/09/21 Champalimaud de Neurociências Albino Oliveira-Maia & Nickolas like peptides on social behavior: Call/Programme: Fundação para a Bruno Costa-Silva Papanikolaou; (Coordinated Eduardo Moreno an eco-evo-devo approach using Zachary Mainen Ciência e a Tecnologia Bosutinib effects in pre-metastatic by: HELSINGIN JA UUDENMAAN Active Mechanisms of Cell Selection: zebrafish as a model Neural mechanism of value based Active period: 01/01/19-31/12/19 niche formation and lung metastasis in SAIRAANHOITOPIIRIN From Cell Competition to Cell Fitness. Call/Programme: 02/SAICT/2017 decision making of staying or breast cancer KUNTAYHTYMÄ - HUS. Call/Programme: ERC-2013-CoG Active period: 14/06/18-13/06/21 leaving - Deciding when to initiate Champalimaud Research Call/Programme: Catalyst *Coordinator at CCU: Fatima Active period: 01/09/16-31/05/20 locomotion to move to the next Programme Programme Cardoso) Bruno Costa-Silva (Coordinated by: reward location Call/Programme: 2017/2018 R&D Active period: 04/06/18-03/06/21 Predicting Effective Adaptation to Maria Paula Macedo, Universidade Call/Programme: 02/SAICT/2017 Unit evaluation Breast Cancer to Help Women to European Foundation for the Nova de Lisboa) Active period: 03/10/18-02/10/21 Active period: 01/01/20-31/12/23 BOUNCE Back Study of Diabetes Metabolic chronic diseases Cancer Research UK Call/Programme: H2020-SC1-2017- stratification: a case for gut-liver axis Albino Oliveira-Maia; Co-PI: CNECT-2 Roksana Pirzgalska (Veiga- derived exosomes. Zachary Mainen Portugal 2020 (PT2020) Carlos Ribeiro (Project head PI: Julia Active period: 01/11/17-31/10/21 Fernandes lab) Call/Programme: 02/SAICT/2017 Cognitive flexibility, cortical Cordero, University of Glasgow) Neuroimmune approach to Active period: 01/10/18-30/09/21 excitability and antidepressive CONGENTO - Consortium for Call/Programme: Pioneer Award Albino Oliveira-Maia (Coordinated diabetes-associated infections effect of psilocybin Genetically Tractable Organisms Project Title: Drosophila as a model to by: WATERFORD INSTITUTE OF Call/Programme: Young Bruno Costa-Silva (Coordinated by: Call/Programme: 02/SAICT/2017 Call/Programme: 01/SAICT/2016 study mechanisms of cancer-driven TECHNOLOGY - WIT) Investigator Research Award Rune Matthiessen, Universidade Nova Active period: 03/10/18-02/10/21 Active period: 01/06/17-31/05/20 behavioural changes A federated artificial intelligence Application de Lisboa) solution for monitoring mental Active period: 01/01/19-31/12/19 Estratificação de exossomas de Luzia Travado (Oliveira-Maia lab) PT2020 – BIOIMAGING- health status after cancer linfoma difuso de grandes células B Distress and regional brain INFRAESTRUTURAS / PPBI - treatment Call/Programme: 02/SAICT/2017 metabolism: a correlational Portuguese Platform of BioImaging European Commission - Call/Programme: H2020-SC1- European Molecular Biology Active period: 01/10/18-30/09/21 study in metastatic breast cancer Call/Programme: 01/SAICT/2016 Horizon 2020 DTH-2019 patients Active period: 01/06/17-31/05/20 Active period: 01/01/20-31/12/22 Organization (EMBO) Cristina João (Co-PI: Bruno Costa- Call/Programme: ICDT 2014 Megan Carey Silva) Active period: 01/06/16-31/01/20 Biodata.pt - Portuguese Biological Cerebellar circuit mechanisms of Michael Orger Bruno Costa-Silva The role of metastatic Data Network coordinated locomotion in mice — Whole-brain circuits controlling Call/Programme: EMBO- microenvironment in Multiple João Corrêa (Oliveira-Maia lab) Call/Programme: 01/SAICT/2016 LOCOMOUSE visuomotor behavior INSTALLATION GRANTS Myeloma extramedullary disease. Obsessive-compulsive disorder Active period: 19/06/17-17/06/20 Call/Programme: ERC-2014-STG Call/Programme: ERC-2017-COG Active period: 01/06/18-31/05/21 (EMphAsIS: Extramedular MyelomA and reinforcement learning: Active period: 01/05/15-30/04/20 Active period: 01/02/18-31/01/23 microenvironment Study) exploring the role of the FCImuno - Centro de Valorização Call/Programme: 02/SAICT/2017 orbitofrontal cortex e Transferência de Tecnologia Megan Carey Michael Orger (Coordinated by: Fundação Bial Active period: 01/10/18-30/09/21 Call/Programme: 02/SAICT/2017 em Imunoterapia da Fundação D. Cerebellar circuits for locomotor INSTITUT DU CERVEAU ET DE LA Active period: 01/06/18-31/05/21 Anna de Sommer Champalimaud e learning in space and time MOELLE EPINIERE - ICM) Gautam Agarwal (Mainen lab) Gonzalo de Polavieja Dr. Carlos Montez Champalimaud (LOCOLEARN) Zebrafish Neuroscience Dissecting dynamical components Decision-making in animal groups: Ana Fernandes (Oliveira-Maia lab) Call/Programme: Call/Programme: ERC 2019-CoG Interdisciplinary Training Hub of complex decision-making using a a multidisciplinar approach to From the Vagus Nerve to the LISBOA-46-2018-22 Active period: 01/05/20-30/04/25 (ZENITH) computer game-based task understand how social information is Ventral Tegmental Area: A Active period: 01/01/19-31/12/20 Call/Programme: H2020-MSCA- Call/Programme: Funding for processed pathway for post-ingestive food Eugenia Chiappe ITN-2018 Scientific Research 2018/2019 Call/Programme: ICDT 2014 reinforcement in the development Circuit mechanisms of self-movement Active period: 01/10/19-30/09/23 Active period: 02/01/19-31/12/20 Active period: 01/07/16-31/12/19 and treatment of obesity Research Projects/ estimation during walking Call/Programme: 02/SAICT/2017 Call/Programme: ERC-2017-STG Joe Paton Joe Paton Rita Fior Active period: 01/08/18-31/07/21 Grants Active period: 01/11/17-31/10/22 Basal ganglia circuit mechanisms How do dopamine neurons and Zebrafish patient derived xenografts underlying dynamic cognitive striatal populations interact during to predict anti-cancer drug response Ana Fernandes (Oliveira-Maia lab) Rui Costa behavior decision-making? for personalised medicine Call/Programme: Norma American Portuguese Behaviour Phenotyping using Inertial Call/Programme: ERC-2017-COG Call/Programme: Grants 2016/2017 Call/Programme: 02/SAICT/2017 Transitória BPD Biomedical Research Fund Sensors (WEAR) Active period: 01/04/18-01/04/23 Active period: 17/07/17-17/07/20 Active period: 01/10/19-30/09/22 Active period: 01/01/19-31/12/24
