Assessing computational tools for the discovery of transcription factor binding sites

被引：845

作者：

Tompa, M

Li, N

Bailey, TL

Church, GM

De Moor, B

Eskin, E

Favorov, AV

Frith, MC

Fu, YT

Kent, WJ

Makeev, VJ

Mironov, AA

Noble, WS

Pavesi, G

Pesole, G

Régnier, M

Simonis, N

Sinha, S

Thijs, G

van Helden, J

Vandenbogaert, M

Weng, ZP

Workman, C

Ye, C

Zhu, Z

机构：

[1] Univ Washington, Dept Comp Sci & Engn, Seattle, WA 98195 USA

[2] Univ Washington, Dept Genome Sci, Seattle, WA 98195 USA

[3] Univ Queensland, Inst Mol Biosci, Brisbane, Qld, Australia

[4] Harvard Univ, Sch Med, Dept Genet, Boston, MA 02115 USA

[5] Harvard Univ, Sch Med, Lipper Ctr Computat Genet, Boston, MA 02115 USA

[6] Katholieke Univ Leuven, ESAT SCD, B-3001 Louvain, Belgium

[7] Univ Calif San Diego, Dept Comp Sci & Engn, La Jolla, CA 92093 USA

[8] State Sci Ctr GosNIIGenet, Moscow 117545, Russia

[9] Russian Acad Sci, VA Engelhardt Mol Biol Inst, Moscow 119991, Russia

[10] Boston Univ, Bioinformat Program, Boston, MA 02215 USA

[11] Univ Calif Santa Cruz, Ctr Biomol Sci & Engn, Santa Cruz, CA 95064 USA

[12] Moscow MV Lomonosov State Univ, Dept Bioengn & Bioinformat, Moscow 119992, Russia

[13] Univ Milan, Dept Comp Sci & Commun DICo, Milan, Italy

[14] Univ Milan, Dept Biomol Sci & Biotechnol, Milan, Italy

[15] INRIA Rocquencourt, F-78153 Le Chesnay, France

[16] Free Univ Brussels, SCMB, B-1050 Brussels, Belgium

[17] Rockefeller Univ, Ctr Studies Phys & Biol, New York, NY 10021 USA

[18] Univ Calif San Diego, Dept Bioengn, La Jolla, CA 92093 USA

[19] Univ Calif San Diego, Bioinformat Program, La Jolla, CA 92093 USA

来源：

NATURE BIOTECHNOLOGY | 2005年 / 23卷 / 01期

关键词：

D O I：

10.1038/nbt1053

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：

The prediction of regulatory elements is a problem where computational methods offer great hope. Over the past few years, numerous tools have become available for this task. The purpose of the current assessment is twofold: to provide some guidance to users regarding the accuracy of currently available tools in various settings, and to provide a benchmark of data sets for assessing future tools.

引用

页码：137 / 144

页数：8

共 23 条

[1] Environmentally induced foregut remodeling by PHA-4/FoxA and DAF-12/NHR [J].