RSAT 2011: regulatory sequence analysis tools

Theoretical and empirical quality assessment of transcription factor-binding motifs

(2011) Alejandra Medina-Rivera et al.   NUCLEIC ACIDS RESEARCH

UniPROBE, update 2011: expanded content and search tools in the online database of protein-binding microarray data on protein-DNA interactions

(2010) K. Robasky et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2011

(2010) P. Flicek et al.   NUCLEIC ACIDS RESEARCH

RegulonDB version 7.0: transcriptional regulation of Escherichia coli K-12 integrated within genetic sensory response units (Gensor Units)

(2010) S. Gama-Castro et al.   NUCLEIC ACIDS RESEARCH

Retrieve-ensembl-seq: user-friendly and large-scale retrieval of single or multi-genome sequences from Ensembl

(2009) O. Sand et al.   BIOINFORMATICS

info-gibbs: a motif discovery algorithm that directly optimizes information content during sampling

(2009) Matthieu Defrance et al.   BIOINFORMATICS

Motif discovery and motif finding from genome-mapped DNase footprint data

(2009) Ivan V. Kulakovskiy et al.   BIOINFORMATICS

JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles

(2009) Elodie Portales-Casamar et al.   NUCLEIC ACIDS RESEARCH

Analyzing multiple data sets by interconnecting RSAT programs via SOAP Web services—an example with ChIP-chip data

(2008) Olivier Sand et al.   Nature Protocols

Using RSAT to scan genome sequences for transcription factor binding sites and cis-regulatory modules

(2008) Jean-Valery Turatsinze et al.   Nature Protocols

Using RSAT oligo-analysis and dyad-analysis tools to discover regulatory signals in nucleic sequences

(2008) Matthieu Defrance et al.   Nature Protocols

RSAT: regulatory sequence analysis tools

(2008) M. Thomas-Chollier et al.   NUCLEIC ACIDS RESEARCH