128 Michael Orger Drosophila melanogaster Carlos Ribeiro Call/Programme: Life Sciences Roeland Wolterink (Veiga-Fernandes Henrique Veiga-Fernandes The neural circuit basis of Call/Programme: 02/SAICT/2017 Identifying and testing the - Simons Collaboration on the lab) Tracing of pulmonary neuro- oculomotor behaviour in zebrafish Active period: 01/10/18-30/09/21 metabolites generated by two Global Brain Research Award Deciphering the architecture and immune networks
CRAR 2019 CRAR Call/Programme: ICDT 2014 psychoactive gut bacteria to alter Active period: 01/07/17-30/06/22 language of pulmonary neuroimmune Call/Programme: H2020-MSCA- Active period: 01/07/16-31/12/19 Henrique Veiga-Fernandes brain function and behavior communication IF-2017 Glia-derived factors in mucosal Call/Programme: HEALTH Zachary Mainen Call/Programme: CRI Irvington Active period: 14/03/18-13/03/20 Michael Orger (Co-PI); PI: Rui immune sensing RESEARCH 2017 CALL SPI Churchland A: International Postdoctoral Fellowship Program Oliveira, Fundação Calouste Call/Programme: ICDT 2014 Active period: 2018-2021 Brain Laboratory (IBL) Active period: 01/04/20-31/03/23 David Brea López (Veiga-Fernandes Gulbenkian Active period: 01/06/17-31/05/19 Call/Programme: Life Sciences lab) Developmental and - Simons Collaboration on the Neural regulation of the immune transgenerational effects of Henrique Veiga-Fernandes Liga Portuguesa Contra o Global Brain Research Award Erasmus University Medical system in the Gut oxytocin-like peptides on social Circadian regulation of innate lymphoid Active period: 01/07/17-30/06/22 Call/Programme: H2020-MSCA- behavior: an eco-evo-devo approach cells Cancro Center IF-2018 using zebrafish as a model Call/Programme: 02/SAICT/2017 Union for International Active period: 01/09/20-31/08/22 Call/Programme: 02/SAICT/2017 Active period: 14/06/18-13/06/21 Rita Fior Ivo Marcelo (Rui Costa Lab) Active period: 14/06/18-13/06/21 Molecular mechanisms of innate Cancer Control Neurobiology of social cognition Manuela Ferreira (Veiga-Fernandes immune evasion and rejection Call/Programme: ERASMUS MC Call/Programme: Liga Portuguesa Luzia Travado (Oliveira-Maia lab) Active period: 01/10/14-31/05/20 European Commission - Michael Orger lab) Widening Fellowships Whole-brain mechanisms of operant Role of diet-derived retinoids in Contra o Cancro - Núcleo Regional Validation of CALM psychosocial do Sul (Terry-Fox) therapy in MBC patients in learning in zebrafish: cells, circuits natural intraepithelial lymphocytes Ibrahim Tastekin (Ribeiro lab) and behaviour and early-life intestinal immunity Active period: 20/04/18-19/03/21 Portugal European Commission - Marie Call/Programme: UICC - SPARC Dissecting how the Drosophila Call/Programme: 02/SAICT/2017 Call/Programme: 02/SAICT/2017 Skłodowska-Curie actions brain regulates behavioral Active period: 17/07/18-16/07/21 Active period: 01/10/18-30/09/21 - Metastatic Breast Cancer National Institutes of Health Challenge - 2017 Call sequences of feeding to ensure Active period: 01/01/18-31/12/20 Bruno Costa-Silva protein homeostasis Nikolaos Papanikolaou (Co-PI); PI: Manuela Ferreira (Veiga-Fernandes Phenotypic characterization Christian Machens (Coordinated Call/Programme: H2020- Leonardo Vanneschi, Universidade lab) of Liver-derived exosomes WF-01-2018 Nova de Lisboa Early-life exposure to mycotoxins and by: Adam Kepecs, Cold Spring VAC-Associação Viver a populations associated with liver Harbor Laboratory) Active period: 2019-2021 (Awarded Improving Bio-Inspired Deep its impact on health Ciência metastasis in pancreatic cancers — 2019) Learning for Radiomics Call/Programme: 02/SAICT/2017 Computational and circuit ONCOSYSTEMS Call/Programme: 02/SAICT/2017 Active period: 01/10/18-30/09/21 mechanisms for information Call/Programme: H2020-MSCA- transmission in the brain Rita Fior Maria Martinez (Veiga-Fernandes Active period: 01/10/18-30/09/21 Molecular mechanisms of innate IF-2016 lab) Call/Programme: CFDA N.93.853 Active period: 01/07/17-30/06/19 Active period: 30/09/15-31/08/19 immune evasion and recognition Commensal microbiota regulation Leopoldo Petreanu Howard Hughes Medical Call/Programme: 10º Prémio of neuro-immune networks Cortical circuits for sensory Institute Crioestaminal 2017 Constanze Lenschow (Lima lab) Call/Programme: H2020-WF-01-2018 expectations Active period: 01/01/19-31/12/20 Anatomical and functional Active period: 01/09/20-31/08/22 Call/Programme: 02/SAICT/2017 Paul G. Allen Family characterization of the neural circuits Active period: 14/06/18-13/06/21 Joe Paton HHMI International Research Scholars Foundation VolkswagenStiftung controlling ejaculation Program 2017 Call/Programme: H2020-MSCA- European Molecular Biology Alfonso Renart IF-2017 Call/Programme: HHMI- International Henrique Veiga-Fernandes Michael Orger Organization (EMBO) Robustness and Energy-Efficiency of Deciphering peripheral Active period: 01/06/20-31/05/22 Spiking Neural Networks Research Scholars Program How spontaneous behaviour Active period: 01/09/17-31/08/22 neuroimmune architecture by emerges from brain-wide neural Constanze Lenschow (Lima lab) Call/Programme: 02/SAICT/2017 