EMBO Facts & Figures 2019
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PDW CV March 2014
Curriculum Vitae Dr. ir. Peter De Wulf Contact information European Institute of Oncology Department of Experimental Oncology Via Adamello 16 20139 Milan, Italy E-mail: [email protected] Tel: (++39) 0294375036 Fax: (++39) 0294375990 Position 08/2005 - present Principal Investigator Director Kinetochore and Chromosome Segregation Research Unit Department of Experimental Oncology European Institute of Oncology Milan, Italy Education and training 11/1999 - 06/2005 Post-Doctoral Research in Yeast Kinetochore Biology Department of Biology Massachusetts Institute of Technology 77 Massachusetts Avenue 02139 Cambridge (MA), USA Mentor: Prof. Dr. Peter K. Sorger (now at Harvard Medical School, Department of Systems Biology) 07/1996 - 10/1999 Post-Doctoral Research in Bacterial Two-Component Signal Transduction Department of Microbiology and Molecular Genetics Harvard Medical School 210 Longwood Avenue 02115 Boston (MA), USA Mentor: Prof. Dr. Edmund C.C. Lin (deceased) 04-20/07/1999 Course in Protein Purification and Characterization Cold Spring Harbor Laboratory. Cold Spring Harbor (NY), USA Instructors: Dr. Richard Burgess, Dr. Albert Courey, Dr. Sue-Hwa Lin, Dr. Sheenah Mische 06-20/06/1997 Course in Advanced Bacterial Genetics Cold Spring Harbor Laboratory. Cold Spring Harbor (NY), USA Instructors: Dr. Bonnie Bassler, Dr. Colin Manoil, Dr. James Slauch 06/1995 - 06/1996 Training in Yeast Cell Biology Department of Applied Biochemistry University of Milan via Celoria 26 20133 Milan, Italy Mentor: Prof. Dr. Lilia Alberghina (now at the University of Milan-Bicocca, Department of Biotechnology and Biosciences) 1 01/1992-05/1995 Ph.D. in Industrial Microbiology and Biocatalysis Department of Biochemical and Microbial Technology School of Bioengineering University of Ghent Coupure Links 653 B-9000 Ghent, Belgium Mentor: Prof. -
Applied Category Theory for Genomics – an Initiative
Applied Category Theory for Genomics { An Initiative Yanying Wu1,2 1Centre for Neural Circuits and Behaviour, University of Oxford, UK 2Department of Physiology, Anatomy and Genetics, University of Oxford, UK 06 Sept, 2020 Abstract The ultimate secret of all lives on earth is hidden in their genomes { a totality of DNA sequences. We currently know the whole genome sequence of many organisms, while our understanding of the genome architecture on a systematic level remains rudimentary. Applied category theory opens a promising way to integrate the humongous amount of heterogeneous informations in genomics, to advance our knowledge regarding genome organization, and to provide us with a deep and holistic view of our own genomes. In this work we explain why applied category theory carries such a hope, and we move on to show how it could actually do so, albeit in baby steps. The manuscript intends to be readable to both mathematicians and biologists, therefore no prior knowledge is required from either side. arXiv:2009.02822v1 [q-bio.GN] 6 Sep 2020 1 Introduction DNA, the genetic material of all living beings on this planet, holds the secret of life. The complete set of DNA sequences in an organism constitutes its genome { the blueprint and instruction manual of that organism, be it a human or fly [1]. Therefore, genomics, which studies the contents and meaning of genomes, has been standing in the central stage of scientific research since its birth. The twentieth century witnessed three milestones of genomics research [1]. It began with the discovery of Mendel's laws of inheritance [2], sparked a climax in the middle with the reveal of DNA double helix structure [3], and ended with the accomplishment of a first draft of complete human genome sequences [4]. -
SM08 Programme
