John Quackenbush

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Benjamin Haibe-KainsScientist (Principal Investigator), Princess Margaret Cancer Centre, University Health NetworkVerified email at uhnresearch.ca
Joseph A. WhiteDana-Farber Cancer InstituteVerified email at jimmy.harvard.edu
Hugo AertsDirector AI in Medicine (AIM) @ Harvard-MGB | Professor @ MaastrichtUVerified email at dfci.harvard.edu
Kimberly GlassAssociate Scientist, Brigham and Women's Hospital; Assistant Professor of Medicine, Harvard MedicalVerified email at channing.harvard.edu
Alvis BrazmaSenior Scientist, European Bioinformatics Institute, EMBLVerified email at ebi.ac.uk
Aedin CulhaneDana-Farber Cancer Institute, Harvard TH Chan School, University of LimerickVerified email at ul.ie
Razvan SultanaBioinformatician, Garvan Institute, Sydney, AustraliaVerified email at garvan.org.au
Christian StoeckertReseach Professor of Genetics, University of PennsylvaniaVerified email at upenn.edu
Geo PerteaData/Software Engineer, Lieber Institute for Brain DevelopmentVerified email at jhu.edu
Helen CaustonColumbia UniversityVerified email at cumc.columbia.edu
Helen ParkinsonEuropean Bioinformatics Institute - Head of Knowledge Management Section, Team LeaderVerified email at ebi.ac.uk
Ronald TaylorSupervisory Biologist (Bioinformatics) at the National Cancer InstituteVerified email at nih.gov
Paul SpellmanOregon Health & Sciences UniversityVerified email at ohsu.edu
marieke kuijjerUniversity of OsloVerified email at ncmm.uio.no
Gavin SherlockProfessor of Genetics, Stanford UniversityVerified email at stanford.edu
Chintan ParmarPathAI (Current) | [Novartis, Harvard-DFCI-BWH, ISI-Kolkata] (Previous)Verified email at dfci.harvard.edu
Ed SilvermanVerified email at channing.harvard.edu
Gianluca BontempiFull professor of Machine Learning, ULBVerified email at ulb.ac.be
Maria I KlapaPrincipal Researcher at FORTH/ICE-HTVerified email at iceht.forth.gr
Pascal HingampAssociate Professor, Aix Marseille University, FranceVerified email at univ-amu.fr

John Quackenbush

Harvard T.H. Chan School of Public Health, Channing Division of Network Medicine, and Dana-Farber

Verified email at hsph.harvard.edu

Genomics Bioinformatics Computational Biology Functional Genomics Cancer Genomics


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Analysis of the genome sequence of the flowering plant Arabidopsis thaliana S Kaul, HL Koo, J Jenkins, M Rizzo, T Rooney, LJ Tallon, T Feldblyum, ... nature 408 (6814), 796-815, 2000	10451	2000
TM4: a free, open-source system for microarray data management and analysis AI Saeed, V Sharov, J White, J Li, W Liang, N Bhagabati, J Braisted, ... Biotechniques 34 (2), 374-378, 2003	5169	2003
Minimum information about a microarray experiment (MIAME)—toward standards for microarray data A Brazma, P Hingamp, J Quackenbush, G Sherlock, P Spellman, ... Nature genetics 29 (4), 365-371, 2001	4683	2001
The complete genome sequence of the gastric pathogen Helicobacter pylori JF Tomb, O White, AR Kerlavage, RA Clayton, GG Sutton, ... Nature 388 (6642), 539-547, 1997	4222	1997
The transcriptional landscape of the mammalian genome P Carninci, T Kasukawa, S Katayama, J Gough, MC Frith, N Maeda, ... science 309 (5740), 1559-1563, 2005	3771	2005
Decoding tumour phenotype by noninvasive imaging using a quantitative radiomics approach HJWL Aerts, ER Velazquez, RTH Leijenaar, C Parmar, P Grossmann, ... Nature communications 5 (1), 1-9, 2014	3441	2014
Microarray data normalization and transformation J Quackenbush Nature genetics 32 (4), 496-501, 2002	2678	2002
Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi CM Fraser, S Casjens, WM Huang, GG Sutton, R Clayton, R Lathigra, ... Nature 390 (6660), 580-586, 1997	2467	1997
Computational analysis of microarray data J Quackenbush Nature reviews genetics 2 (6), 418-427, 2001	2135	2001
Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Y Okazaki, M Furuno, T Kasukawa, J Adachi, H Bono, S Kondo, I Nikaido, ... Nature 420 (6915), 563-573, 2002	2011	2002
Genesis: cluster analysis of microarray data A Sturn, J Quackenbush, Z Trajanoski Bioinformatics 18 (1), 207-208, 2002	1964	2002
[9] TM4 microarray software suite AI Saeed, NK Bhagabati, JC Braisted, W Liang, V Sharov, EA Howe, J Li, ... Methods in enzymology 411, 134-193, 2006	1796	2006
TIGR Gene Indices clustering tools (TGICL): a software system for fast clustering of large EST datasets G Pertea, X Huang, F Liang, V Antonescu, R Sultana, S Karamycheva, ... Bioinformatics 19 (5), 651-652, 2003	1795	2003
The molecular portraits of breast tumors are conserved across microarray platforms Z Hu, C Fan, DS Oh, JS Marron, X He, BF Qaqish, C Livasy, LA Carey, ... BMC genomics 7 (1), 1-12, 2006	1729	2006
Corrections: The complete genome sequence of the hyperthermophilic, sulphate-reducing archaeon Archaeoglobus fulgidus HP Klenk, RA Clayton, JF Tomb, O White, KE Nelson, KA Ketchum, ... Nature 394 (6688), 101, 1998	1694*	1998
Identification of conserved gene expression features between murine mammary carcinoma models and human breast tumors JI Herschkowitz, K Simin, VJ Weigman, I Mikaelian, J Usary, Z Hu, ... Genome biology 8 (5), 1-17, 2007	1495	2007
A concise guide to cDNA microarray analysis P Hegde, R Qi, K Abernathy, C Gay, S Dharap, R Gaspard, JE Hughes, ... Biotechniques 29 (3), 548-562, 2000	1364	2000
A gene map of the human genome GD Schuler, MS Boguski, EA Stewart, LD Stein, G Gyapay, K Rice, ... Science 274 (5287), 540-546, 1996	1346	1996
Artificial intelligence in radiology A Hosny, C Parmar, J Quackenbush, LH Schwartz, HJWL Aerts Nature Reviews Cancer 18 (8), 500-510, 2018	1307	2018
Multiple-laboratory comparison of microarray platforms RA Irizarry, D Warren, F Spencer, IF Kim, S Biswal, BC Frank, ... Nature methods 2 (5), 345-350, 2005	1034	2005

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