intercellular labelling Julia Huntenburg (Mainen lab) Active period: 14/06/18-13/06/21 network dynamics Deciphering the effects of locus Anatomical and functional Call/Programme: Allen Call/Programme: VWS- characterization of the neural Distinguished Investigators coeruleus activity on whole-brain Christa Rhiner Kavli Foundation VolkswagenStiftung (Life) dynamics and neurovascular coupling circuits controlling ejaculation and Program Active period: 01/01/19-31/12/23 the post-ejaculatory refractory Molecular mechanisms of adult Active period: 15/12/18-01/12/21 Call/Programme: H2020-WF-01-2018 neural stem cell activation following Carlos Ribeiro Active period: 01/10/19-30/09/21 period brain injury in Drosophila The microbial basis of feeding Call/Programme: Long-Term Call/Programme: 02/SAICT/2017 decisions Leopoldo Petreanu Fellowships Active period: 01/08/18-31/07/21 Call/Programme: The Kavli Portugal 2020 Fellowships Do cortical feedback connections Active period: 01/01/18-31/12/19 Foundation store statistical knowledge of the Carlos Ribeiro Active period: 2017-2021 Durval Costa (Coordinated by: environment? Ana Rita Mendes (Lima lab) Microbiome, nutrients and the Enermeter) AXA Call/Programme: H2020-MSCA- Functional characterization of the brain: Identifying the molecular Bone Tumor Scan - CAD IF-2017 spinal ejaculation network programs underlying the impact “la Caixa” Foundation Call/Programme): 33/SI/2015 Fanny Cazettes (Mainen lab) Active period: 01/03/18-30/03/19 Call/Programme: Short-Term of essential amino acids and the Active period: 01/09/16-30/11/19 Neural representations of policy Fellowships microbiome on brain function Mireia Castillo (Coordinated by: uncertainty underlying adaptive Davide Reato (Renart lab) Active period: 14/10/19-03/11/19 Call/Programme: 02/SAICT/2017 Arkaitz Carracedo, Asociación Centro Durval Costa (Coordinated by: behaviour Functional role of neuronal Active period: 2018-2021 de Investigatión en Biociencias) Neadadvance) Call/Programme: AXA Post- spontaneous activity for sensory María López (Veiga-Fernandes lab) Eradicating prostate cancer LyRaCAD .: Sistema CAD para Doctoral Fellowships 2016 processing Commensal microbiota regulation of Zita Santos (Ribeiro lab) metastasis before clinical análise de imagens PET/CT com Active period: 01/07/17-31/12/19 Call/Programme: H2020-MSCA- neuro-immune networks Call/Programme: Norma Transitória manifestation (HiddenMETS) FDG em linfomas - uma abordagem IF-2016 Call/Programme: Long-Term BPD Call/Programme: la Caixa Health Radiomics Active period: 01/09/18-31/08/20 Fellowships Active period: 2019-2024 Research 2017 Call Call/Programme: 31/SI/2017 Boehringer Ingelheim Fonds Active period: 01/09/19-31/08/21 Active period: 01/09/19-31/08/21 Active period: 12/08/19-11/08/22 Cristina Chavarrias (Shemesh lab) Noam Shemesh Miguel Paço (Chiappe lab) Neuronal MRI: Harnessing Marko Sestan (Veiga-Fernandes lab) Mapping specific neural activity by Bruno Costa-Silva (Coordinated Rui Costa (Project coordinator: chemical exchange between It takes two for tango: Neuroimmune Inovamais) Finding the neuronal basis of coupling ultrahigh field functional by: Maria Abad, Centro Nacional de Drosophila courtship chasing N-Acetylaspartate and water for regulation of metabolic homeostasis MRI, optogenetics, and calcium Investigaciones Oncológicas Carlos III) BRAIN-LIGHTING - Sondas functional imaging of neural activity Call/Programme: Long-Term neuronais dotadas com interação sensorimotor control recordings Defining the role of Exosome- Active period: 01/01/20-31/12/21 — Neuronal MRI Fellowships Call/Programme: ICDT 2014 Secreted Micropeptides in elétrica, ótica e comunicação sem Call/Programme: H2020-MSCA- Active period: 01/03/20-28/02/22 fios para controlo de neurónios-alvo Active period: 01/05/16-31/10/19 Pancreatic Cancer Joaquim Contradanças (Orger lab) IF-2016 Call/Programme: “la Caixa” Health Call/Programme: 08/SI/2015 Active period: 01/05/17-28/08/19 Active period: 01/04/16-30/09/19 Whole-brain mechanisms of Luisa Vasconcelos Research 2018 Call operant learning in zebrafish: cells, Fundação para a Ciência Communication during courtship: the Active period: 15/09/19-14/09/22 circuits and behavior Rui Simões (Shemesh lab) e a Tecnologia role of ovipositor extrusion Call/Programme: PhD Monitoring cancer heterogeneity Call/Programme: 02/SAICT/2017 Leopoldo Petreanu Simons Foundation Fellowships based on the dynamic assessment of Hugo Marques (Carey lab) Active period: 01/07/18-30/06/21 Optical dissection of cortical circuits for Active period: 01/01/20-31/12/21 the Warburg effect under metabolic The nature of error signals in sensory expectations Christian Machens perturbation locomotor learning Luisa Vasconcelos Call/Programme: HEALTH RESEARCH Communication between neural Call/Programme: H2020-MSCA- Call/Programme: 2016 The social fly: genetic architecture 2017 CALL populations: circuits, coding, and Cancer Research Institute IF-2018 Postdoctoral Fellowships for social learning neural circuits in Active period: 01/12/18-30/11/21 behaviour Active period: 02/05/19-01/05/21 Active period: 01/09/17-31/08/23
130 Andreia Maia (Castillo-Martin lab) behaviours in Drosophila Teresa Serradas Duarte (Paton lab) David Brea López (Veiga- Call/Programme: Academias Expansion of natural killer cells as Call/Programme: 2019 PhD Imaging the Neuronal Reorganization Fernandes lab) Gulbenkian do Conhecimento a complementary approach for Fellowships in a Sensitive Period of Heightened Regulation of intestinal immunity by Active period: 19/10/18-18/10/21
