DOOR 2.0: presenting operons and their functions through dynamic and integrated views

An integrated toolkit for accurate prediction and analysis of cis-regulatory motifs at a genome scale

(2013) Qin Ma et al.   BIOINFORMATICS

RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more

(2012) Heladia Salgado et al.   NUCLEIC ACIDS RESEARCH

ProOpDB: Prokaryotic Operon DataBase

(2011) B. Taboada et al.   NUCLEIC ACIDS RESEARCH

Integration of sequence-similarity and functional association information can overcome intrinsic problems in orthology mapping across bacterial genomes

(2011) Guojun Li et al.   NUCLEIC ACIDS RESEARCH

The sequence read archive: explosive growth of sequencing data

(2011) Y. Kodama et al.   NUCLEIC ACIDS RESEARCH

BigWig and BigBed: enabling browsing of large distributed datasets

(2010) W. J. Kent et al.   BIOINFORMATICS

ODB: a database for operon organizations, 2011 update

(2010) S. Okuda et al.   NUCLEIC ACIDS RESEARCH

A new framework for identifying cis-regulatory motifs in prokaryotes

(2010) Guojun Li et al.   NUCLEIC ACIDS RESEARCH

JBrowse: A next-generation genome browser

(2009) M. E. Skinner et al.   GENOME RESEARCH

The transcription unit architecture of the Escherichia coli genome

(2009) Byung-Kwan Cho et al.   NATURE BIOTECHNOLOGY

MEME SUITE: tools for motif discovery and searching

(2009) T. L. Bailey et al.   NUCLEIC ACIDS RESEARCH

DOOR: a database for prokaryotic operons

(2008) Fenglou Mao et al.   NUCLEIC ACIDS RESEARCH

OperonDB: a comprehensive database of predicted operons in microbial genomes

(2008) M. Pertea et al.   NUCLEIC ACIDS RESEARCH