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

Domènec Farré; Romà Roset; Mario Huerta; José E Adsuara; Llorenç Roselló; M Mar Albà; Xavier Messeguer

doi:10.1093/nar/gkg605

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

Nucleic Acids Res. 2003 Jul 1;31(13):3651-3. doi: 10.1093/nar/gkg605.

Authors

Domènec Farré¹, Romà Roset, Mario Huerta, José E Adsuara, Llorenç Roselló, M Mar Albà, Xavier Messeguer

Affiliation

¹ Computing Unit, Institut de Recerca Oncològica, L'Hospitalet, Spain.

Abstract

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/~alggen (RESEARCH link).

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Animals
Binding Sites
Computer Graphics
Conserved Sequence
Genome
Humans
Internet
Regulatory Sequences, Nucleic Acid*
Sequence Alignment
Sequence Analysis, DNA / methods*
Software*
Transcription Factors

Substances

Transcription Factors