CRAR 2019 CRAR adoptive cell therapy in advanced Active period: 2020-2024 Plasticity brain-derived signals colorectal cancer’ (NKAT-CRC) Call/Programme: 2016 PhD Call/Programme: Individual call to Call/Programme: 2019 PhD Maria Bettencourt (Moreno lab) Fellowships scientific employment stimulus Fellowships The role of cell fitness in tumor Active period: 04/01/17-31/03/21 Active period: 01/06/19-31/05/25 Support to Active period: 01/01/20-31/12/23 progression and metastasis formation Conferences & Travel Call/Programme: 2017 PhD Filipe Rodrigues (Paton lab) Grants: Nuno Rito (Chiappe lab) Fellowships Disentangling cognitive & movement Human Frontier Science Neural basis of a visually guided Active period: 01/01/18-31/12/21 parameters in interval timing Funding oriented behavior in Drosophila Call/Programme: 2017 PhD Program Constanze Lenschow (Lima lab) melanogaster Mariana Reis (Moreno lab) Fellowships Funding entity (Call/Programme): Call/Programme: 2017 PhD Cell Competition in Drosophila Active period: 01/08/18-31/07/22 Constanze Lenschow (Lima lab) IBRO-APRC (Travel Grant and Short Fellowships organs: the effects of suboptimal Anatomical and functional Stay 2019 grant) Active period: 01/08/18-31/07/22 cells accumulation and insights into Beatriz Belbut (Petreanu lab) characterization of the neural the winner-loser communication in a The functional coupling of cortico- circuits controlling ejaculation Gabriela Ribeiro (Oliveira-Maia lab). Miguel Paço (Chiappe lab) competition scenario cortical loops during behavior Call/Programme: HFSP Funding entity (Call/Programme): Studying the control system guiding Call/Programme: 2018 PhD Call/Programme: 2019 PhD Postdoctoral Fellowships Travel Scholarship; New Investigators Drosophila during female tracking Fellowships Fellowships Active period: 01/07/18-31/05/20 Autumn School; Napoli, Italy. Call/Programme: 2018 PhD Active period: 01/01/19-31/12/22 Active period: 01/08/20-31/07/24 European Association for the Study Fellowships Camille Mazo (Petreanu lab) of Obesity Active period: 15/03/2018- Carolina Rodrigues (Moreno lab) Anabel Rodrigues (Rhiner lab) Do cortical feedback connections 31/12/2019 Unravelling the link between Cell Molecular Mechanisms of Neural store statistical knowledge of the Zachary Mainen Competition and Alzheimer's Disease Stem Cell Activation following environment? Funding entity (Call/Programme): Daniela Pereira (Rui Costa lab) Call/Programme: 2018 PhD Brain Injury in Drosophila Call/Programme: HFSP Wellcome Trust Call/Programme: Individual Call to Fellowships melanogaster Postdoctoral Fellowships 2019 Champalimaud Research Scientific Employment Stimulus Active period: 01/07/19-31-06-2023 Call/Programme: 2016 PhD Active period: 31/03/19-30/03/22 Symposium: Tissue homeostasis in Active period: 01/06/19-31/05/25 Fellowships health and disease Raquel Lemos (Oliveira-Maia lab) Active period: 03/01/17-28/02/21 Davide Reato (Renart lab) Ana Carolina Marques (Costa- Dual Task Cost as a measure of Role of neuronal spontaneous Henrique Veiga-Fernandes Silva lab) Cognitive Reserve and its application in Mariana Batista Santos (Rhiner lab) activity for sensory processing Funding entity (Call/Programme): Nanobiosensing platform based candidates for Brain Radiotherapy Signatures of damage-responsive Call/Programme: 2016 Individual IUBMB-International Union of on MIP-SERS for breast cancer Call/Programme: 2016 Postdoctoral neural stem cells (Champalimaud Postdoctoral Fellowships Biochemistry and Molecular Biology exosome characterization and Fellowships Foundation) Active period: 03/01/17-28/02/21 2019 Champalimaud Research detection Active period: 01/02/17-31/07/19 Call/Programme: 2015 PhD Symposium: Tissue homeostasis in Call/Programme: 2016 PhD Fellowships health and disease Fellowships Gabriela Ribeiro (Oliveira-Maia lab) Active period (at CF): 04/02/2019- Sociedade Portuguesa de Active period: 09/01/17-31/08/21 Modulation of postingestive reward 31/01/2020 Hematologia Eugenia Chiappe mechanisms by weight loss surgery Funding entity (Call/Programme): Vanda Póvoa (Fior Lab) Call/Programme: 2017 PhD Rita Figuereido (Ribeiro lab) Bruna Velosa Ferreira (João lab) KF-The Kavli Foundation Dissecting intra-tumour clonal Fellowships The effects of tumorigenesis on O papel do micro-ambiente Kavli workshop on neural circuits and dynamics and its cross-talk with the Active period: 01/01/18-31/12/21 nutrient cravings: dissecting metastático no Mieloma Múltiplo behavior of Drosophila meeting microenvironment in a zebrafish the role of cellular metabolism extramedular xenograft model Gonçalo Cotovio (Oliveira Maia lab) in directing specific nutritional Call/Programme: Bolsas de Call/Programme: 2016 PhD Antidepressant mechanisms of appetites to sustain high cell Iniciação à Investigação Fellowships psilocybin: from cortical excitability to proliferation rates Active period: 05/06/18-04/06/20 Active period: 31/01/17-28/02/21 brain functional connectivity Call/Programme: 2019 PhD Call/Programme: 2017 PhD Fellowships The Federation of European Mayra Martinez Lopez (Fior Lab) Fellowships Active period: 2020-2024 Zebrafish Avatars as a model for Active period: 01/08/18-31/07/22 Biochemical Societies chemotherapy and immunotherapy Manuela Ferreira (Veiga-Fernandes response in bladder cancer Ana Maia (Oliveira Maia lab) lab) Ana Queirós (Moreno lab) Call/Programme: IGC-IBB PhD Immune dysfunction in obsessive- Role of diet-derived retinoids in Regulation of “fitness fingerprints” programme compulsive disorder: from natural intraepithelial lymphocytes mediated cell competition Active period: 1/03/18 - 1/03/22 environmental risk factors to clinical and intestinal defence Call/Programme: FEBS Long-Term and brain imaging