論文

査読有り
2017年11月

A Community Challenge for Inferring Genetic Predictors of Gene Essentialities through Analysis of a Functional Screen of Cancer Cell Lines

CELL SYSTEMS
  • Mehmet Gonen
  • Barbara A. Weir
  • Glenn S. Cowley
  • Francisca Vazquez
  • Yuanfang Guan
  • Alok Jaiswal
  • Masayuki Karasuyama
  • Vladislav Uzunangelov
  • Tao Wang
  • Aviad Tsherniak
  • Sara Howell
  • Daniel Marbach
  • Bruce Hoff
  • Thea C. Norman
  • Antti Airola
  • Adrian Bivol
  • Kerstin Bunte
  • Daniel Carlin
  • Sahil Chopra
  • Alden Deran
  • Kyle Ellrott
  • Peddinti Gopalacharyulu
  • Kiley Graim
  • Samuel Kaski
  • Suleiman A. Khan
  • Yulia Newton
  • Sam Ng
  • Tapio Pahikkala
  • Evan Paull
  • Artem Sokolov
  • Hao Tang
  • Jing Tang
  • Krister Wennerberg
  • Yang Xie
  • Xiaowei Zhan
  • Fan Zhu
  • Tero Aittokallio
  • Hiroshi Mamitsuka
  • Joshua M. Stuart
  • Jesse S. Boehm
  • David E. Root
  • Guanghua Xiao
  • Gustavo Stolovitzky
  • William C. Hahn
  • Adam A. Margolin
  • 全て表示

5
5
開始ページ
485
終了ページ
+
記述言語
英語
掲載種別
研究論文(学術雑誌)
DOI
10.1016/j.cels.2017.09.004
出版者・発行元
CELL PRESS

We report the results of a DREAM challenge designed to predict relative genetic essentialities based on a novel dataset testing 98,000 shRNAs against 149 molecularly characterized cancer cell lines. We analyzed the results of over 3,000 submissions over a period of 4 months. We found that algorithms combining essentiality data across multiple genes demonstrated increased accuracy; gene expression was the most informative molecular data type; the identity of the gene being predicted was far more important than the modeling strategy; well-predicted genes and selected molecular features showed enrichment in functional categories; and frequently selected expression features correlated with survival in primary tumors. This study establishes benchmarks for gene essentiality prediction, presents a community resource for future comparison with this benchmark, and provides insights into factors influencing the ability to predict gene essentiality from functional genetic screens. This study also demonstrates the value of releasing pre-publication data publicly to engage the community in an open research collaboration.

リンク情報
DOI
https://doi.org/10.1016/j.cels.2017.09.004
PubMed
https://www.ncbi.nlm.nih.gov/pubmed/28988802
Web of Science
https://gateway.webofknowledge.com/gateway/Gateway.cgi?GWVersion=2&SrcAuth=JSTA_CEL&SrcApp=J_Gate_JST&DestLinkType=FullRecord&KeyUT=WOS:000416533900009&DestApp=WOS_CPL
URL
http://orcid.org/0000-0002-6607-5617
ID情報
  • DOI : 10.1016/j.cels.2017.09.004
  • ISSN : 2405-4712
  • eISSN : 2405-4720
  • ORCIDのPut Code : 48380193
  • PubMed ID : 28988802
  • Web of Science ID : WOS:000416533900009

エクスポート
BibTeX RIS