A Decade After the Decade of the Brain
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Imaging the Genetics of Brain Structure and Function Biological Psychology
Biological Psychology 79 (2008) 1–8 Contents lists available at ScienceDirect Biological Psychology journal homepage: www.elsevier.com/locate/biopsycho Editorial Imaging the genetics of brain structure and function ARTICLE INFO ABSTRACT Article history: Imaging genetics combines brain imaging and genetics to detect genetic variation in brain structure and Available online 11 April 2008 function related to behavioral traits, including psychiatric endpoints, cognition, and affective regulation. This special issue features extensive reviews of the current state-of-the-art of the field and adds new findings from twin and candidate gene studies on functional MRI. Here we present a brief overview and discuss a number of desirable future developments which include more specific a priori hypotheses, more standardization of MRI measurements within and across laboratories, and larger sample sizes that allows testing of multiple genes and their interactions up to a scale that allows genetic whole genome association studies. Based on the overall tenet of the contributions to this special issue we predict that imaging genetics will increasingly impact on the classification systems for psychiatric disorders and the early detection and treatment of vulnerable individuals. ß 2008 Elsevier B.V. All rights reserved. Biological Psychology, quite literally, deals with the connection 1. Imaging genetics between the body and the mind. In the past two decades two specific instances of body-mind connections have captured the What exactly is imaging genetics? In the -
Sparse Deep Neural Networks on Imaging Genetics for Schizophrenia Case-Control Classification
medRxiv preprint doi: https://doi.org/10.1101/2020.06.11.20128975; this version posted June 12, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted medRxiv a license to display the preprint in perpetuity. All rights reserved. No reuse allowed without permission. Sparse Deep Neural Networks on Imaging Genetics for Schizophrenia Case-Control Classification Jiayu Chen1,*, Xiang Li2,*, Vince D. Calhoun1,2,3, Jessica A. Turner1,3, Theo G. M. van Erp4,5, Lei Wang6, Ole A. Andreassen7, Ingrid Agartz7,8,9, Lars T. Westlye7,10 , Erik Jönsson7,9, Judith M. Ford11,12, Daniel H. Mathalon11,12, Fabio Macciardi4, Daniel S. O’Leary13, Jingyu Liu1,2, †, Shihao Ji2, † 1Tri-Institutional Center for Translational Research in Neuroimaging and Data Science (TReNDS): (Georgia State University, Georgia Institute of Technology, and Emory University), Atlanta, GA, USA; 2Department of Computer Science, Georgia State University, Atlanta, GA, USA; 3Psychology Department and Neuroscience Institute, Georgia State University, Atlanta, GA, USA; 4Department of Psychiatry and Human Behavior, School of Medicine, University of California, Irvine, Irvine, CA, USA; 5Center for the Neurobiology of Learning and Memory, University of California, Irvine, Irvine, CA, 92697, USA; 6Department of Psychiatry and Behavioral Sciences, Northwestern University, Chicago, IL, USA; 7Norwegian Centre for Mental Disorders Research (NORMENT), Division of Mental Health and Addiction, Institute of Clinical Medicine, University -
Imaging Genetics Approach to Parkinson's Disease and Its
www.nature.com/scientificreports OPEN Imaging genetics approach to Parkinson’s disease and its correlation with clinical score Received: 07 November 2016 Mansu Kim1,2, Jonghoon Kim1,2, Seung-Hak Lee1,2 & Hyunjin Park2,3 Accepted: 24 March 2017 Parkinson’s disease (PD) is a progressive neurodegenerative disorder associated with both underlying Published: 21 April 2017 genetic factors and neuroimaging findings. Existing neuroimaging studies related to the genome in PD have mostly focused on certain candidate genes. The aim of our study was to construct a linear regression model using both genetic and neuroimaging features to better predict clinical scores compared to conventional approaches. We obtained neuroimaging and DNA genotyping data from a research database. Connectivity analysis was applied to identify neuroimaging features that could differentiate between healthy control (HC) and PD groups. A joint analysis of genetic and imaging information known as imaging genetics was applied to investigate genetic variants. We