correlates Call/Programme: Investigador FCT Fellowships Dario Sarra (Mainen lab) Call/Programme: 2019 PhD 2015 Active period: 01/01/19-31/12/20 Serotonin modulation circuitry of Fellowships Active period: 01/01/17-31/12/21 patience and impulsivity Active period: 01/07/20-30/06/24 Call/Programme: 2017 PhD Cristina Godinho Silva (Veiga- Fellowships Lucas Martins (Orger lab) Fernandes lab) Education Projects Active period: 01/01/18-31/12/21 Light-sheet imaging of functional Control of innate lymphoid cells by networks underlying optic-flow circadian clock signals Kcénia Bourgrova (Mainen lab) processing in the zebrafish brain Call/Programme: 2016 Individual BPI & "la Caixa" Foundation The serotonergic-medial prefrontal Call/Programme: 2017 PhD Postdoctoral Fellowships cortex circuits underlying action Fellowships Active period: 03/01/17-28/02/23 Catarina Ramos (Project decisions Active period: 01/08/18-31/07/22 coordinator: TreeTree2) Call/Programme: 2019 PhD Manuela Ferreira (Veiga-Fernandes Aprender a Aprender: Laboratório Fellowships Joaquim Contradanças (Orger lab) lab) de Metacognição, Neurociência e Active period: 01/01/20-31/12/23 Whole-brain mechanisms of operant Exploratory Research Project Machine Learning learning in zebrafish: cells, circuits and Call/Programme: Programa Call/Programme: Prémio BPI “la Matheus Farias (Moita lab) behavior Investigador FCT Caixa” Infância On the mechanisms by which Call/Programme: 2018 PhD Active period: 20/12/16-19/12/21 Active period: 01/09/19-31/08/20 descending neurons control Fellowships defensive behaviors of fruit flies Active period: 15/03/2018-31/12/2019 Miguel Rendas (Veiga-Fernandes Call/Programme: 2017 PhD lab) Fellowships Elena Hindinger (Orger lab) Regulation of innate lymphoid cells by Fundação Calouste Active period: 2018-2022 The neural control of gait switching in circadian cues Gulbenkian larval zebrafish Call/Programme: 2017 PhD Mirjam Heinemans (Moita lab) Call/Programme: 2019 PhD Fellowships Fellowships Catarina Ramos Social modulation of defensive Active period: 01/01/20-31/12/23 Active period: 01/01/18-31/12/21 Metodologias Experimentais
132 complex spikes in the mouse cerebellum Thesis advisor: Megan Carey
CRAR 2019 CRAR Theses Lucas Soares Agenda An unsupervised generative strategy for detection and PhD Theses Rita Ribeiro da Silva characterization of rare Immune recovery of HIV infected behavioral events in mice in patients and thymic function open-field to assess the effect 09 Meet a Theorist Seminar Series Thesis advisor: Cristina João of optogenetic activation of January Maria Luz Cardenas, Institut de Microbiologie de la Catarina Albergaria serotonergic neurons in the Mediterranee in Marselille Behavioral state modulation of dorsal raphe nuclei 15-16 Courses (M,R) systems of Robert Rosen as the essence of living cerebellar associative learning Thesis advisors: Zachary Mainen organisms: metabolic circularity as a guiding vision in Thesis advisor: Megan Carey 4 Andor Academy: Frontiers in fast, low-light imaging, MSc Theses (CR) & Luis Correia (Faculdade de microscopy and data visualisation Biology Ciências UL) Dana Darmohray Host: Davide Accardi Education & Events & Education * The event was organised in partnership with Oxford 12 Colloquia Cerebellar contributions to John Tuthill, University of Washington, USA Amber Brands Maria Esteves MM Instruments. locomotor coordination and Neural mechanisms of leg proprioception and motor Conductance-based dynamics in From the vagus nerve to the learning in mice ventral tegmental area: a control in Drosophila Thesis advisor: Megan Carey spike-coding networks preserve 24 Colloquia accurate network representation pathway for post-ingestive food François Leulier, Institut de Génomique Fonctionnelle de Lyon, Thesis advisor: Christian Machens reinforcement in the development France Elizabeth Rickenbacher of obesity Mechanisms of self-defense Host-Microbiota Mutualism upon Chronic Undernutrition: Ana Beatriz Varanda Thesis advisor: Albino Oliveira- Lessons from gnotobiotic animal models May suppression of mothers under Maia threat in the presence of offspring Combined effects of Olaparib and Thesis advisor: Marta Moita DNA damage inducing therapies 29-30 SC Workshop Pedro Silva Grant Writing by Christina Schütte (CEO, Prosciencia) 2 Colloquia in a zebrafish xenograft model of Alan Urban, Neuro-Electronics Research Flanders, IMEC, triple negative breast cancer. Comparative analysis of Andres Laan locomotor behaviour and VIB, KU Leuven, Belgium Testing the predictive Thesis advisor: Rita Fior 31 Colloquia Brain-wide functional ultrasound imaging (fUSi) of intact descending motor system Josh Huang, Cold Spring Harbor Laboratory, USA power of normative theories circuit dynamics anatomy of larval zebrafish and Genetic dissection of cortical neuron types and circuits: in social neuroscience Ana Sofia Castro Verde Quantifying age-related differences giant danio from transcriptional mechanism to motor control Thesis advisor: Gonzalo de Polavieja Thesis advisor: Michael Orger 2-3 Conference in Diffusion Tensor Imaging Swiss Portuguese Science and Innovation conference: biomarkers for the male urethral Antonia Groneberg Renata Quintinio Switzerland-Portugal 2019 Early life social experiences shape sphincter complex of patients with Chairs: Carlos Ribeiro, Ambassador André Regli (Swiss (suspected) prostate cancer Prediction of treatment response social avoidance kinematics in in patients with multiple myeloma February Embassy, Lisbon) larval zebrafish Thesis advisor: Nickolas Papanikolaou undergoing chemotherapy using Thesis advisors: Gonzalo de mri derived imaging biomarkers 07 