SATELLITE MEETING Regulation of gene expression from a distance: exploring mechanisms The Royal Society at Chicheley Hall, home of the Kavli Royal Society International Centre Organised by Professor Wendy Bickmore and Professor Veronica van Heyningen FRS Wednesday 24 – Thursday 25 October 2012 DAY 1 DAY 2 SESSION 1 SESSION 2 SESSION 3 SESSION 4 Enhancer assays Quantitative and dynamic analysis Quantitative & dynamic analysis of Defining enhancers and their mechanisms – transgenes, genetics, and interactomes of transcription protein binding at regulatory of action Chair: Professor Nick Hastie CBE FRS Chair: elements Chair: Dr Duncan Odom Welcome by RS & lead 09.00 Professor Anne Ferguson-Smith Chair: Professor Constance Bonifer organiser The evolution of global Dynamic use of enhancers in Design rules for bacterial Massively parallel functional 09.05 enhancers 13.30 development 09.00 enhancers 13.15 dissection of mammalian enhancers Professor Denis Duboule Professor Mike Levine Dr Roee Amit Dr Rupali Patwardhan 09.30 Discussion 14.00 Discussion 09.30 Discussion 13.45 Discussion Complex protein dynamics at HERC2 rs12913832 modulates The pluripotent 3D genome Gene expression genomics eukaryotic regulatory human pigmentation by attenuating 09.45 14.15 09.45 Professor Wouter de Laat Dr Sarah Teichmann elements chromatin-loop formation between a 14.00 Dr Gordon Hager long-range enhancer and the OCA2 promoter 10.15 Discussion 14.45 Discussion 10.15 Discussion Dr Robert-Jan Palstra 10.30 Coffee 15.00 Tea 10.30 Coffee 14.15 Tea Maps of open chromatin -
Dossier-El-Funeral-2019.Pdf
EL FUNERAL SINOPSIS Lucrecia Conti, la actriz más importante del cine, el teatro y la televisión de España, ha fallecido. Asistimos al gran velatorio que el Ministerio de Cultura ha organizado en su honor en un teatro para que el público pueda despedirse de su admirada estrella. Sus nietas Ainhoa y Mayte ponen orden porque las muestras de cariños son inmensas. También aparece Miguel, un primo lejano cuyo parentesco real es desconocido. Todo cambia cuando los asistentes quedan encerrados en el teatro porque el fantasma de Lucrecia se aparece para despedirse a lo grande. Nadie da crédito a lo que sucede. El fantasma tiene asuntos que resolver incluso con su propio representante, Alberto Luján, que trata de contener como puede a la prensa que se agolpa fuera. La noticia está apareciendo en todos los medios de comunicación, y todos los programas de televisión están enviando unidades móviles al teatro para conectar en directo con Lucrecia... o lo que queda de ella. No hay precedentes de algo así y Lucrecia va a aprovechar al máximo este momento en el que por fin se le presta la atención que merece para solucionar, viva o muerta, todos sus problemas profesionales y personales: desde aceptar una serie de televisión en la que hace de muerta (sic), dejar que le hagan un muñeco de cera para el Museo de Ídem de Madrid o decirle a una de sus nietas si puede ennoviarse con un chico al que todos le ven cierto parecido familiar... Todo eso mientras está pendiente de que el público no pase hambre en este ratito de “encierro” y ofreciéndoles un maravilloso show. -
Ex-Spouse Arrested in Killing of Woman
IN SPORTS: Crestwood’s Blanding to play in North-South All-Star game B1 LOCAL Group shows its appreciation to Shaw airmen TUESDAY, NOVEMBER 21, 2017 | Serving South Carolina since October 15, 1894 75 cents A5 Ex-spouse Community enjoys Thanksgiving meal arrested after volunteers overcome obstacles in killing of woman Victim was reported missing hours before she was discovered in woods BY ADRIENNE SARVIS [email protected] The ex-husband of the 27-year- old woman whose body was found in a shallow grave in Manchester State Forest last week has been charged in her death. James Ginther, 26, of Beltline J. GINTHER Boulevard in Columbia, was ar- rested on Monday in Louisville, Kentucky, for allegedly kidnapping and killing Suzette Ginther. Suzette’s body was found in the state forest about 150 feet off Burnt Gin Road by a hunter at about 4 p.m. on Nov. 16 — a few S. GINTHER hours after she was reported SEE ARREST, PAGE A7 Attorney says mold at Morris causing illness BY BRUCE MILLS [email protected] The litigation attorney who filed a class-ac- tion suit on behalf of five current and former Morris College students against the college last week says the mold issues on the campus are “toxic” and that he wants the col- lege to step up and fix the prob- lems. Attorney John Harrell of Har- rell Law Firm, PA, in Charleston, made his comments Monday con- cerning the case after the lawsuit HARRELL was filed last week and the JIM HILLEY / THE SUMTER ITEM college was notified. -
Female Fellows of the Royal Society