then compared the utility of combining different genetic variants and neuroimaging features for predicting the Movement Disorder Society-sponsored unified Parkinson’s disease rating scale (MDS-UPDRS) in a regression framework. The associative cortex, motor cortex, thalamus, and pallidum showed significantly different connectivity between the HC and PD groups. Imaging genetics analysis identified PARK2, PARK7, HtrA2, GIGYRF2, and SNCA as genetic variants that are significantly associated with imaging phenotypes. A linear regression model combining genetic and neuroimaging features predicted the MDS-UPDRS with lower error and higher correlation with the actual MDS-UPDRS compared to other models using only genetic or neuroimaging information alone. Parkinson’s disease (PD) is a progressive neurodegenerative disorder characterized by bradykinesia, resting trem- ors, rigidity, and difficulty with voluntary movement1. -
The Emerging Spectrum of Allelic Variation in Schizophrenia
Molecular Psychiatry (2013) 18, 38 -- 52 & 2013 Macmillan Publishers Limited All rights reserved 1359-4184/13 www.nature.com/mp EXPERT REVIEW The emerging spectrum of allelic variation in schizophrenia: current evidence and strategies for the identification and functional characterization of common and rare variants BJ Mowry1,2 and J Gratten1 After decades of halting progress, recent large genome-wide association studies (GWAS) are finally shining light on the genetic architecture of schizophrenia. The picture emerging is one of sobering complexity, involving large numbers of risk alleles across the entire allelic spectrum. The aims of this article are to summarize the key genetic findings to date and to compare and contrast methods for identifying additional risk alleles, including GWAS, targeted genotyping and sequencing. A further aim is to consider the challenges and opportunities involved in determining the functional basis of genetic associations, for instance using functional genomics, cellular models, animal models and imaging genetics. We conclude that diverse approaches will be required to identify and functionally characterize the full spectrum of risk variants for schizophrenia. These efforts should adhere to the stringent standards of statistical association developed for GWAS and are likely to entail very large sample sizes. Nonetheless, now more than any previous time, there are reasons for optimism and the ultimate goal of personalized interventions and therapeutics, although still distant, no longer seems unattainable. Molecular Psychiatry (2013) 18, 38--52; doi:10.1038/mp.2012.34; published online 1 May 2012 Keywords: CNV; functional genomics; GWAS; schizophrenia; sequencing; SNP THE NATURE OF THE PROBLEM complications (obesity, nicotine dependence, metabolic syndrome 13 Schizophrenia is a chronic psychiatric disorder characterized by and premature mortality), low employment and substantial 14 delusional beliefs, auditory hallucinations, disorganized thought homelessness. -
CHIMGEN: a Chinese Imaging Genetics Cohort to Enhance Cross-Ethnic and Cross-Geographic Brain Research
Molecular Psychiatry (2020) 25:517–529 https://doi.org/10.1038/s41380-019-0627-6 PERSPECTIVE CHIMGEN: a Chinese imaging genetics cohort to enhance cross- ethnic and cross-geographic brain research 1 1 2 3,4 5 6 7 Qiang Xu ● Lining Guo ● Jingliang Cheng ● Meiyun Wang ● Zuojun Geng ● Wenzhen Zhu ● Bing Zhang ● 8,9 10 11 12 13 14 15,16 Weihua Liao ● Shijun Qiu ● Hui Zhang ● Xiaojun Xu ● Yongqiang Yu ● Bo Gao ● Tong Han ● 17 18 1 1 1 19 20 Zhenwei Yao ● Guangbin Cui ● Feng Liu ● Wen Qin ● Quan Zhang ● Mulin Jun Li ● Meng Liang ● 21 22 23 24 25,26 27 28 Feng Chen ● Junfang Xian ● Jiance Li ● Jing Zhang ● Xi-Nian Zuo ● Dawei Wang ● Wen Shen ● 29 30 31,32 33,34 35,36 37 38 Yanwei Miao ● Fei Yuan ● Su Lui ● Xiaochu Zhang ● Kai Xu ● Long Jiang Zhang ● Zhaoxiang Ye ● 1,39 Chunshui Yu ● for the CHIMGEN Consortium Received: 26 September 2018 / Revised: 21 November 2019 / Accepted: 27 November 2019 / Published online: 11 December 2019 © The Author(s) 2019. This article is published with open access Abstract The Chinese Imaging Genetics (CHIMGEN) study establishes the largest Chinese neuroimaging genetics cohort and aims to identify genetic and environmental factors and their interactions that are associated with neuroimaging and behavioral 1234567890();,: 1234567890();,: phenotypes. This study prospectively collected genomic, neuroimaging, environmental, and behavioral data from more than 7000 healthy Chinese Han participants aged 18–30 years. As a pioneer of large-sample neuroimaging genetics cohorts of non-Caucasian populations, this cohort can provide new insights into ethnic differences in genetic-neuroimaging associations by being compared with Caucasian cohorts. -