Meet a Theorist Seminar Series Polavieja & Michael Orger 14 Colloquia Pablo A. Iglesias, Department of Electrical & Computer Thesis advisor: Nickolas Jesse Goldberg, Cornell University, USA Bárbara Costa Engineering, The Johns Hopkins University Papanikolaou Dopamine neurons change their tuning according to João Afonso Towards High-Resolution Resting- The set point of coupled excitable systems: relations to courtship context in singing birds Multiplexed simultaneous State fMRI in the Mouse Brain wave propagation and morphology of protrusions in Thesis advisor: Noam Shemesh Susana Dias representations of cognitive and 3-Dimensional characteriSation 21 Colloquia migrating cells motor features, in the mouse of PanIN (pancreatic medial prefrontal cortex, during a Carolina Seabra Caroline Fabre, University of Cambridge intraepithelial neoplasia) in Seismic communication between courting Drosophila flies 09 Colloquia memory guided behaviour Prostate Cancer Biochemical Peter Dayan, Max Planck Institute for Biological Recurrence Prediction After cleared human pancreatic Thesis advisor: Alfonso Renart cancer tissues by multiplex Cybernetics, Tübingen, Germany Radical Prostatectomy Using 26-27 Conference The Good, The Bad, and Something Inbetween: Dopamine immunofluorescence International Brain Laboratory PostDoc Summit Luis Moreira Machine Learning Analysis of in Active Avoidance Histopathology Thesis Advisor: Mireia Castillo- Organisers: Eric DeWitt, Guido Meijer Mate-choice and social preference Martin in Mus musculus females Thesis advisor: Nickolas Papanikolaou 15- 20 SC Workshop Thesis advisor: Susana Lima Scientific Writing by Ana Gerschenfeld (Science Writer, CCU) Cláudia Santos Constantino Marina Fridman Reproducibility study of tumor March 16 Colloquia Contextual modulation of visual biomarkers extracted from positron Asya Rolls, HHMI-Wellcome International Scholar; thalamocortical circuits emission tomography images with 6 Workshop Rappaport Institute for Medical Research; Technion, Thesis advisor: Leopoldo Petreanu 18f-fluorodeoxyglucose 5 Cosyne satellite serotonin workshop Israel Institute of Technology Thesis advisor: Durval C Costa Organisers: Romain Ligneul, Zachary Mainen Bi-directional communication between the brain and the Nuno Calaím immune system Robustness of spike coding networks Daniel Silva 14 Colloquia Thesis advisor: Christian Machens Cortical excitability and its Anna Devor. University of California, San Diego, USA 22-23 Workshop modulation, in vivo, using Microscopic Foundation of Multimodal Human Imaging Obesity at the interface of neuroscience and physiology Paulo Miguel dos Santos Ferreira Transcranial Magnetic Stimulation Organisers: Gabriela Ribeiro, Roksana Pierzchalska Voxel-based dosimetry using Thesis advisor: Albino Oliveira-Maia 21 Colloquia * The event was funded by the Novo Nordisk Grant of the multimodal images for patient- Mark Andermann, Beth Israel Deaconess Medical Center European Association for the Study of Obesity for the specific liver radioembolization João Carvalho & Harvard University, USA 2019 European Obesity Day. with yttrium-90 charged glass Automatic detection and Selective processing of need-relevant cues: a dialogue microspheres segmentation of pulmonary lesions between hypothalamus, amygdala and cortex 23 Colloquia Thesis advisor: Durval C Costa on ct scans using deep convolutional Kevin Briggman, Center of Advanced European Studies neural networks 28 Colloquia and Research (CAESAR), Germany Pedro Castro-Rodrigues Thesis advisor: Nickolas Papanikolaou João Pedro Pereira, Yale School of Medicine, USA Correlating structure and function in the mammalian Knowledge versus experience: How to make and when not to make B cells retina and beyond exploring model-based and model- Inês Dias free reinforcement learning in Investigating the structural 29 Workshop obsessive-compulsive disorder and physiological properties of Cool Tools for Science: Users Innovation Thesis advisor: Albino Oliveira-Maia ventromedial hypothalamic neurons Event Organisers: Biodata.pt; CONGENTO; RNEM - across the estrous cycle of female mice April Portuguese Mass Spectrometry Network Ricardo Zacarias Thesis advisor: Susana Lima Local Organisers: João Cruz, Laura Ward Mechanisms of defensive action 04 Colloquia selection in flies Leonard Dupont Geoffrey Schoenbaum, National Institute on Drug Abuse, 30 Colloquia Thesis advisors: Marta Moita & Error signals during locomotion: Baltimore, MD, USA Bence Olveczky, Harvard University Maria Luisa Vasconcelos spatiotemporal modulation of The dopaminergic prediction error is not what you may think Neural circuits underlying motor skill learning and execution
134 03 Colloquia June Javier F Medina, Baylor College of Medicine, USA Functional organization of neural circuits for supervised sensorimotor learning in the cerebellum CRAR 2019 CRAR 04 Meet a Theorist Seminar Series Mark van Rossum, University of Nottingham, UK Outreach Energy efficient synaptic plasticity 8-10 Conference Champalimaud Research Symposium 2019: 06 Colloquia Tissue Environment in Health and Disease Jean-Christophe Billeter, Univ. of Groningen, The Netherlands Symposium Chairs: Christa Rhiner, Eduardo Moreno and Modulation of individual behaviour by social experience Henrique Veiga-Fernandes Organisers: Ana Casaca, Patrícia Correia, Pedro Alves January April 25-28 Event CR Annual Retreat 21 Conference 2 School visit Retreat Committee: Catarina Pimentel, Gonçalo Guiomar, CONGENTO Annual Meeting 2 “A special class on... Biology” Instituto Superior Técnico CCU Irene Argudo, João Pereira, Patrícia Correia, Roksana Organisers: Rita Nunes, Joana