Results 11 to 20 of about 1,518,123 (337)
RSAT 2022: regulatory sequence analysis tools. [PDF]
Nucleic Acids Res, 2022 Abstract RSAT (Regulatory Sequence Analysis Tools) enables the detection and the analysis of cis-regulatory elements in genomic sequences. This software suite performs (i) de novo motif discovery (including from genome-wide datasets like ChIP-seq/ATAC-seq) (ii) genomic sequences scanning with known motifs, (iii) motif analysis (quality ...
Santana-Garcia W +12 more
europepmc +7 more sources
RSAT 2015: Regulatory Sequence Analysis Tools. [PDF]
Nucleic Acids Res, 2015 RSAT (Regulatory Sequence Analysis Tools) is a modular software suite for the analysis of cis-regulatory elements in genome sequences. Its main applications are (i) motif discovery, appropriate to genome-wide data sets like ChIP-seq, (ii) transcription factor binding motif analysis (quality assessment, comparisons and clustering), (iii) comparative ...
Medina-Rivera A +17 more
europepmc +7 more sources
Functional conservation of sequence determinants at rapidly evolving regulatory regions across mammals. [PDF]
PLoS Computational Biology, 2018 Recent advances in epigenomics have made it possible to map genome-wide regulatory regions using empirical methods. Subsequent comparative epigenomic studies have revealed that regulatory regions diverge rapidly between genome of different species, and ...
Iksoo Huh +3 more
doaj +1 more source
RSAT: regulatory sequence analysis tools [PDF]
Nucleic Acids Research, 2008 The regulatory sequence analysis tools (RSAT, http://rsat.ulb.ac.be/rsat/) is a software suite that integrates a wide collection of modular tools for the detection of cis-regulatory elements in genome sequences. The suite includes programs for sequence retrieval, pattern discovery, phylogenetic footprint detection, pattern matching, genome scanning and
Thomas-Chollier, M. +7 more
openaire +3 more sources
Genome Biology, 2021 Background Mammalian genomes contain millions of putative regulatory sequences, which are delineated by binding of multiple transcription factors. The degree to which spacing and orientation constraints among transcription factor binding sites contribute
Zain M. Patel, Timothy R. Hughes
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BMC Bioinformatics, 2020 Background Comparative genomics studies are growing in number partly because of their unique ability to provide insight into shared and divergent biology between species. Of particular interest is the use of phylogenetic methods to infer the evolutionary
Adam G. Diehl, Alan P. Boyle
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Journal of Lipid Research, 1998 Previously, we demonstrated that protein–DNA interactions at the drug response element (DRE) in the human apoA-I promoter were important for the induction of apoA-I gene expression by gemfibrozil.
William S. Mohan +6 more
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Sequencing the regulatory genome [PDF]
Genome Biology, 2008 A report on the Cold Spring Harbor Laboratory meeting 'Systems Biology: Global Regulation of Gene Expression', Cold Spring Harbor, USA, 27-30 March 2008.
Aerts, Stein, Butland, Stefanie
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Multigenome DNA sequence conservation identifies Hox cis-regulatory elements [PDF]
, 2008 To learn how well ungapped sequence comparisons of multiple species can predict cis-regulatory elements in Caenorhabditis elegans, we made such predictions across the large, complex ceh-13/lin-39 locus and tested them transgenically. We also examined how
De Buysscher, Tristan +7 more
core +3 more sources
Waiting for regulatory sequences to appear [PDF]
The Annals of Applied Probability, 2007 Published at http://dx.doi.org/10.1214/105051606000000619 in the Annals of Applied Probability (http://www.imstat.org/aap/) by the Institute of Mathematical Statistics (http://www.imstat.org)
Richard Durrett, Deena Schmidt
openalex +5 more sources