Accurate recognition of cis-regulatory motifs with the correct lengths in prokaryotic genomes (Q30492890)

17 October 2017

Accurate recognition of cis-regulatory motifs with the correct lengths in prokaryotic genomes (English)

1 reference

17 October 2017

Guojun Li

1

1 reference

17 October 2017

Bingqiang Liu

series ordinal

2

1 reference

17 October 2017

Ying Xu

series ordinal

3

1 reference

17 October 2017

language of work or name

English

0 references

publication date

11 November 2009

1 reference

17 October 2017

Nucleic Acids Research

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17 October 2017

38

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17 October 2017

2

1 reference

17 October 2017

e12

1 reference

Genome-wide de novo prediction of cis-regulatory binding sites in prokaryotes.

17 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Efficient representation and P-value computation for high-order Markov motifs

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

W-AlignACE: an improved Gibbs sampling algorithm based on more accurate position weight matrices learned from sequence and gene expression/ChIP-chip data

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

RegulonDB (version 6.0): gene regulation model of Escherichia coli K-12 beyond transcription, active (experimental) annotated promoters and Textpresso navigation.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Computational identification of transcriptional regulatory elements in DNA sequence

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Assessing computational tools for the discovery of transcription factor binding sites

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

EcoCyc: a comprehensive database resource for Escherichia coli

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

PRODORIC: prokaryotic database of gene regulation.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Combinatorial approaches to finding subtle signals in DNA sequences.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

DNA binding sites: representation and discovery

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Identifying DNA and protein patterns with statistically significant alignments of multiple sequences

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Combining evidence using p-values: application to sequence homology searches

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Gibbs motif sampling: detection of bacterial outer membrane protein repeats

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Identifying protein-binding sites from unaligned DNA fragments

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Methods for calculating the probabilities of finding patterns in sequences

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

An expectation maximization (EM) algorithm for the identification and characterization of common sites in unaligned biopolymer sequences.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Structure-based prediction of transcription factor binding sites using a protein-DNA docking approach.

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Supervised detection of conserved motifs in DNA sequences with cosmo

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Computing exact P-values for DNA motifs

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

Computing the P-value of the information content from an alignment of multiple sequences

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

A Gibbs sampling method to detect overrepresented motifs in the upstream regions of coexpressed genes.

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2811016

26 November 2018

Identifiers

DOI

10.1093/NAR/GKP907

1 reference

release_5vfpdzslhvd4tenvf4ppuub3eu

17 October 2017

1 reference

Fatcat

https://api.fatcat.wiki/v0/release/5vfpdzslhvd4tenvf4ppuub3eu

mapped directly with Wikidata item

24 November 2022

based on heuristic

1 reference

17 October 2017

PubMed publication ID

19906734

1 reference