AMD, an automated motif discovery tool using stepwise refinement of gapped consensuses (Q34023705)

30 July 2017

AMD, an automated motif discovery tool using stepwise refinement of gapped consensuses (English)

1 reference

30 July 2017

6

Kankan Wang

1 reference

30 July 2017

Jiantao Shi

1

1 reference

30 July 2017

Wentao Yang

2

1 reference

30 July 2017

Mingjie Chen

3

1 reference

30 July 2017

Yanzhi Du

4

1 reference

30 July 2017

Ji Zhang

5

1 reference

30 July 2017

language of work or name

English

0 references

publication date

12 September 2011

1 reference

30 July 2017

1 reference

30 July 2017

6

1 reference

30 July 2017

9

1 reference

30 July 2017

e24576

1 reference

Creative Commons Attribution 4.0 International

30 July 2017

start time

12 September 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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A census of human transcription factors: function, expression and evolution

5 July 2018

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Transcriptomic profiling identifies a PU.1 regulatory network in macrophages

5 July 2018

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An integrated software system for analyzing ChIP-chip and ChIP-seq data

5 July 2018

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A genome-scale analysis of the cis-regulatory circuitry underlying sonic hedgehog-mediated patterning of the mammalian limb

5 July 2018

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Model-based analysis of ChIP-Seq (MACS)

5 July 2018

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Connecting microRNA genes to the core transcriptional regulatory circuitry of embryonic stem cells

5 July 2018

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Discovering sequence motifs with arbitrary insertions and deletions

5 July 2018

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Transcription factor and microRNA motif discovery: the Amadeus platform and a compendium of metazoan target sets

5 July 2018

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FoxA1 translates epigenetic signatures into enhancer-driven lineage-specific transcription

5 July 2018

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Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures

5 July 2018

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A universal framework for regulatory element discovery across all genomes and data types

5 July 2018

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Discriminative motif discovery in DNA and protein sequences using the DEME algorithm

5 July 2018

1 reference

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Genome-wide mapping of in vivo protein-DNA interactions

5 July 2018

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High-resolution profiling of histone methylations in the human genome

5 July 2018

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SPACER: identification of cis-regulatory elements with non-contiguous critical residues

5 July 2018

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Systematic discovery of regulatory motifs in conserved regions of the human genome, including thousands of CTCF insulator sites

5 July 2018

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Genome-wide analysis of estrogen receptor binding sites

5 July 2018

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Computational identification of transcriptional regulatory elements in DNA sequence

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

MEME: discovering and analyzing DNA and protein sequence motifs

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Close sequence comparisons are sufficient to identify human cis-regulatory elements.

5 July 2018

1 reference

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An improved map of conserved regulatory sites for Saccharomyces cerevisiae

5 July 2018

1 reference

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Mining ChIP-chip data for transcription factor and cofactor binding sites

5 July 2018

1 reference

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Systematic discovery of regulatory motifs in human promoters and 3' UTRs by comparison of several mammals

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Identifying tissue-selective transcription factor binding sites in vertebrate promoters

5 July 2018

1 reference

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Assessing computational tools for the discovery of transcription factor binding sites

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Bipartite pattern discovery by entropy minimization-based multiple local alignment.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Transcriptional regulatory code of a eukaryotic genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Weeder Web: discovery of transcription factor binding sites in a set of sequences from co-regulated genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

YMF: A program for discovery of novel transcription factor binding sites by statistical overrepresentation

5 July 2018

1 reference

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Sequencing and comparison of yeast species to identify genes and regulatory elements

5 July 2018

1 reference

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TRANSFAC: transcriptional regulation, from patterns to profiles

5 July 2018

1 reference

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An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Regulatory element detection using correlation with expression.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Combinatorial approaches to finding subtle signals in DNA sequences.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Computational identification of cis-regulatory elements associated with groups of functionally related genes in Saccharomyces cerevisiae

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Finding DNA regulatory motifs within unaligned noncoding sequences clustered by whole-genome mRNA quantitation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

The Spi-1/PU.1 and Spi-B ets family transcription factors and the recombination signal binding protein RBP-J kappa interact with an Epstein-Barr virus nuclear antigen 2 responsive cis-element.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3171486

Trawler: de novo regulatory motif discovery pipeline for chromatin immunoprecipitation.

5 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0024576

Detection of generic spaced motifs using submotif pattern mining.

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0024576

10.1371/JOURNAL.PONE.0024576

21 January 2018

Identifiers

DOI

1 reference

30 July 2017

0 references

1 reference

30 July 2017

1 reference