Female Fellows of the Royal Society Professor Jan Anderson FRS [1996] Professor Ruth Lynden-Bell FRS [2006] Professor Judith Armitage FRS [2013] Dr Mary Lyon FRS [1973] Professor Frances Ashcroft FMedSci FRS [1999] Professor Georgina Mace CBE FRS [2002] Professor Gillian Bates FMedSci FRS [2007] Professor Trudy Mackay FRS [2006] Professor Jean Beggs CBE FRS [1998] Professor Enid MacRobbie FRS [1991] Dame Jocelyn Bell Burnell DBE FRS [2003] Dr Philippa Marrack FMedSci FRS [1997] Dame Valerie Beral DBE FMedSci FRS [2006] Professor Dusa McDuff FRS [1994] Dr Mariann Bienz FMedSci FRS [2003] Professor Angela McLean FRS [2009] Professor Elizabeth Blackburn AC FRS [1992] Professor Anne Mills FMedSci FRS [2013] Professor Andrea Brand FMedSci FRS [2010] Professor Brenda Milner CC FRS [1979] Professor Eleanor Burbidge FRS [1964] Dr Anne O'Garra FMedSci FRS [2008] Professor Eleanor Campbell FRS [2010] Dame Bridget Ogilvie AC DBE FMedSci FRS [2003] Professor Doreen Cantrell FMedSci FRS [2011] Baroness Onora O'Neill * CBE FBA FMedSci FRS [2007] Professor Lorna Casselton CBE FRS [1999] Dame Linda Partridge DBE FMedSci FRS [1996] Professor Deborah Charlesworth FRS [2005] Dr Barbara Pearse FRS [1988] Professor Jennifer Clack FRS [2009] Professor Fiona Powrie FRS [2011] Professor Nicola Clayton FRS [2010] Professor Susan Rees FRS [2002] Professor Suzanne Cory AC FRS [1992] Professor Daniela Rhodes FRS [2007] Dame Kay Davies DBE FMedSci FRS [2003] Professor Elizabeth Robertson FRS [2003] Professor Caroline Dean OBE FRS [2004] Dame Carol Robinson DBE FMedSci -
Driving Diffusion of Scientific Innovation
Driving Diffusion of Scientific Innovation - The Role of Institutional Entrepreneurship and Open Science in Synthetic Biology Vom Promotionsausschuss der Technischen Universit¨at Hamburg-Harburg zur Erlangung des akademischen Grades Doktor der Wirtschafts- und Sozialwissenschaften (Dr. rer. pol.) genehmigte Dissertation von Giulio Barth aus M¨unster 2018 Advisors: Prof. Dr. C. Ihl, Prof. Dr. M. G. M¨ohrle Institute of Entrepreneurship, TUHH i Gutachter: Prof. Dr. C. Ihl Prof. Dr. M. G. Mohrle¨ Vorsitz: Prof. Dr. C. Luthje¨ Tag der mundlichen¨ Prufung:¨ 14. September 2018 ”Our victory: inevitable; our timing: uncertain.” (Drew Endy, Assistant Professor Stanford University) i Abstract Scientific innovations need to widely diffuse to fully exploit their potential. Prior research investigated levers on the diffusion of scientific innovation with particular interest on institutions, e.g., settings of property rights. As institutional theory lacks in explaining emergence and shaping of institu- tions, the institutional entrepreneur approach faces these limitations. Key actors combine logics from multiple fields and convince their social context of their ideas to legitimate the creation of new institutions and shape an emerging field. This thesis validates theories on institutional entrepreneurs and investigates the end-to process from diffusing a logic to the impact of an established insti- tution on scientific innovations in context of the emerging synthetic biology. The field is expected to introduce the 5th revolution and characterized by the central logic of making biology an engineering discipline. In chapter 4 theories on institutional entrepreneurs driving diffusion of in- stitutional logics to shape an emerging field are validated. To measure the social influence mechanisms, the heterogeneous diffusion model is adapted to the institutional logic. -
The for Report 07-08
THE CENTER FOR INTEGRATIVE GENOMICS REPORT 07-08 www.unil.ch/cig Table of Contents INTRODUCTION 2 The CIG at a glance 2 The CIG Scientific Advisory Committee 3 Message from the Director 4 RESEARCH 6 Richard Benton Chemosensory perception in Drosophila: from genes to behaviour 8 Béatrice Desvergne Networking activity of PPARs during development and in adult metabolic homeostasis 10 Christian Fankhauser The effects of light on plant growth and development 12 Paul Franken Genetics and energetics of sleep homeostasis and circadian rhythms 14 Nouria Hernandez Mechanisms of basal and regulated RNA polymerase II and III transcription of ncRNA in mammalian cells 16 Winship Herr Regulation of cell proliferation 18 Henrik Kaessmann Mammalian evolutionary genomics 20 Sophie Martin Molecular mechanisms of cell polarization 22 Liliane Michalik Transcriptional control of tissue repair and angiogenesis 24 Alexandre Reymond