PROMO:: detection of known transcription regulatory elements using species-tailored searches

被引：1107

作者：

Messeguer, X

Escudero, R

Farré, D

Núñez, O

Martínez, J

Albà, M

机构：

[1] UCL, Wohl Vir Ctr, Dept Immunol & Mol Pathol, London W1T 4JF, England

[2] Univ Politecn Cataluna, Software Dept, Algorithm & Genet Grp, ES-08034 Barcelona, Spain

来源：

BIOINFORMATICS | 2002年 / 18卷 / 02期

关键词：

D O I：

10.1093/bioinformatics/18.2.333

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

We have developed a set of tools to construct positional weight matrices from known transcription factor binding sites in a species or taxon-specific manner, and to search for matches in DNA sequences.

引用

页码：333 / 334

页数：2

共 6 条

[1] WEIGHT MATRIX DESCRIPTIONS OF 4 EUKARYOTIC RNA POLYMERASE-II PROMOTER ELEMENTS DERIVED FROM 502 UNRELATED PROMOTER SEQUENCES [J].

BUCHER, P .

JOURNAL OF MOLECULAR BIOLOGY, 1990, 212 (04) :563-578

[2]

Frech K, 1997, TRENDS BIOCHEM SCI, V22, P103

[3] MatInd and MatInspector: New fast and versatile tools for detection of consensus matches in nucleotide sequence data [J].

Quandt, K ;

Frech, K ;

Karas, H ;

Wingender, E ;

Werner, T .

NUCLEIC ACIDS RESEARCH, 1995, 23 (23) :4878-4884

[4] RegulonDB (version 3.2):: transcriptional regulation and operon organization in Escherichia coli K-12 [J].

Salgado, H ;

Santos-Zavaleta, A ;

Gama-Castro, S ;

Millén-Zárate, D ;

Díaz-Peredo, E ;

Sánchez-Solano, F ;

Pérez-Rueda, E ;

Bonavides-Martínez, C ;

Collado-Vides, J .

NUCLEIC ACIDS RESEARCH, 2001, 29 (01) :72-74

[5] Identification of regulatory regions which confer muscle-specific gene expression [J].

Wasserman, WW ;

Fickett, JW .

JOURNAL OF MOLECULAR BIOLOGY, 1998, 278 (01) :167-181

[6] The TRANSFAC system on gene expression regulation [J].

Wingender, E ;

Chen, X ;

Fricke, E ;

Geffers, R ;

Hehl, R ;

Liebich, I ;

Krull, M ;

Matys, V ;

Michael, H ;

Ohnhäuser, R ;

Prüss, M ;

Schacherer, F ;

Thiele, S ;

Urbach, S .

NUCLEIC ACIDS RESEARCH, 2001, 29 (01) :281-283

← 1 →