A comprehensive transcriptional portrait of human cancer cell lines

被引：473

作者：

Klijn, Christiaan ^{[1
]}

Durinck, Steffen ^{[1
,2
]}

Stawiski, Eric W. ^{[1
,2
]}

Haverty, Peter M. ^{[1
]}

Jiang, Zhaoshi ^{[1
]}

Liu, Hanbin ^{[1
]}

Degenhardt, Jeremiah ^{[1
]}

Mayba, Oleg ^{[1
]}

Gnad, Florian ^{[1
]}

Liu, Jinfeng ^{[1
]}

Pau, Gregoire ^{[1
]}

Reeder, Jens ^{[1
]}

Cao, Yi ^{[1
,3
]}

Mukhyala, Kiran ^{[1
]}

Selvaraj, Suresh K. ^{[3
]}

Yu, Mamie ^{[3
]}

Zynda, Gregory J. ^{[1
]}

Brauer, Matthew J. ^{[1
]}

Wu, Thomas D. ^{[1
]}

Gentleman, Robert C. ^{[1
]}

Manning, Gerard ^{[1
]}

Yauch, Robert L. ^{[3
]}

Bourgon, Richard ^{[1
]}

Stokoe, David ^{[3
]}

Modrusan, Zora ^{[2
]}

Neve, Richard M. ^{[3
]}

de Sauvage, Frederic J. ^{[2
]}

Settleman, Jeffrey ^{[3
]}

Seshagiri, Somasekar ^{[2
]}

Zhang, Zemin ^{[1
]}

机构：

[1] Genentech Inc, Dept Bioinformat & Computat Biol, San Francisco, CA 94080 USA

[2] Genentech Inc, Dept Mol Biol, San Francisco, CA 94080 USA

[3] Genentech Inc, Dept Oncol, San Francisco, CA 94080 USA

来源：

NATURE BIOTECHNOLOGY | 2015年 / 33卷 / 03期

关键词：

TO-MESENCHYMAL TRANSITION; GENE-EXPRESSION PATTERNS; COPY-NUMBER ALTERATION; BREAST-CANCER; MOLECULAR PHARMACOLOGY; TYROSINE KINASE; IDENTIFICATION; INHIBITOR; FUSIONS; GENOME;

D O I：

10.1038/nbt.3080

中图分类号：

Q81 [生物工程学（生物技术）]; Q93 [微生物学];

学科分类号：

071005 ; 0836 ; 090102 ; 100705 ;

摘要：

Tumor-derived cell lines have served as vital models to advance our understanding of oncogene function and therapeutic responses. Although substantial effort has been made to define the genomic constitution of cancer cell line panels, the transcriptome remains understudied. Here we describe RNA sequencing and single-nucleotide polymorphism ( SNP) array analysis of 675 human cancer cell lines. We report comprehensive analyses of transcriptome features including gene expression, mutations, gene fusions and expression of non-human sequences. Of the 2,200 gene fusions catalogued, 1,435 consist of genes not previously found in fusions, providing many leads for further investigation. We combine multiple genome and transcriptome features in a pathway-based approach to enhance prediction of response to targeted therapeutics. Our results provide a valuable resource for studies that use cancer cell lines.

引用

页码：306 / +

页数：10

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