Introduction to Imaging Genetics Half Day Morning Course / 8:00-12:00
Introduction to Imaging Genetics Half Day Morning Course / 8:00-12:00 Organizers: Jason Stein, PhD, University of North Carolina at Chapel Hill, United States This course will introduce the fundamentals of “Imaging Genetics,” the process of modeling and understanding how genetic variation influences the structure and function of the human brain as measured through brain imaging. The course begins with a brief history of imaging genetics, including discussion on replicability and significance thresholds. Then, we will review recent findings in neuropsychiatric disease risk, what neuroimaging genetics can learn from neuropsychiatric genetics, and how neuroimaging genetics can be used to explain missing mechanisms in neuropsychiatric genetics. We will cover datasets and methods for conducting common and rare variant associations, as well as bioinformatic tools to interpret findings in the context of gene regulation. Overall this course will provide the neuroimager who is not familiar with genetics techniques an understanding of the current state genetics field when exploring neuroimaging phenotypes. Course Schedule: 8:00-8:45 A brief history of imaging genetics Jason Stein, PhD, University of North Carolina at Chapel Hill, United States 8:45-9:30 The genetic influences on neuropsychiatric disease risk Sven Cichon, Dr. rer. nat., Universitat Basel, Switzerland 9:30-10:15 The effect of common genetic variation on human brain structure Paul Thompson, Imaging Genetics Center, Keck School of Medicine of University of Southern California, United States 10:15-10:30 Break 10:30-11:15 The effect of rare variation on human brain structure Carrie Bearden, University of California, Los Angeles, United States 11:15-12:00 Connecting genetic variation to gene regulation Bernard Ng, PhD, University of British Columbia, Canada . -
[For Consideration As Part of the ENIGMA Special Issue] Ten Years
[For consideration as part of the ENIGMA Special Issue] Ten years of Enhancing Neuro-Imaging Genetics through Meta-Analysis: An overview from the ENIGMA Genetics Working Group Sarah E. Medland1,2,3, Katrina L. Grasby1, Neda Jahanshad4, Jodie N. Painter1, Lucía Colodro- Conde1,2,5,6, Janita Bralten7,8, Derrek P. Hibar4,9, Penelope A. Lind1,5,3, Fabrizio Pizzagalli4, Sophia I. Thomopoulos4, Jason L. Stein10, Barbara Franke7,8, Nicholas G. Martin11, Paul M. Thompson4 on behalf of the ENIGMA Genetics Working Group 1 Psychiatric Genetics, QIMR Berghofer Medical Research Institute, Brisbane, Australia. 2 School of Psychology, University of Queensland, Brisbane, Australia. 3 Faculty of Medicine, University of Queensland, Brisbane, Australia. 4 Imaging Genetics Center, Mark and Mary Stevens Neuroimaging and Informatics Institute, Keck School of Medicine of USC, University of Southern California, Marina del Rey, CA, USA. 5 School of Biomedical Sciences, Queensland University of Technology, Brisbane, Australia. 6 Faculty of Psychology, University of Murcia, Murcia, Spain. 7 Department of Human Genetics, Radboud university medical center, Nijmegen, The Netherlands. 8 Donders Institute for Brain, Cognition and Behaviour, Radboud University, Nijmegen, The Netherlands. 9 Personalized Healthcare, Genentech, Inc., South San Francisco, USA. 10 Department of Genetics & UNC Neuroscience Center, University of North Carolina at Chapel Hill, Chapel Hill, USA. 11 Genetic Epidemiology, QIMR Berghofer Medical Research Institute, Brisbane, Australia. Abstract Here we review the motivation for creating the ENIGMA (Enhancing NeuroImaging Genetics through Meta Analysis) Consortium and the genetic analyses undertaken by the consortium so far. We discuss the methodological challenges, findings and future directions of the Genetics Working Group. -
Case Study Report BRAIN INITIATIVE
