Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease

Genevera I Allen; Nicola Amoroso; Catalina Anghel; Venkat Balagurusamy; Christopher J Bare; Derek Beaton; Roberto Bellotti; David A Bennett; Kevin L Boehme; Paul C Boutros; Laura Caberlotto; Cristian Caloian; Frederick Campbell; Elias Chaibub Neto; Yu-Chuan Chang; Beibei Chen; Chien-Yu Chen; Ting-Ying Chien; Tim Clark; Sudeshna Das; Christos Davatzikos; Jieyao Deng; Donna Dillenberger; Richard J B Dobson; Qilin Dong; Jimit Doshi; Denise Duma; Rosangela Errico; Guray Erus; Evan Everett; David W Fardo; Stephen H Friend; Holger Fröhlich; Jessica Gan; Peter St George-Hyslop; Satrajit S Ghosh; Enrico Glaab; Robert C Green; Yuanfang Guan; Ming-Yi Hong; Chao Huang; Jinseub Hwang; Joseph Ibrahim; Paolo Inglese; Anandhi Iyappan; Qijia Jiang; Yuriko Katsumata; John S K Kauwe; Arno Klein; Dehan Kong; Roland Krause; Emilie Lalonde; Mario Lauria; Eunjee Lee; Xihui Lin; Zhandong Liu; Julie Livingstone; Benjamin A Logsdon; Simon Lovestone; Tsung-Wei Ma; Ashutosh Malhotra; Lara M Mangravite; Taylor J Maxwell; Emily Merrill; John Nagorski; Aishwarya Namasivayam; Manjari Narayan; Mufassra Naz; Stephen J Newhouse; Thea C Norman; Ramil N Nurtdinov; Yen-Jen Oyang; Yudi Pawitan; Shengwen Peng; Mette A Peters; Stephen R Piccolo; Paurush Praveen; Corrado Priami; Veronica Y Sabelnykova; Philipp Senger; Xia Shen; Andrew Simmons; Aristeidis Sotiras; Gustavo Stolovitzky; Sabina Tangaro; Andrea Tateo; Yi-An Tung; Nicholas J Tustison; Erdem Varol; George Vradenburg; Michael W Weiner; Guanghua Xiao; Lei Xie; Yang Xie; Jia Xu; Hojin Yang; Xiaowei Zhan; Yunyun Zhou; Fan Zhu; Hongtu Zhu; Shanfeng Zhu; Alzheimer's Disease Neuroimaging Initiative

doi:10.1016/j.jalz.2016.02.006

Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease

Alzheimers Dement. 2016 Jun;12(6):645-53. doi: 10.1016/j.jalz.2016.02.006. Epub 2016 Apr 11.

Authors

Genevera I Allen¹, Nicola Amoroso², Catalina Anghel³, Venkat Balagurusamy⁴, Christopher J Bare⁵, Derek Beaton⁶, Roberto Bellotti², David A Bennett⁷, Kevin L Boehme⁸, Paul C Boutros⁹, Laura Caberlotto¹⁰, Cristian Caloian³, Frederick Campbell¹, Elias Chaibub Neto⁵, Yu-Chuan Chang¹¹, Beibei Chen¹², Chien-Yu Chen¹³, Ting-Ying Chien¹⁴, Tim Clark¹⁵, Sudeshna Das¹⁵, Christos Davatzikos¹⁶, Jieyao Deng¹⁷, Donna Dillenberger⁴, Richard J B Dobson¹⁸, Qilin Dong¹⁷, Jimit Doshi¹⁶, Denise Duma¹⁹, Rosangela Errico²⁰, Guray Erus¹⁶, Evan Everett¹, David W Fardo²¹, Stephen H Friend⁵, Holger Fröhlich²², Jessica Gan¹, Peter St George-Hyslop²³, Satrajit S Ghosh²⁴, Enrico Glaab²⁵, Robert C Green²⁶, Yuanfang Guan²⁷, Ming-Yi Hong¹³, Chao Huang²⁸, Jinseub Hwang²⁹, Joseph Ibrahim²⁸, Paolo Inglese³⁰, Anandhi Iyappan³¹, Qijia Jiang¹, Yuriko Katsumata³², John S K Kauwe³³, Arno Klein³⁴, Dehan Kong²⁸, Roland Krause²⁵, Emilie Lalonde³, Mario Lauria¹⁰, Eunjee Lee²⁸, Xihui Lin³, Zhandong Liu¹, Julie Livingstone³, Benjamin A Logsdon⁵, Simon Lovestone³⁵, Tsung-Wei Ma¹², Ashutosh Malhotra³¹, Lara M Mangravite³⁶, Taylor J Maxwell³⁷, Emily Merrill³⁸, John Nagorski¹, Aishwarya Namasivayam²⁵, Manjari Narayan¹, Mufassra Naz³¹, Stephen J Newhouse³⁹, Thea C Norman⁵, Ramil N Nurtdinov⁴⁰, Yen-Jen Oyang¹¹, Yudi Pawitan⁴¹, Shengwen Peng¹⁷, Mette A Peters⁴², Stephen R Piccolo⁸, Paurush Praveen⁴³, Corrado Priami¹⁰, Veronica Y Sabelnykova³, Philipp Senger⁴⁴, Xia Shen⁴⁵, Andrew Simmons⁴⁶, Aristeidis Sotiras¹⁶, Gustavo Stolovitzky⁴⁷, Sabina Tangaro⁴⁸, Andrea Tateo⁴⁹, Yi-An Tung⁵⁰, Nicholas J Tustison⁵¹, Erdem Varol¹⁶, George Vradenburg⁵², Michael W Weiner⁵³, Guanghua Xiao¹², Lei Xie⁵⁴, Yang Xie¹², Jia Xu¹², Hojin Yang²⁸, Xiaowei Zhan¹², Yunyun Zhou¹², Fan Zhu⁵⁵, Hongtu Zhu²⁸, Shanfeng Zhu⁵⁶; Alzheimer's Disease Neuroimaging Initiative

