The use of strictly standardized mean difference for hit selection in primary RNA interference high-throughput screening experiments

Journal of Biomolecular Screening

Volumn 12, Issue 4, 2007, Pages 497-509

  Zhang, Xiaohua Douglas ^a   Ferrer, Marc ^a   Espeseth, Amy S ^a   Marine, Shane Douglas ^a   Stec, Erica M ^a   Crackower, Michael A ^b   Holder, Daniel J ^a   Heyse, Joseph F ^a   Strulovici, Berta ^a  

^a MERCK RESEARCH LABORATORIES   (United States)

^b MERCK FROSST CENTRE FOR THERAPEUTIC RESEARCH   (Canada)

Author keywords

D+ probability; High throughput screening; Hit rate point; Restricted false positive rate; Strictly standardized mean difference

Indexed keywords

SMALL INTERFERING RNA;

ANALYTIC METHOD; ARTICLE; FALSE NEGATIVE RESULT; FALSE POSITIVE RESULT; GENOMICS; HIGH THROUGHPUT SCREENING; PRIORITY JOURNAL; PROBABILITY; RATING SCALE; RNA INTERFERENCE; SCORING SYSTEM;

FALSE NEGATIVE REACTIONS; FALSE POSITIVE REACTIONS; GENOMICS; HEPACIVIRUS; MODELS, STATISTICAL; MUCINS; RNA INTERFERENCE; RNA, VIRAL;

EID: 34249905471     PISSN: 10870571     EISSN: 1552454X     Source Type: Journal    
DOI: 10.1177/1087057107300646     Document Type: Article

References (19)

1. Zuck P., Murray EM, Stec E., Grobler JA, Simon AJ, Strulovici B.,, et al. A cell-based beta-lactamase reporter gene assay for the identification of inhibitors of hepatitis C virus replication. Anal Biochem 2004 ; 334: 344-355.
2. MacKeigan JP, Murphy LO, Blenis J.: Sensitized RNAi screen of human kinases and phosphatases identifies new regulators of apoptosis and chemoresistance. Nat Cell Biol 2005 ; 7: 591-600.
3. Nybakken K., Vokes SA, Lin TY, McMahon AP, Perrimon NA: Genome-wide RNA interference screen in Drosophila melanogaster cells for new components of the Hh signalling pathway. Nat Genet 2005 ; 37: 1323-1332.
4. Pelkmans L., Fava E., Grabner H., Hannus M., Habermann B., Krausz E.,, et al. Genome-wide analysis of human kinases in clathrin- and caveolae/ raft-mediated endocytosis. Nature 2005 ; 436: 78-86.
5. Bard F., Casano L., Mallabiabarrena A., Wallace E., Saito K., Kitayama H.,, et al. Functional genomics reveals genes involved in protein secretion and Golgi organization. Nature 2006 ; 439: 604-607.
6. Espeseth AS, Huang Q., Gates AT, Xu M., Yu Y., Simon AJ,, et al. A genome wide analysis of ubiquitin ligases in APP processing identifies a novel regulator of BACE1 mRNA levels. Mol Cell Neurosci 2006 ; 33: 227-235.
7. Matson RS: Applying Genomic and Proteomic Microarray Technology in Drug Discovery. Boca Raton, FL: CRC Press, 2005.
8. Zhang J-H., Chung Tdy, Oldenburg KR: A simple statistical parameter for use in evaluation and validation of high throughput screening assays. J Biomol Screen 1999 ; 4: 67-73.
9. Cohen J.: The earth is round (p @#x3C; 0.05). Am Psychol 1994 ; 49: 997-1003.
10. Kirk R.: Practical significance: a concept whose time has come. Educ Psychol Meas 1996 ; 56: 746-759.
11. Zhang XD: A pair of new statistical parameters for quality control in RNA interference high throughput screening assays. Genomics. In press.
12. Zhang XD: A new method with flexible and balanced controls of false negatives and false positives for hit selection in RNA interference high throughput screening assays. Submitted to J Biomol Screen.
13. Gunter B., Brideau C., Pikounis B., Liaw A.: Statistical and graphical methods for quality control determination of high-throughput screening data. J Biomol Screen 2003 ; 8: 624-633.
14. Brideau C., Gunter B., Pikounis B., Liaw A.: Improved statistical methods for hit selection in high-throughput screening. J Biomol Screen 2003 ; 8: 634 - 647.
15. Kevorkov D., Makarenkov V.: Statistical analysis of systematic errors in high-throughput screening. J Biomol Screen 2005 ; 10: 557-567.
16. Malo N., Hanley JA, Cerquozzi S., Pelletier J., Nadon R.: Statistical practice in high-throughput screening data analysis. Nat Biotechnol 2006 ; 24: 167-175.
17. Zhang XD, Yang XC, Chung N., Gates AT, Stec E., Kunapuli P.,, et al. Statistical analysis in RNA interference high throughput screening experiments. Paper presented at The First RNAi Meeting, Cold Spring Harbor, NY, November 2005.
18. Zhang XD, Yang XC, Chung N., Gates AT, Stec E., Kunapuli P.,, et al. Exploring statistical methods for hit selection in RNA interference high throughput screening experiments. Am Stat Assoc Proc 2005 ; 723-729.
19. Zhang XD, Yang XC, Chung N., Gates AT, Stec E., Kunapuli P.,, et al. Robust statistical methods for hit selection in RNA interference high throughput screening experiments. Pharmacogenomics 2006 ; 7: 299-309.