TFBS: Computational framework for transcription factor binding site analysis

被引：131

作者：

Lenhard, B ^{[1
]}

Wasserman, WW ^{[1
]}

机构：

[1] Karolinska Inst, Ctr Genom & Bioinformat, Bioinformat Unit, Stockholm, Sweden

来源：

BIOINFORMATICS | 2002年 / 18卷 / 08期

关键词：

D O I：

10.1093/bioinformatics/18.8.1135

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

TFBS is a set of integrated, object-oriented Perl modules for transcription factor binding site detection and analysis. It implements objects representing specificity profile matrices, binding sites and sets thereof, pattern generators, and pattern database interfaces. The modules are interoperable with the BioPerl open source system.

引用

页码：1135 / 1136

页数：2

共 8 条

[1] Arnone MI, 1997, DEVELOPMENT, V124, P1851
[2] SELECTION OF DNA-BINDING SITES BY REGULATORY PROTEINS
BERG, OG
VONHIPPEL, PH
[J]. TRENDS IN BIOCHEMICAL SCIENCES, 1988, 13 (06) : 207 - 211
[3] A novel method to develop highly specific models for regulatory units detects a new LTR in GenBank which contains a functional promoter
Frech, K
DanescuMayer, J
Werner, T
[J]. JOURNAL OF MOLECULAR BIOLOGY, 1997, 270 (05) : 674 - 687
[4] A predictive model for regulatory sequences directing liver-specific transcription
Krivan, W
Wasserman, WW
[J]. GENOME RESEARCH, 2001, 11 (09) : 1559 - 1566
[5] DETECTING SUBTLE SEQUENCE SIGNALS - A GIBBS SAMPLING STRATEGY FOR MULTIPLE ALIGNMENT
LAWRENCE, CE
ALTSCHUL, SF
BOGUSKI, MS
LIU, JS
NEUWALD, AF
WOOTTON, JC
[J]. SCIENCE, 1993, 262 (5131) : 208 - 214
[6] SEQUENCE LOGOS - A NEW WAY TO DISPLAY CONSENSUS SEQUENCES
SCHNEIDER, TD
STEPHENS, RM
[J]. NUCLEIC ACIDS RESEARCH, 1990, 18 (20) : 6097 - 6100
[7] STADEN R, 1990, METHOD ENZYMOL, V183, P193
[8] Identification of regulatory regions which confer muscle-specific gene expression
Wasserman, WW
Fickett, JW
[J]. JOURNAL OF MOLECULAR BIOLOGY, 1998, 278 (01) : 167 - 181

← 1 →