Mission-oriented R&I policies: In-depth case studies Case Study Report BRAIN INITIATIVE (US) Eva Arrilucea, Hanna Kuittinen February 2018 Case Study Report: Brain Initiative (United States) European Commission Directorate-General for Research and Innovation Directorate A — Policy Development and Coordination Unit A.6 — Open Data Policy and Science Cloud Contact Arnold Weiszenbacher E-mail [email protected] [email protected] European Commission B-1049 Brussels Manuscript completed in February 2018. This document has been prepared for the European Commission however it reflects the views only of the authors, and the Commission cannot be held responsible for any use which may be made of the information contained therein. More information on the European Union is available on the internet (http://europa.eu). Luxembourg: Publications Office of the European Union, 2017 PDF ISBN 978-92-79-80162-4 doi:10.2777/1986 KI-01-18-153-EN-N © European Union, 2018. Reuse is authorised provided the source is acknowledged. The reuse policy of European Commission documents is regulated by Decision 2011/833/EU (OJ L 330, 14.12.2011, p. 39). For any use or reproduction of photos or other material that is not under the EU copyright, permission must be sought directly from the copyright holders. Brain Initiative 2 EUROPEAN COMMISSION Mission-oriented R&I policies: In-depth case studies Case Study Report Brain Initiative (United States) Eva Arrilucea Hanna Kuittinen A Study coordinated by the Joint Institute for Innovation Policy February 2018 Directorate-General for Research and Innovation Table of Contents 1 Summary of the case study .................................................................................. -
Genomics on the Brain on 9 September, the Father of the Hydrogen Bomb Passed Away
2003 in context Neuroscience GOODBYE Edward Teller Genomics on the brain On 9 September, the father of the hydrogen bomb passed away. He was a controversial he 1990s may have been designated the creating transgenic mice that carry these figure, who was vilified by many physicists after T‘Decade of the Brain’,but they will also be BACs,the researchers can identify — by sight testifying in 1954 that Robert Oppenheimer, remembered as the time when genomics — the cells in which a gene of interest is nor- leader of the wartime Manhattan Project, was a came to the fore.This year,neuroscience and mally active,and can work out how these cells security risk. Teller later championed President genomics teamed up in projects that promise connect with the rest of the brain. The same Ronald Reagan’s ‘Star Wars’ missile-defence to propel the study of the brain into the realm BACs can also be used to introduce other initiative. But colleagues at the Lawrence of‘big science’. genetic modifications into these cells,provid- Livermore National Laboratory, co-founded by Working on Parkinson’s disease? One of ing a unique tool to investigate their biology. Teller, say that he should also be remembered the projects that surfaced this year might pro- GENSAT’s first images can already be seen for his passion for teaching physics. vide you with a transgenic mouse that offers on its website,which was launched in October fluorescent neurons in key neural pathways. alongside a paper introducing the project Galileo Another could offer you structural brain (S. -
Imaging Genetics in Neurodevelopmental Psychopathology
Received: 26 August 2016 | Revised: 2 February 2017 | Accepted: 10 March 2017 DOI: 10.1002/ajmg.b.32542 REVIEW ARTICLE Imaging genetics in neurodevelopmental psychopathology Marieke Klein1 | Marjolein van Donkelaar1 | Ellen Verhoef2 | Barbara Franke1,3 1 Radboud University Medical Center, Donders Institute for Brain, Cognition and Behaviour, Neurodevelopmental disorders are defined by highly heritable problems during development Department of Human Genetics, Nijmegen, and brain growth. Attention-deficit/hyperactivity disorder (ADHD), autism spectrum disorders The Netherlands (ASDs), and intellectual disability (ID) are frequent neurodevelopmental disorders, with common 2 Max Planck Institute for Psycholinguistics, comorbidity among them. Imaging genetics studies on the role of disease-linked genetic variants Department of Language and Genetics, Nijmegen, The Netherlands on brain structure and function have been performed to unravel the etiology of these disorders. 