Affiliations

¹ Department of Statistics and Electrical and Computer Engineering, Rice University, Houston, TX, USA.
² Dipartimento di Fisica "M. Merlin", Università degli studi di Bari "A. Moro", Bari, Italy; Sezione di Bari, Istituto Nazionale di Fisica Nucleare, Bari, Italy.
³ Ontario Institute for Cancer Research, Informatics and Bio-computing Program, MaRS Centre, Toronto, ON, Canada.
⁴ IBM Computational Biology Center, IBM Research, NY, USA.
⁵ Sage Bionetworks, Seattle, WA, USA.
⁶ School of Behavioral and Brain Sciences, The University of Texas at Dallas, Richardson, TX, USA.
⁷ Rush Alzheimer's Disease Center, Rush University Medical Center, Chicago, IL, USA.
⁸ Department of Biology, Brigham Young University, Provo, UT, USA.
⁹ Ontario Institute for Cancer Research, Informatics and Bio-computing Program, MaRS Centre, Toronto, ON, Canada; Department of Medical Biophysics, University of Toronto, Toronto, Canada; Department of Pharmacology & Toxicology, University of Toronto, Toronto, Canada.
¹⁰ The Microsoft Research, University of Trento Centre for Computational and Systems Biology (COSBI), Rovereto, Italy.
¹¹ Graduate Institute of Biomedical Electronics and Bioinformatics, National Taiwan University, Taipei, Taiwan.
¹² Quantitative Biomedical Research Center, The University of Texas Southwestern Medical Center, Dallas, TX, USA.
¹³ Department of Bio-Industrial Mechatronics Engineering, National Taiwan University, Taipei, Taiwan.
¹⁴ Innovation Center for Big Data and Digital Convergence, Yuan Ze University, Taoyuan, Taiwan.
¹⁵ Department of Neurology, Massachusetts General Hospital, Cambridge, MA, USA; Department of Neurology, Harvard Medical School, Boston, MA, USA.
¹⁶ Center for Biomedical Image Computing and Analytics, University of Pennsylvania, Philadelphia, PA, USA.
¹⁷ School of Computer Science, Fudan University, Shanghai, Shanghai, China; Shanghai Key Lab of Intelligent Information Processing, Fudan University, Shanghai, Shanghai, China.
¹⁸ NIHR Biomedical Research Centre for Mental Health, Kings College London, London, UK; Institute of Psychiatry, Psychology and Neuroscience, MRC Social, Genetic and Developmental Psychiatry Centre, Kings College London, London, UK; Farr Institute of Health Informatics Research, UCL Institute of Health Informatics, University College London, London WC1E 6BT, UK.
¹⁹ Department of Pediatrics-Neurology, Baylor College of Medicine, Houston, TX, USA.
²⁰ Università degli Studi di Genova, Genova, Italy.
²¹ Sanders-Brown Center on Aging, University of Kentucky, Lexington, KY, USA; Department of Biostatistics, University of Kentucky, Lexington, KY, USA.
²² Bonn-Aachen International Center for IT, University of Bonn, Bonn, Germany.
²³ Cambridge Institute for Medical Research, University of Cambridge and University of Toronto, Cambridge, CB2, UK.
²⁴ McGovern Institute for Brain Research, Massachusetts Institute of Technology, Cambridge, MA, USA; Department of Otology and Laryngology, Harvard Medical School, Boston, MA, USA.
²⁵ Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.
²⁶ Division of Genetics, Department of Medicine, Brigham and Women's Hospital, Broad Institute and Harvard Medical School, Boston, MA, USA.
²⁷ Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI, USA; Department of Electrical Engineering and Computer Science, University of Michigan, Ann Arbor, MI, USA; Department of Internal Medicine, University of Michigan, Ann Arbor, MI, USA.
²⁸ Department of Biostatistics, The University of North Carolina at Chapel Hill, Chapel Hill, NC, USA.
²⁹ Department of Computer science and Statistics, Daegu University, Gyeongsan-si, Gyeongsangbuk-do, Republic of Korea.
³⁰ Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, UK.
³¹ Fraunhofer Institute for Algorithms and Scientific Computing (SCAI), Department for Bioinformatics, Schloss Birlinghoven, Sankt Augustin, Germany; Bonn-Aachen International Center for IT, University of Bonn, Bonn, Germany.
³² Department of Biostatistics, University of Kentucky, Lexington, KY, USA.