Monteiro and João Cruz Public: Students from different high schools in the Public: High school students from Agrupamento de Pirzgalska, Ruth Diez del Corral, Susana Lima (CR), Márcia Silva (iMM); Sara Marques and José Belo Escolas de Azambuja and Escola A Cidadela, Cascais (CEDOC), Manuel Rebelo (IGC) Great Lisbon area Events & Outreach 27 Event 22 School visit 5 Academia Gulbenkian do Hackathon by the Data Analyst Working Group CCU July Organisers: Marina Fridman, Gabriela Fioreze Public: High school students from St Peter’s Conhecimento “ Neuronautas” International School, Lisbon Opening Session 04 Meet a Theorist Seminar Series CCU Dmitri Chklovskii, Flatiron Institute, New York Public: 10th grade students How insects see motion: convergence of theory and experiment 29 School visit November CCU 14-3 Aug Courses Public: High school students from Agrupamento de Escolas de Silves and Escola Sec. Dom Manuel Martins, Setúbal 26 Academia Gulbenkian do CAJAL Neuroscience Training Course 2019 - Interacting with 05 Meet a Theorist Seminar Series Conhecimento “ Neuronautas” Neural Circuits Rafal Bogacz. University of Oxford, UK Directors: Leopoldo Petreanu, Michael Häusser (Univ. College Dopamine as prediction error in active inference Session 1 London), Menno Witter (Kavli Instit. for Systems Neuroscience) CCU Support: Simone Zacarias, Maria Teresa Dias 14 Colloquia Public: 10th grade students Georg Keller.Friedrich Miescher Institute for Biomedical February Research (FMI), Switzerland 30 School visit An experience dependent comparator circuit in layer 2/3 of CCU mouse cortex 5 Jornadas Tecnológicas (JorTec)
August Team: Careers Science The Clara Ramos, Catarina Araújo, Silvana Mezzera Cecilia Afonso, João Ferreira, Public: High school students from Escola Secundária com de Biomédica 3.º CEB Poeta Al Berto, Sines and Colégio Miramar, Mafra 15 Conference Faculdade de Ciências e Tecnologia, Universidade 11-31 Courses Imaging Hallmarks of Cancer Nova de Lisboa CAJAL Neuroscience Training Course 2019 - Computational Pancreatic Cancer: From Cell Biology to Treatment Public: Undergraduate and Master’s students Neuroscience Host: Celso Matos Directors: Brent Doiron (Univ. of Pittsburgh); Maria Geffen * in partnership with The European School of Radiology (Univ. of Pennsylvania); Jakob Macke (Technical Univ. of 19 School visit May Munich), Joe Paton (CR) 20 Workshop CCU Support: Simone Zacarias, Maria Teresa Dias Improving Openness in Animal Research in Portugal Public: High school students from Escola Básica e 3 Academia Gulbenkian do Organisers: Isabel Campos, João Cruz, Laura Ward Secundária Anselmo de Andrade in Almada, and * in collaboration with the European Animal Research Escola Secundária Henrique Medina, Esposende Conhecimento “ Neuronautas” Assoc., the Federation of European Neuroscience Societies, Session 2 Society for Neuroscience, CONGENTO, QuantOCancer. CCU September Public: 10th grade students 21 Colloquia 12 Colloquia Yohanns Bellaïche. Institut Curie, France March Amy Bastian. Johns Hopkins University; Kennedy Krieger Morphogenesis of proliferative tissues: scaling between 8 JobShop Institute mechanical stress and proliferation. Instituto Superior Técnico Learning and Re-learning Movement 4 School visit Public: Undergraduate and Master’s students CCU 22 SC Workshop Public: Students from Agrupamento de Escolas de Beja 19 Colloquia Scientific Writing by Ana Gerschenfeld (Science Writer, CCU) Meet a Theorist Seminar Series (7) Christian Keemink, Organisers: Sander Renart Alfonso Machens, 10 Academia Gulbenkian do Matteo Carandini. University College London (UCL) and Escola Superior de Saúde do Instituto Politécnico Neural basis of decisions guided by sensory confidence de Beja Conhecimento “ Neuronautas” and reward value Session 3 3-31 Brain Awareness Week: CCU 20-23 Courses December Public: 10th grade students Landing in the the Drosophila World - Introductory Course “Cá Dentro - Descobrir o Cérebro” on Using Drosophila as Model Organism Centro Cultural de Belém, Fábrica das Artes Organisers: Fabiana Herédia and Teresa Gomes 03 Meet a Theorist Seminar Series Henning Sprekeler. Bernstein Center for Computational Public: Children, Families, Schools 17 Academia Gulbenkian do (CEDOC), Isabel Campos, João Cruz, Liliana Costa (CR); Neuroscience, Berlin, Germany Gaston Guilgur and Liliana Vieira (IGC) Conhecimento “ Neuronautas” Encoding and decoding a multiplexed neural code in 16-22 Brain Awareness Week: Session 4 26 Colloquia neural circuits Instagram Campaign CCU Alex Schier, Harvard University, USA. Champalimaud Research Instagram profile Public: 10th grade students Cellular Biographies: Reconstructing Developmental 05 Colloquia Public: (Young) Adults Ilana Witten. Princeton University Trajectories Striatal circuitry for reward learning and decision making. 18 120 Years of Colégio 21 Visit from Escola Ciência Viva 12 Colloquia CCU Valsassina, talk “Neuroscience Jeremiah Cohen. Johns Hopkins University, USA Public: Students from Escola Básica Adriano Correia de & Learning” October Neurophysiology of dynamic decision making Oliveira and Escola Básica Padre Abel Varzim Fundação Calouste Gulbenkian 13 Event Public: Students, teachers and families 01 Meet a Theorist Seminar Series 1st DevBioMed Symposium - From Development to 26 School visit Rubén Moreno-Bote, Pompeu Fabra University, Barcelona Medicine and Back CCU 21 School visit Aligned neuronal encoding of sensory information, biases Organisers: Rita Fior & Ana Teresa Tavares (CEDOC) - Public: High school students from Escola Sec. Ferreira CCU and choices in perceptual decision making Portuguese Society for Developmental Biology Dias, Agualva Public: High school students from Escola Secundária 2019 Colloquium committee: Catarina Catarina committee: Colloquium 2019 Antonia Silva, da Albergaria, Costa Bruno Leopoldo Petreanu Mezzera, Groneberg, Cecilia