3 Radboud University Medical Center, Donders Here, we reviewed imaging genetics literature on these disorders attempting to understand the Institute for Brain, Cognition and Behaviour, mechanisms of individual disorders and their clinical overlap. For ADHD and ASD, we selected Department of Psychiatry, Nijmegen, replicated candidate genes implicated through common genetic variants. For ID, which is mainly The Netherlands caused by rare variants, we included genes for relatively frequent forms of ID occurring Correspondence comorbid with ADHD or ASD. We reviewed case-control studies and studies of risk variants in Barbara Franke, PhD, Department of Human Genetics (855), Radboud University Medical healthy individuals. Imaging genetics studies for ADHD were retrieved for SLC6A3/DAT1, Center, PO Box 9101, 6500 HB Nijmegen, The DRD2, DRD4, NOS1, and SLC6A4/5HTT. For ASD, studies on CNTNAP2, MET, OXTR, and Netherlands. -
Reliability Issues in Imaging Genetics
Reliability Issues in Imaging Genetics By Annika U. Eriksson Capstone Project Submitted in partial fulfillment of the requirements for the degree of Master of Biomedical Informatics Oregon Health and Science University January 2017 School of Medicine Oregon Health & Science University CERTIFICATE OF APPROVAL This is to certify that the Master’s Capstone Project of Annika U. Eriksson “Reliability Issues in Imaging Genetics” Has been approved _________________________________________ Shannon McWeeney, PhD Capstone Advisor Reliability Issues in Imaging Genetics Table of Contents Reliability Issues in Imaging Genetics .......................................................................................................... 1 Acknowledgements ................................................................................................................................... 4 Exposition: Setting the stage ..................................................................................................................... 5 Foreshadowing: Importance of reliability ................................................................................................. 6 Rising Action: History of both fields independently ................................................................................ 8 Imaging ................................................................................................................................................. 9 Genetics.............................................................................................................................................. -
Neuroplasticity in Children and Adolescents in Response to Cognitive Or Sensory-Motor Interventions
Reviews/Mini-Reviews Clinical & Translational Neuroscience July-December 2020: 1–21 ª The Author(s) 2020 Neuroplasticity in children and Article reuse guidelines: sagepub.com/journals-permissions DOI: 10.1177/2514183X20974231 adolescents in response to treatment journals.sagepub.com/home/ctn intervention: A systematic review of the literature Lisa L Weyandt1, Christine M Clarkin2,3 , Emily Z Holding4, Shannon E May3, Marisa E Marraccini4, Bergljot Gyda Gudmundsdottir5, Emily Shepard6, and Lauren Thompson3 Abstract The purpose of the present study was to conduct a systematic review of the literature, adhering to PRISMA guidelines, regarding evidence of neuroplasticity in children and adolescents in response to cognitive or sensory-motor interventions. Twenty-eight studies employing seven different types of neuroimaging techniques were included in the review. Findings revealed that significant variability existed across the 28 studies with regard to the clinical populations examined, type of interventions employed, neuroimaging methods, and the type of neuroimaging data included in the studies. Overall, results supported that experience-dependent interventions were associated with neuroplastic changes among children and ado- lescents in both neurotypical and clinical populations. However, it remains unclear whether these molecular neuroplastic changes, including the degree and direction of those differences, were the direct result of the intervention. Although the findings are encouraging, methodological limitations of the studies limit clinical utility of the results. Future studies are warranted that rigorously define the construct of neuroplasticity, establish consistent protocols across measurement techniques, and have adequate statistical power. Lastly, studies are needed to identify the functional and structural neu- roplastic mechanisms that correspond with changes in cognition and behavior in child and adolescent samples.