³³ Department of Biology, Brigham Young University, Provo, UT, USA. Electronic address: kauwe@byu.edu.
³⁴ Sage Bionetworks, Seattle, WA, USA. Electronic address: arno@binarybottle.com.
³⁵ Department of Psychiatry, University of Oxford, Warneford Hospital, Oxford, UK.
³⁶ Sage Bionetworks, Seattle, WA, USA. Electronic address: lara.mangravite@sagebase.org.
³⁷ Computational Biology Institute, The George Washington University, Ashburn, VA, USA.
³⁸ Department of Neurology, Massachusetts General Hospital, Cambridge, MA, USA.
³⁹ NIHR Biomedical Research Centre for Mental Health, Kings College London, London, UK; Department of Biostatistics, Kings College London, London, UK.
⁴⁰ Department of Neuroimmunology, Foundation Institut de Recerca, Hospital Universitari Vall d'Hebron, Barcelona, Spain.
⁴¹ Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden.
⁴² Sage Bionetworks, Seattle, WA, USA. Electronic address: mette.peters@sagebase.org.
⁴³ The Microsoft Research, University of Trento Centre for Computational and Systems Biology (COSBI), Rovereto, Italy; Bonn-Aachen International Center for IT, University of Bonn, Bonn, Germany.
⁴⁴ Fraunhofer Institute for Algorithms and Scientific Computing (SCAI), Department for Bioinformatics, Schloss Birlinghoven, Sankt Augustin, Germany.
⁴⁵ Department of Medical Epidemiology and Biostatistics, Karolinska Institutet, Stockholm, Sweden; Usher Institute of Population Health Sciences and Informatics, University of Edinburgh, Edinburgh, UK; MRC Institute of Genetics and Molecular Medicine, University of Edinburgh, Edinburgh, UK.
⁴⁶ NIHR Biomedical Research Centre for Mental Health, Kings College London, London, UK.
⁴⁷ Genetics and Genomics Sciences Department, Icahn School of Medicine at Mount Sinai, New York, NY, USA; IBM Computational Biology Center, IBM Research, NY, USA.
⁴⁸ Sezione di Bari, Istituto Nazionale di Fisica Nucleare, Bari, Italy.
⁴⁹ Dipartimento di Fisica "M. Merlin", Università degli studi di Bari "A. Moro", Bari, Italy.
⁵⁰ Genome and systems biology degree program, National Taiwan University, Taipei, Taiwan.
⁵¹ Department of Radiology and Medical Imaging, The University of Virginia, Charlottesville, VA, USA.
⁵² Global CEO Initiative on Alzheimer's disease, Washington, DC, USA.
⁵³ Radiology, Medicine, Psychiatry, and Neurology, UCSF, SFVAMC, San Francisco, CA, USA.
⁵⁴ Department of Computer Science, Hunter College, The City University of New York, New York, NY, USA.
⁵⁵ Department of Computational Medicine and Bioinformatics, University of Michigan, Ann Arbor, MI, USA.
⁵⁶ School of Computer Science, Fudan University, Shanghai, Shanghai, China; Shanghai Key Lab of Intelligent Information Processing, Fudan University, Shanghai, Shanghai, China; Centre for Computational Systems Biology, Fudan University, Shanghai, China.

Abstract

Identifying accurate biomarkers of cognitive decline is essential for advancing early diagnosis and prevention therapies in Alzheimer's disease. The Alzheimer's disease DREAM Challenge was designed as a computational crowdsourced project to benchmark the current state-of-the-art in predicting cognitive outcomes in Alzheimer's disease based on high dimensional, publicly available genetic and structural imaging data. This meta-analysis failed to identify a meaningful predictor developed from either data modality, suggesting that alternate approaches should be considered for prediction of cognitive performance.

Keywords: Azheimer's disease; Big data; Bioinformatics; Biomarkers; Cognitive decline; Crowdsource; Genetics; Imaging.

Publication types

Meta-Analysis
Research Support, Non-U.S. Gov't

MeSH terms

Alzheimer Disease / complications*
Alzheimer Disease / genetics
Apolipoproteins E / genetics
Biomarkers
Cognition Disorders / diagnosis*
Cognition Disorders / etiology*
Cognition Disorders / genetics
Computational Biology
Databases, Bibliographic / statistics & numerical data
Humans
Predictive Value of Tests

Substances

Apolipoproteins E
Biomarkers

Abstract

Publication types

MeSH terms

Substances

Grants and funding