A genetic algorithm for the detection of new cis-regulatory modules in sets of coregulated genes

被引：38

作者：

Aerts, S ^{[1
]}

Van Loo, P ^{[1
]}

Moreau, Y ^{[1
]}

De Moor, B ^{[1
]}

机构：

[1] Katholieke Univ Leuven, Dept Elect Engn, ESAT, SCD, B-3001 Louvain, Belgium

来源：

BIOINFORMATICS | 2004年 / 20卷 / 12期

关键词：

D O I：

10.1093/bioinformatics/bth179

中图分类号：

Q5 [生物化学];

学科分类号：

071010 [生物化学与分子生物学]; 081704 [应用化学];

摘要：

The implementation of a genetic algorithm is described that provides a fast method of searching for the optimal combination of transcription factor binding sites in a set of regulatory sequences.

引用

页码：1974 / 1976

页数：3

共 14 条

[1]

Toucan:: deciphering the cis-regulatory logic of coregulated genes [J].

Aerts, S ;

Thijs, G ;

Coessens, B ;

Staes, M ;

Moreau, Y ;

Moor, BD .

NUCLEIC ACIDS RESEARCH, 2003, 31 (06) :1753-1764

[2]

Computational detection of cis-regulatory modules [J].

Aerts, Stein ;

Van Loo, Peter ;

Thijs, Gert ;

Moreau, Yves ;

De Moor, Bart .

BIOINFORMATICS, 2003, 19 :II5-II14

[3]

Searching for statistically significant regulatory modules [J].

Bailey, Timothy L. ;

Noble, William Stafford .

BIOINFORMATICS, 2003, 19 :II16-II25

[4]

Discovery of regulatory elements by a computational method for phylogenetic footprinting [J].

Blanchette, M ;

Tompa, M .

GENOME RESEARCH, 2002, 12 (05) :739-748

[5]

AVID: A global alignment program [J].

Bray, N ;

Dubchak, I ;

Pachter, L .

GENOME RESEARCH, 2003, 13 (01) :97-102

[6]

INCLUSive: a web portal and service registry for microarray and regulatory sequence analysis [J].

Coessens, B ;

Thijs, G ;

Aerts, S ;

Marchal, K ;

De Smet, F ;

Engelen, K ;

Glenisson, P ;

Moreau, Y ;

Mathys, J ;

De Moor, B .

NUCLEIC ACIDS RESEARCH, 2003, 31 (13) :3468-3470

[7]

Statistical significance of clusters of motifs represented by position specific scoring matrices in nucleotide sequences [J].

Frith, MC ;

Spouge, JL ;

Hansen, U ;

Weng, ZP .

NUCLEIC ACIDS RESEARCH, 2002, 30 (14) :3214-3224

[8]

The Ensembl genome database project [J].

Hubbard, T ;

Barker, D ;

Birney, E ;

Cameron, G ;

Chen, Y ;

Clark, L ;

Cox, T ;

Cuff, J ;

Curwen, V ;

Down, T ;

Durbin, R ;

Eyras, E ;

Gilbert, J ;

Hammond, M ;

Huminiecki, L ;

Kasprzyk, A ;

Lehvaslaiho, H ;

Lijnzaad, P ;

Melsopp, C ;

Mongin, E ;

Pettett, R ;

Pocock, M ;

Potter, S ;

Rust, A ;

Schmidt, E ;

Searle, S ;

Slater, G ;

Smith, J ;

Spooner, W ;

Stabenau, A ;

Stalker, J ;

Stupka, E ;

Ureta-Vidal, A ;

Vastrik, I ;

Clamp, M .

NUCLEIC ACIDS RESEARCH, 2002, 30 (01) :38-41

[9]

Identification of functional clusters of transcription factor binding motifs in genome sequences: the MSCAN algorithm [J].

Johansson, Oe. ;

Alkema, W. ;

Wasserman, W. W. ;

Lagergren, J. .

BIOINFORMATICS, 2003, 19 :i169-i176

[10]

CREME: a framework for identifying cis-regulatory modules in human-mouse conserved segments [J].

Sharan, Roded ;

Ovcharenko, Ivan ;

Ben-Hur, Asa ;

Karp, Richard M. .

BIOINFORMATICS, 2003, 19 :i283-i291

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