学术探索
学术期刊
新闻热点
数据分析
智能评审

Identification of patterns in biological sequences at the ALGGEN server:: PROMO and MALGEN

被引：866
作者：
Farré, D
Roset, R
Huerta, M
Adsuara, JE
Roselló, L
Albà, MM
Messeguer, X
机构：
[1] Univ Politecn Catalunya, Software Dept, Algorithm & Genet Grp, ES-08034 Barcelona, Spain
[2] Inst Recerca Oncol, Comp Unit, Lhospitalet De Llobregat, Spain
[3] Univ Politecn Catalunya, CEPBA IBM Res Inst, ES-08034 Barcelona, Spain
[4] Univ Pompeu Fabra, Hlth & Expt Sci Dept, Biomed Informat Res Grp, Barcelona, Spain
来源：
NUCLEIC ACIDS RESEARCH | 2003年 / 31卷 / 13期
关键词：
D O I：
10.1093/nar/gkg605
中图分类号：
Q5 [生物化学]; Q7 [分子生物学];
学科分类号：
071010 ; 081704 ;
摘要：
In this paper we present several web-based tools to identify conserved patterns in sequences. In particular we present details on the functionality of PROMO version 2.0, a program for the prediction of transcription factor binding site in a single sequence or in a group of related sequences and, of MALGEN, a tool to visualize sequence correspondences among long DNA sequences. The web tools and associated documentation can be accessed at http://www.lsi.upc.es/similar toalggen (RESEARCH link).
引用
收藏
页码：3651 / 3653
页数：3
相关论文
共 12 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]   Alignment of whole genomes [J].
Delcher, AL ;
Kasif, S ;
Fleischmann, RD ;
Peterson, J ;
White, O ;
Salzberg, SL .
NUCLEIC ACIDS RESEARCH, 1999, 27 (11) :2369-2376
[3]   Fast algorithms for large-scale genome alignment and comparison [J].
Delcher, AL ;
Phillippy, A ;
Carlton, J ;
Salzberg, SL .
NUCLEIC ACIDS RESEARCH, 2002, 30 (11) :2478-2483
[4]  
HOHL M, 2002, BIOINFORMATICS, V18, P1
[5]  
HUERTA M, 2002, LSI0264R U POL CAT D
[6]   TRANSFAC®:: transcriptional regulation, from patterns to profiles [J].
Matys, V ;
Fricke, E ;
Geffers, R ;
Gössling, E ;
Haubrock, M ;
Hehl, R ;
Hornischer, K ;
Karas, D ;
Kel, AE ;
Kel-Margoulis, OV ;
Kloos, DU ;
Land, S ;
Lewicki-Potapov, B ;
Michael, H ;
Münch, R ;
Reuter, I ;
Rotert, S ;
Saxel, H ;
Scheer, M ;
Thiele, S ;
Wingender, E .
NUCLEIC ACIDS RESEARCH, 2003, 31 (01) :374-378
[7]   PROMO:: detection of known transcription regulatory elements using species-tailored searches [J].
Messeguer, X ;
Escudero, R ;
Farré, D ;
Núñez, O ;
Martínez, J ;
Albà, M .
BIOINFORMATICS, 2002, 18 (02) :333-334
[8]   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
[9]  
ROULET E, 1998, IN SILICO BIOL, V1, P21
[10]   Genome-wide analysis of the emigrant family of MITEs of Arabidopsis thaliana [J].
Santiago, N ;
Herráiz, C ;
Goñi, JR ;
Messeguer, X ;
Casacuberta, JM .
MOLECULAR BIOLOGY AND EVOLUTION, 2002, 19 (12) :2285-2293
12