YtrASa, a GntR-Family Transcription Factor, Represses Two Genetic Loci Encoding Membrane Proteins in Sulfolobus acidocaldarius

RSAT 2018: regulatory sequence analysis tools 20th anniversary

(2018) Nga Thi Thuy Nguyen et al.   NUCLEIC ACIDS RESEARCH

Abundance, diversity and domain architecture variability in prokaryotic DNA-binding transcription factors

(2018) Ernesto Perez-Rueda et al.   PLoS One

The genome-scale DNA-binding profile of BarR, a β-alanine responsive transcription factor in the archaeon Sulfolobus acidocaldarius

(2016) Han Liu et al.   BMC GENOMICS

Disruption of the gene encoding restriction endonuclease SuaI and development of a host–vector system for the thermoacidophilic archaeon Sulfolobus acidocaldarius

(2016) Shoji Suzuki et al.   EXTREMOPHILES

Deciphering the regulon of a GntR family regulator via transcriptome and ChIP-exo analyses and its contribution to virulence inXanthomonas citri

(2016) Xiaofeng Zhou et al.   MOLECULAR PLANT PATHOLOGY

Comparative transcriptomics across the prokaryotic tree of life

(2016) Ofir Cohen et al.   NUCLEIC ACIDS RESEARCH

Transcriptional regulators of GntR family in Streptomyces coelicolor A3(2): analysis in silico and in vivo of YtrA subfamily

(2015) O. Tsypik et al.   FOLIA MICROBIOLOGICA

GntR Family of Bacterial Transcription Factors and Their DNA Binding Motifs: Structure, Positioning and Co-Evolution

(2015) Inna A. Suvorova et al.   PLoS One

Cis-regulatory logic in archaeal transcription

(2013) Eveline Peeters et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

SyntTax: a web server linking synteny to prokaryotic taxonomy

(2013) Jacques Oberto   BMC BIOINFORMATICS

The genome-wide binding profile of the Sulfolobus solfataricus transcription factor Ss-LrpB shows binding events beyond direct transcription regulation

(2013) Trong Nguyen-Duc et al.   BMC GENOMICS

STAR: ultrafast universal RNA-seq aligner

(2012) Alexander Dobin et al.   BIOINFORMATICS

Graphical tools for macromolecular crystallography inPHENIX

(2012) Nathaniel Echols et al.   JOURNAL OF APPLIED CRYSTALLOGRAPHY

Global Analysis of the Regulon of the Transcriptional Repressor LexA, a Key Component of SOS Response inMycobacterium tuberculosis

(2012) Katherine L. Smollett et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Fast gapped-read alignment with Bowtie 2

(2012) Ben Langmead et al.   NATURE METHODS

Nanobody®-based chromatin immunoprecipitation/micro-array analysis for genome-wide identification of transcription factor DNA binding sites

(2012) Trong Nguyen-Duc et al.   NUCLEIC ACIDS RESEARCH

SLiCE: a novel bacterial cell extract-based DNA cloning method

(2012) Yongwei Zhang et al.   NUCLEIC ACIDS RESEARCH

Versatile Genetic Tool Box for the Crenarchaeote Sulfolobus acidocaldarius

(2012) Michaela Wagner et al.   Frontiers in Microbiology

REFMAC5 for the refinement of macromolecular crystal structures

(2011) Garib N. Murshudov et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome

(2011) Bo Li et al.   BMC BIOINFORMATICS

The Bacillus subtilis GntR Family Repressor YtrA Responds to Cell Wall Antibiotics

(2011) L. I. Salzberg et al.   JOURNAL OF BACTERIOLOGY

Identification and characterization of the Streptomyces globisporus 1912 regulatory gene lndYR that affects sporulation and antibiotic production

(2011) B. Ostash et al.   MICROBIOLOGY-SGM

The UCSC Archaeal Genome Browser: 2012 update

(2011) P. P. Chan et al.   NUCLEIC ACIDS RESEARCH

Identification and Genomic Analysis of Transcription Factors in Archaeal Genomes Exemplifies Their Functional Architecture and Evolutionary Origin

(2010) E. Perez-Rueda et al.   MOLECULAR BIOLOGY AND EVOLUTION

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

edgeR: a Bioconductor package for differential expression analysis of digital gene expression data

(2009) M. D. Robinson et al.   BIOINFORMATICS

Structural basis for the binding of naproxen to human serum albumin in the presence of fatty acids and the GA module

(2008) Sara Lejon et al.   Acta Crystallographica Section F-Structural Biology and Crystallization Communications

Energy-based prediction of amino acid-nucleotide base recognition

(2008) Anna Marabotti et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY