Enhancing Reproducibility in Cancer Drug Screening: How Do We Move Forward?

被引：67

作者：

Hatzis, Christos ^{[1
,3
]}

Bedard, Philippe L. ^{[11
,12
]}

Birkbak, Nicolai J. ^{[14
]}

Beck, Andrew H. ^{[4
]}

Aerts, Hugo J. W. L. ^{[5
,6
,8
]}

Stern, David F. ^{[2
,3
]}

Shi, Leming ^{[9
,15
,16
,17
,18
,19
]}

Clarke, Robert ^{[10
]}

Quackenbush, John ^{[5
,6
,7
]}

Haibe-Kains, Benjamin ^{[11
,13
]}

机构：

[1] Yale Univ, Sch Med, Sect Med Oncol, New Haven, CT USA

[2] Yale Univ, Sch Med, Dept Pathol, New Haven, CT 06510 USA

[3] Yale Univ, Yale Canc Ctr, New Haven, CT USA

[4] Harvard Univ, Beth Israel Deaconess Med Ctr, Sch Med, Dept Pathol, Boston, MA 02215 USA

[5] Harvard Univ, Sch Med, Brigham & Womens Hosp, Dana Farber Canc Inst,Dept Biostat & Computat Bio, Boston, MA 02215 USA

[6] Harvard Univ, Sch Med, Brigham & Womens Hosp, Dana Farber Canc Inst,Ctr Canc Computat Biol, Boston, MA 02215 USA

[7] Harvard Univ, Sch Med, Brigham & Womens Hosp, Dana Farber Canc Inst,Dept Canc Biol, Boston, MA 02215 USA

[8] Harvard Univ, Sch Med, Brigham & Womens Hosp, Dana Farber Canc Inst,Dept Radiat Oncol & Radiol, Boston, MA 02215 USA

[9] US FDA, Natl Ctr Toxicol Res, Jefferson, AR 72079 USA

[10] Georgetown Univ, Med Ctr, Washington, DC 20007 USA

[11] Univ Toronto, Univ Hlth Network, Princess Margaret Canc Ctr, Toronto, ON, Canada

[12] Univ Toronto, Fac Med, Toronto, ON, Canada

[13] Univ Toronto, Dept Med Biophys, Toronto, ON, Canada

[14] Tech Univ Denmark, Ctr Biol Sequence Anal, Dept Syst Biol, DK-2800 Lyngby, Denmark

[15] Fudan Univ, Sch Life Sci, State Key Lab Genet Engn, Shanghai 200433, Peoples R China

[16] Fudan Univ, Sch Life Sci, MOE Key Lab Contemporary Anthropol, Shanghai 200433, Peoples R China

[17] Fudan Univ, Sch Pharm, State Key Lab Genet Engn, Shanghai 200433, Peoples R China

[18] Fudan Univ, Sch Pharm, MOE Key Lab Contemporary Anthropol, Shanghai 200433, Peoples R China

[19] Zhanjiang Ctr Translat Med, Shanghai, Peoples R China

来源：

CANCER RESEARCH | 2014年 / 74卷 / 15期

基金：

美国国家卫生研究院;

关键词：

INHIBITION; STANDARDS; STRATEGY; IMPACT; TARGET;

D O I：

10.1158/0008-5472.CAN-14-0725

中图分类号：

R73 [肿瘤学];

学科分类号：

100214 ;

摘要：

Large-scale pharmacogenomic high-throughput screening (HTS) studies hold great potential for generating robust genomic predictors of drug response. Two recent large-scale HTS studies have reported results of such screens, revealing several known and novel drug sensitivities and biomarkers. Subsequent evaluation, however, found only moderate interlaboratory concordance in the drug response phenotypes, possibly due to differences in the experimental protocols used in the two studies. This highlights the need for community-wide implementation of standardized assays for measuring drug response phenotypes so that the full potential of HTS is realized. We suggest that the path forward is to establish best practices and standardization of the critical steps in these assays through a collective effort to ensure that the data produced from large-scale screens would not only be of high intrastudy consistency, so that they could be replicated and compared successfully across multiple laboratories. (C)2014 AACR.

引用

页码：4016 / 4023

页数：8

共 40 条

[1]

Ball CA, 2002, SCIENCE, V298, P539

[2] The Cancer Cell Line Encyclopedia enables predictive modelling of anticancer drug sensitivity [J].