Genome structure and expression 26 Andrzej Stasiak Functional transitions of DNA structure 28 Mehdi Tafti Genetics of sleep and the sleep EEG 30 Bernard Thorens Molecular and physiological analysis of energy homeostasis in health and disease 32 Walter Wahli The multifaceted roles of PPARs 34 Other groups at the Génopode 37 CORE FACILITIES 40 Lausanne DNA Array Facility (DAFL) 42 Protein Analysis Facility (PAF) 44 Core facilities associated with the CIG 46 EDUCATION 48 Courses and lectures given by CIG members 50 Doing a PhD at the CIG 52 Seminars and symposia 54 The CIG annual retreat 62 The CIG and the public 63 Artist in residence at the CIG 63 PEOPLE 64 1 Introduction The Center for IntegratiVE Genomics (CIG) at A glance The Center for Integrative Genomics (CIG) is the newest depart- ment of the Faculty of Biology and Medicine of the University of Lausanne (UNIL). -
UNIVERSITY of CALIFORNIA SAN DIEGO Making Sense of Microbial
UNIVERSITY OF CALIFORNIA SAN DIEGO Making sense of microbial populations from representative samples A dissertation submitted in partial satisfaction of the requirements for the degree Doctor of Philosophy in Computer Science by James T. Morton Committee in charge: Professor Rob Knight, Chair Professor Pieter Dorrestein Professor Rachel Dutton Professor Yoav Freund Professor Siavash Mirarab 2018 Copyright James T. Morton, 2018 All rights reserved. The dissertation of James T. Morton is approved, and it is acceptable in quality and form for publication on microfilm and electronically: Chair University of California San Diego 2018 iii DEDICATION To my friends and family who paved the road and lit the journey. iv EPIGRAPH The ‘paradox’ is only a conflict between reality and your feeling of what reality ‘ought to be’ —Richard Feynman v TABLE OF CONTENTS Signature Page . iii Dedication . iv Epigraph . .v Table of Contents . vi List of Abbreviations . ix List of Figures . .x List of Tables . xi Acknowledgements . xii Vita ............................................. xiv Abstract of the Dissertation . xvii Chapter 1 Methods for phylogenetic analysis of microbiome data . .1 1.1 Introduction . .2 1.2 Phylogenetic Inference . .4 1.3 Phylogenetic Comparative Methods . .6 1.4 Ancestral State Reconstruction . .9 1.5 Analysis of phylogenetic variables . 11 1.6 Using Phylogeny-Aware Distances . 15 1.7 Challenges of phylogenetic analysis . 18 1.8 Discussion . 19 1.9 Acknowledgements . 21 Chapter 2 Uncovering the horseshoe effect in microbial analyses . 23 2.1 Introduction . 24 2.2 Materials and Methods . 34 2.3 Acknowledgements . 35 Chapter 3 Balance trees reveal microbial niche differentiation . 36 3.1 Introduction . -
EMBC Annual Report 2007
EMBO | EMBC annual report 2007 EUROPEAN MOLECULAR BIOLOGY ORGANIZATION | EUROPEAN MOLECULAR BIOLOGY CONFERENCE EMBO | EMBC table of contents introduction preface by Hermann Bujard, EMBO 4 preface by Tim Hunt and Christiane Nüsslein-Volhard, EMBO Council 6 preface by Marja Makarow and Isabella Beretta, EMBC 7 past & present timeline 10 brief history 11 EMBO | EMBC | EMBL aims 12 EMBO actions 2007 15 EMBC actions 2007 17 EMBO & EMBC programmes and activities fellowship programme 20 courses & workshops programme 21 young investigator programme 22 installation grants 23 science & society programme 24 electronic information programme 25 EMBO activities The EMBO Journal 28 EMBO reports 29 Molecular Systems Biology 30 journal subject categories 31 national science reviews 32 women in science 33 gold medal 34 award for communication in the life sciences 35 plenary lectures 36 communications 37 European Life Sciences Forum (ELSF) 38 ➔ 2 table of contents appendix EMBC delegates and advisers 42 EMBC scale of contributions 49 EMBO council members 2007 50 EMBO committee members & auditors 2007 51 EMBO council members 2008 52 EMBO committee members & auditors 2008 53 EMBO members elected in 2007 54 advisory editorial boards & senior editors 2007 64 long-term fellowship awards 2007 66 long-term fellowships: statistics 82 long-term fellowships 2007: geographical distribution 84 short-term fellowship awards 2007 86 short-term fellowships: statistics 104 short-term fellowships 2007: geographical distribution 106 young investigators 2007 108 installation -
Early Life Experiences Vulnerability Or Resilience?
