The NCI Genomic Data Commons

被引：81

作者：

Heath, Allison P. ^{[1
]}

Ferretti, Vincent ^{[2
,9
]}

Agrawal, Stuti ^{[3
,10
]}

An, Maksim ^{[3
,11
]}

Angelakos, James C. ^{[3
]}

Arya, Renuka ^{[3
]}

Bajari, Rosita ^{[2
]}

Baqar, Bilal ^{[3
]}

Barnowski, Justin H. B. ^{[3
,12
]}

Burt, Jeffrey ^{[2
]}

Catton, Ann ^{[2
]}

Chan, Brandon F. ^{[2
]}

Chu, Fay ^{[4
]}

Cullion, Kim ^{[2
]}

Davidsen, Tanja ^{[5
]}

Do, Phuong-My ^{[2
]}

Dompierre, Christian ^{[3
,13
]}

Ferguson, Martin L. ^{[5
]}

Fitzsimons, Michael S. ^{[3
,14
]}

Ford, Michael ^{[3
,15
]}

Fukuma, Miyuki ^{[2
]}

Gaheen, Sharon ^{[6
]}

Ganji, Gajanan L. ^{[3
]}

Garcia, Tzintzuni I. ^{[7
]}

George, Sameera S. ^{[3
,16
]}

Gerhard, Daniela S. ^{[5
]}

Gerthoffert, Francois ^{[2
,17
]}

Gomez, Fauzi ^{[3
]}

Han, Kang ^{[3
]}

Hernandez, Kyle M. ^{[7
]}

Issac, Biju ^{[6
]}

Jackson, Richard ^{[3
,12
]}

Jensen, Mark A. ^{[6
]}

Joshi, Sid ^{[2
]}

Kadam, Ajinkya ^{[3
,18
]}

Khurana, Aishmit ^{[2
]}

Kim, Kyle M. J. ^{[2
]}

Kraft, Victoria E. ^{[3
]}

Li, Shenglai ^{[3
]}

Lichtenberg, Tara M.

Lodato, Janice ^{[3
,19
]}

Lolla, Laxmi ^{[4
]}

Martinov, Plamen ^{[8
,20
]}

Mazzone, Jeffrey A. ^{[3
]}

Miller, Daniel P. ^{[1
,3
]}

Miller, Ian ^{[3
]}

Miller, Joshua S. ^{[3
]}

Miyauchi, Koji ^{[2
]}

Murphy, Mark W. ^{[3
,21
]}

Nullet, Thomas ^{[3
]}

机构：

[1] Childrens Hosp Philadelphia, Philadelphia, PA 19104 USA

[2] Ontario Inst Canc Res, Toronto, ON, Canada

[3] Univ Chicago, Ctr Translat Data Sci, Chicago, IL 60637 USA

[4] Essential Software, Rockville, MD USA

[5] NCI, Bethesda, MD 20892 USA

[6] Frederick Natl Lab Canc Res, Leidos Biomed Res, Frederick, MD USA

[7] Univ Chicago, Ctr Res Informat, Chicago, IL 60637 USA

[8] Univ Chicago, Div Biol Sci, Informat Secur Off, Chicago, IL 60637 USA

[9] Univ Montreal, CHU St Justine, Montreal, PQ, Canada

[10] Merck Healthcare, Darmstadt, Germany

[11] Microsoft Corp, Redmond, WA 98052 USA

[12] Neighborhoodscom, Chicago, IL USA

[13] Sympatic, Chicago, IL USA

[14] Univ Illinois, Chicago, IL USA

[15] ModelOp, Chicago, IL USA

[16] BenchPrep, Chicago, IL USA

[17] Jahia Solut, Toronto, ON, Canada

[18] Quantcast, Chicago, IL USA

[19] Amount, Chicago, IL USA

[20] Open Commons Consortium, Chicago, IL USA

[21] Cisco, San Jose, CA USA

[22] Fdn Progreso & Salud FPS, Clin Bioinformat Area, Seville, Spain

[23] Tempus, Chicago, IL USA

[24] Cole Parmer, Vernon Hills, IL USA

[25] Blink Hlth, New York, NY USA

[26] Argonne Natl Labs, Argonne, IL USA

[27] Civis Analyt, Chicago, IL USA

[28] Google, Chicago, IL USA

[29] Univ Notre Dame, Notre Dame, IN 46556 USA

[30] Appify, San Francisco, CA USA

[31] Peyk, Los Angeles, CA USA

来源：

NATURE GENETICS | 2021年 / 53卷 / 03期

基金：

美国国家卫生研究院;

关键词：

D O I：

10.1038/s41588-021-00791-5

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

The National Cancer Institute (NCI) Genomic Data Commons (GDC) contains more than 2.9 petabytes of genomic and associated clinical data from more than 60 NCI-funded and other contributed cancer genomics research projects. The GDC consists of five applications over a common data model and a common application programming interface.