Barretina, Jordi ;

Caponigro, Giordano ;

Stransky, Nicolas ;

Venkatesan, Kavitha ;

Margolin, Adam A. ;

Kim, Sungjoon ;

Wilson, Christopher J. ;

Lehar, Joseph ;

Kryukov, Gregory V. ;

Sonkin, Dmitriy ;

Reddy, Anupama ;

Liu, Manway ;

Murray, Lauren ;

Berger, Michael F. ;

Monahan, John E. ;

Morais, Paula ;

Meltzer, Jodi ;

Korejwa, Adam ;

Jane-Valbuena, Judit ;

Mapa, Felipa A. ;

Thibault, Joseph ;

Bric-Furlong, Eva ;

Raman, Pichai ;

Shipway, Aaron ;

Engels, Ingo H. ;

Cheng, Jill ;

Yu, Guoying K. ;

Yu, Jianjun ;

Aspesi, Peter, Jr. ;

de Silva, Melanie ;

Jagtap, Kalpana ;

Jones, Michael D. ;

Wang, Li ;

Hatton, Charles ;

Palescandolo, Emanuele ;

Gupta, Supriya ;

Mahan, Scott ;

Sougnez, Carrie ;

Onofrio, Robert C. ;

Liefeld, Ted ;

MacConaill, Laura ;

Winckler, Wendy ;

Reich, Michael ;

Li, Nanxin ;

Mesirov, Jill P. ;

Gabriel, Stacey B. ;

Getz, Gad ;

Ardlie, Kristin ;

Chan, Vivien ;

Myer, Vic E. .

NATURE, 2012, 483 (7391) :603-607

[3] Significance Analysis of Prognostic Signatures [J].

Beck, Andrew H. ;

Knoblauch, Nicholas W. ;

Hefti, Marco M. ;

Kaplan, Jennifer ;

Schnitt, Stuart J. ;

Culhane, Aedin C. ;

Schroeder, Markus S. ;

Risch, Thomas ;

Quackenbush, John ;

Haibe-Kains, Benjamin .

PLOS COMPUTATIONAL BIOLOGY, 2013, 9 (01)

[4] A comparison of normalization methods for high density oligonucleotide array data based on variance and bias [J].

Bolstad, BM ;

Irizarry, RA ;

Åstrand, M ;

Speed, TP .

BIOINFORMATICS, 2003, 19 (02) :185-193

[5] Minimum information about a microarray experiment (MIAME) - toward standards for microarray data [J].

Brazma, A ;

Hingamp, P ;

Quackenbush, J ;

Sherlock, G ;

Spellman, P ;

Stoeckert, C ;

Aach, J ;

Ansorge, W ;

Ball, CA ;

Causton, HC ;

Gaasterland, T ;

Glenisson, P ;

Holstege, FCP ;

Kim, IF ;

Markowitz, V ;

Matese, JC ;

Parkinson, H ;

Robinson, A ;

Sarkans, U ;

Schulze-Kremer, S ;

Stewart, J ;

Taylor, R ;

Vilo, J ;

Vingron, M .

NATURE GENETICS, 2001, 29 (04) :365-371

[6] Chemogenomics: An emerging strategy for rapid target and drug discovery [J].

Bredel, M ;

Jacoby, E .

NATURE REVIEWS GENETICS, 2004, 5 (04) :262-275

[7] A Simple High-Content Cell Cycle Assay Reveals Frequent Discrepancies between Cell Number and ATP and MTS Proliferation Assays [J].

Chan, Grace Ka Yan ;

Kleinheinz, Tracy L. ;

Peterson, David ;

Moffat, John G. .

PLOS ONE, 2013, 8 (05)

[8]

CHOU TC, 1974, MOL PHARMACOL, V10, P235

[9] THE USE OF ATP BIOLUMINESCENCE AS A MEASURE OF CELL-PROLIFERATION AND CYTOTOXICITY [J].

CROUCH, SPM ;

KOZLOWSKI, R ;

SLATER, KJ ;

FLETCHER, J .

JOURNAL OF IMMUNOLOGICAL METHODS, 1993, 160 (01) :81-88

[10] Drug discovery: A historical perspective [J].

Drews, J .

SCIENCE, 2000, 287 (5460) :1960-1964

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