EARLY LIFE EXPERIENCES VULNERABILITY OR RESILIENCE? 01 WELCOME Page 5 02 PROGRAM Page 6 03 SCIENTIFIC COMMITTEE Page 8 04 DETAILED PROGRAM Page 10 05 PRACTICAL INFORMATION Page 18 06 SUGGESTED READING Page 19 07 OUTCOMES Page 21 08 ORGANIZERS AND COLLABORATORS Page 22 09 NOTES Page 24 EARLY LIFE EXPERIENCES VULNERABILITY OR RESILIENCE? October 25th and 26th , 2016 WELCOME Dear Invited Speakers and Participants, It is our pleasure to welcome you to the meeting “Early life experiences: vulnerability or resilience?”. This event is co- organized by B-DEBATE (an initiative of Biocat and “La Caixa” Foundation) and the Institut de Neurociències from the Universitat Autònoma de Barcelona (UAB). The CORE-Salut Mental UAB, the Vall d’Hebron Research Institute and the Institute for the Study of Affective Neuroscience (University of Haifa) are collaborating entities. As the leading cause of disability in most European countries and North America, mental disorders have emerged as the single largest health cost globally, and have been pointed out as the main health challenge in the XXI century. Around 70% of mental disorders have an early onset and are the result of intricate biological and environmental interactions along development. Early life experiences could make the difference between ending as a happy, healthy and socially integrated adult or developing psychopathology. This field of research is currently under a very rapid progress, and continuously generating new results that are adding new pieces to a complex puzzle, with important implications for a number of disciplines such as Cognitive and Clinical Neuroscience, Psychology, Psychiatry, Education or Public Health. Recent findings are changing views in regard to the role of early life experiences and our vulnerability or resilience for developing adult mental disorders. -
High-Resolution Mapping of Transcriptional Dynamics Across Tissue Development Reveals a Stable Mrna–Trna Interface
Downloaded from genome.cshlp.org on September 30, 2021 - Published by Cold Spring Harbor Laboratory Press Research High-resolution mapping of transcriptional dynamics across tissue development reveals a stable mRNA–tRNA interface Bianca M. Schmitt,1,5 Konrad L.M. Rudolph,2,5 Panagiota Karagianni,3 Nuno A. Fonseca,2 Robert J. White,4 Iannis Talianidis,3 Duncan T. Odom,1 John C. Marioni,2 and Claudia Kutter1 1University of Cambridge, Cancer Research UK Cambridge Institute, Cambridge, CB2 0RE, United Kingdom; 2European Molecular Biology Laboratory, European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SD, United Kingdom; 3B.S.R.C. Alexander Flemming, 16672, Vari, Athens, Greece; 4University of York, Department of Biology, Heslington, York, YO10 5DD, United Kingdom The genetic code is an abstraction of how mRNA codons and tRNA anticodons molecularly interact during protein synthesis; the stability and regulation of this interaction remains largely unexplored. Here, we characterized the expression of mRNA and tRNA genes quantitatively at multiple time points in two developing mouse tissues. We dis- covered that mRNA codon pools are highly stable over development and simply reflect the genomic background; in contrast, precise regulation of tRNA gene families is required to create the corresponding tRNA transcriptomes. The dynamic regulation of tRNA genes during development is controlled in order to generate an anticodon pool that closely corresponds to messenger RNAs. Thus, across development, the pools of mRNA codons and tRNA anticodons are invariant and highly correlated, revealing a stable molecular interaction interlocking transcription and translation. [Supplemental material is available for this article.] Transcription of the mammalian genome is divided among mul- differencesinexpressionofspecifictRNAgenesmaycontribute tiple RNA polymerases (Pol), each transcribing a nonoverlapping to tumorigenesis by favoring translation of cancer-promoting set of genes.