引用

页码：257 / 262

页数：6

共 13 条

[1] Progress Toward Cancer Data Ecosystems [J].

Grossman, Robert L. .

CANCER JOURNAL, 2018, 24 (03) :122-126

[2] A Case for Data Commons: Toward Data Science as a Service [J].

Grossman, Robert L. ;

Heath, Allison ;

Murphy, Mark ;

Patterson, Maria ;

Wells, Walt .

COMPUTING IN SCIENCE & ENGINEERING, 2016, 18 (05) :10-20

[3] Bionimbus: a cloud for managing, analyzing and sharing large genomics datasets [J].

Heath, Allison P. ;

Greenway, Matthew ;

Powell, Raymond ;

Spring, Jonathan ;

Suarez, Rafael ;

Hanley, David ;

Bandlamudi, Chai ;

McNerney, Megan E. ;

White, Kevin P. ;

Grossman, Robert L. .

JOURNAL OF THE AMERICAN MEDICAL INFORMATICS ASSOCIATION, 2014, 21 (06) :969-975

[4] A Comprehensive Infrastructure for Big Data in Cancer Research: Accelerating Cancer Research and Precision Medicine [J].

Hinkson, Izumi V. ;

Davidsen, Tanja M. ;

Klemm, Juli D. ;

Chandramouliswaran, Ishwar ;

Kerlavage, Anthony R. ;

Kibbe, Warren A. .

FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY, 2017, 5

[5] MSEA: detection and quantification of mutation hotspots through mutation set enrichment analysis [J].

Jia, Peilin ;

Wang, Quan ;

Chen, Qingxia ;

Hutchinson, Katherine E. ;

Pao, William ;

Zhao, Zhongming .

GENOME BIOLOGY, 2014, 15 (10) :489

[6] Discovery and saturation analysis of cancer genes across 21 tumour types [J].

Lawrence, Michael S. ;

Stojanov, Petar ;

Mermel, Craig H. ;

Robinson, James T. ;

Garraway, Levi A. ;

Golub, Todd R. ;

Meyerson, Matthew ;

Gabriel, Stacey B. ;

Lander, Eric S. ;

Getz, Gad .

NATURE, 2014, 505 (7484) :495-+

[7] Tackling the widespread and critical impact of batch effects in high-throughput data [J].

Leek, Jeffrey T. ;

Scharpf, Robert B. ;

Bravo, Hector Corrada ;

Simcha, David ;

Langmead, Benjamin ;

Johnson, W. Evan ;

Geman, Donald ;

Baggerly, Keith ;

Irizarry, Rafael A. .

NATURE REVIEWS GENETICS, 2010, 11 (10) :733-739

[8] Activating mutation in the tyrosine kinase JAK2 in polycythemia vera, essential thrombocythemia, and myeloid metaplasia with myelofibrosis [J].

Levine, RL ;

Wadleigh, M ;

Cools, J ;

Ebert, BL ;

Wernig, G ;

Huntly, BJP ;

Boggon, TJ ;

Wlodarska, L ;

Clark, JJ ;

Moore, S ;

Adelsperger, J ;

Koo, S ;

Lee, JC ;

Gabriel, S ;

Mercher, T ;

D'Andrea, A ;

Fröhling, S ;

Döhner, K ;

Marynen, P ;

Vandenberghe, P ;

Mesa, RA ;

Tefferi, A ;

Griffin, JD ;

Eck, MJ ;

Sellers, WR ;

Meyerson, M ;

Golub, TR ;

Lee, SJ ;

Gilliland, DG .

CANCER CELL, 2005, 7 (04) :387-397

[9] The n-of-1 clinical trial: the ultimate strategy for individualizing medicine? [J].

Lillie, Elizabeth O. ;

Patay, Bradley ;

Diamant, Joel ;

Issell, Brian ;

Topol, Eric J. ;

Schork, Nicholas J. .

PERSONALIZED MEDICINE, 2011, 8 (02) :161-173

[10] The NCBI dbGaP database of genotypes and phenotypes [J].

Mailman, Matthew D. ;

Feolo, Michael ;

Jin, Yumi ;

Kimura, Masato ;

Tryka, Kimberly ;

Bagoutdinov, Rinat ;

Hao, Luning ;

Kiang, Anne ;

Paschall, Justin ;

Phan, Lon ;

Popova, Natalia ;

Pretel, Stephanie ;

Ziyabari, Lora ;

Lee, Moira ;

Shao, Yu ;

Wang, Zhen Y. ;

Sirotkin, Karl ;

Ward, Minghong ;

Kholodov, Michael ;

Zbicz, Kerry ;

Beck, Jeffrey ;

Kimelman, Michael ;

Shevelev, Sergey ;

Preuss, Don ;

Yaschenko, Eugene ;

Graeff, Alan ;

Ostell, James ;

Sherry, Stephen T. .

NATURE GENETICS, 2007, 39 (10) :1181-1186

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