136 de Arganil- Agrupamento de Escolas de Arganil and Agrupamento de Escolas de Valongo Centre for the Unknown” 15 Laboratório de Metacognição September European Research Council Agency in Brussels Public: Communication teams from ERC host institutions e Machine Learning - Aprender CRAR 2019 CRAR 22 MICRODay 4 Academia Gulbenkian do a Aprender (LaMAA) CCU Conhecimento “ Neuronautas” in collaboration with the programme After School from Public: Students from different high schools in the Great 23 Laboratório de Metacognição Instituto Superior Técnico - Session 1 Lisbon area Final Session Instituto Superior Técnico CCU e Neurociência - Aprender a Public: Students from different high schools in the 24 Academia Gulbenkian do Public: 10th grade students Aprender (LaMAA), Great Lisbon area in collaboration with the programme After School from Conhecimento “ Neuronautas” Instituto Superior Técnico - Session 2 Session 5 5-6 2-Day Job Shadowing CCU 20 Laboratório de Metacognição CCU Experience Public: Students from different high schools in the e Neurociência - Aprender a Public: 10th grade students CCU Great Lisbon area
Outreach Public: 10th grade students Aprender (LaMAA) in collaboration with the programme After School from 28 School visit 24-25 2nd Citizen Science Instituto Superior Técnico - Session 6 Date: 28th 17 School visit Meeting - Poster: “Neuronautas: CCU CCU CCU Public: Students from different high schools in the Public: High school students from Agrupamento de Public: High school students from Biotech School in an academy for new explorers Great Lisbon area Escolas de Valongo Fredericia, Denmark of the brain” Academia Nacional das Ciências 22 Laboratório de Metacognição 31 Academia Gulbenkian do 26 Public Event ProjectAr - Public: Science communicators, citizen science Conhecimento “ Neuronautas” “Chasing Coral” practitioners e Machine Learning - Aprender CCU a Aprender (LaMAA) Session 6 Public: (Young) Adults in collaboration with the programme After School from CCU 30 Laboratório de Metacognição Instituto Superior Técnico - Session 2 Public: 10th grade students e Neurociência - Aprender a Instituto Superior Técnico 26-29 Next Einstein Forum Aprender (LaMAA) Public: Students from different high schools in the - Africa Science Week Cabo in collaboration with the programme After School from Great Lisbon area Instituto Superior Técnico - Session 3 Verde, Workshop: “Inteligência CCU June Artificial em Saúde, Robótica e Public: Students from different high schools in the 26 Visit to the CCU Great Lisbon area Venue: CCU Programação” Public: Adults, Volkswagen Group 1 Public event integrated in the São Lourenço dos Orgãos, Ilha de Santiago, Cabo Verde “Brain wider than the sky” exhibit Public: Children and unemployed young adults (mostly 31-3 Science on Stage Festival Fundação Calouste Gulbenkian girls and women) 27 Talk “Espreitando para Public: Adults - Stand and Talk: “What Can dentro da caixa: o que os Neuroscience and Education neurónios nos podem ensinar 6 Public event integrated in the 28 Aprendizagem Científica Learn from Each Other?” “Brain wider than the sky” exhibit (HAC) in collaboration with Centro Congressos de Cascais sobre o comportamento” Public: STEM teachers from over 30 countries Escola de Ciências Sociais, Universidade de Évora Fundação Calouste Gulbenkian Instituto Superior Técnico Public: Undergraduate and Master’s students Public: Adults Instituto Superior Técnico Public: High school students 7 Academia Gulbenkian do Conhecimento “ Neuronautas” 29-30 Congresso dos November Session 7 Cozinheiros December CCU Pavilhão L/XL, Lx Factory 5 School visit Public: 10th grade students Public: Adults CCU 11 Talk “Brain Machine- Public: High school students from Denmark Interfaces and learning 14 Academia Gulbenkian do Team: Rita Fior, Catarina Ramos dynamics: controlling external Conhecimento “ Neuronautas” devices with brain activity” Session 8 October 5 Laboratório de Metacognição Escola de Ciências Sociais, Universidade de Évora CCU e Neurociência - Aprender a Public: Undergraduate and Master’s students Public: 10th grade students 7 1st Meeting of the Academias Aprender (LaMAA) Gulbenkian do Conhecimento in collaboration with the programme After School from 17-22 Academia Gulbenkian do Fundação Calouste Gulbenkian Instituto Superior Técnico - Session 4 Conhecimento “ Neuronautas” Public: Adults CCU Public: Students from different high schools in the Boot Camp Great Lisbon area CCU and outdoor spaces in the neighborhood 16 Laboratório de Metacognição Public: 10th grade students e Neurociência - Aprender a 5 School visit Aprender (LaMAA) CCU in collaboration with the programme After School from Public: Undergraduate students from Associação de Instituto Superior Técnico - Session 1 Estudantes de Farmácia, Universidade de Lisboa July CCU Public: Students from different high schools in the 15-26 Lab internship, in Great Lisbon area 13 Laboratório de Metacognição collaboration with Maria e Neurociência - Aprender a 17-18 Excellence in Science Aprender (LaMAA) de Sousa Summer Research in collaboration with the programme After School from Program Communication Workshop - Talk: Instituto Superior Técnico - Session 5 CCU “Science communication and CCU Public: High school student Outreach at the Champalimaud Public: Students from different high schools in the Great Lisbon area
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