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

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AMD, an automated motif discovery tool using stepwise refinement of gapped consensuses is …
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scholarly articleQ13442814

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P819ADS bibcode2011PLoSO...624576S
P356DOI10.1371/JOURNAL.PONE.0024576
P932PMC publication ID3171486
P698PubMed publication ID21931761
P5875ResearchGate publication ID51655785

P50authorKankan WangQ92285271
P2093author name stringJi Zhang
Wentao Yang
Mingjie Chen
Jiantao Shi
Yanzhi Du
P2860cites workTrawler: de novo regulatory motif discovery pipeline for chromatin immunoprecipitation.Q51579438
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An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experimentsQ38287394
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.Q38301679
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Sequencing and comparison of yeast species to identify genes and regulatory elementsQ22122502
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FoxA1 translates epigenetic signatures into enhancer-driven lineage-specific transcriptionQ24645118
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Genome-wide analysis of estrogen receptor binding sitesQ29614765
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Interpreting patterns of gene expression with self-organizing maps: methods and application to hematopoietic differentiationQ29616072
A census of human transcription factors: function, expression and evolutionQ29622841
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Discovery of regulatory elements is improved by a discriminatory approachQ30884245
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A universal framework for regulatory element discovery across all genomes and data typesQ31134431
SPACER: identification of cis-regulatory elements with non-contiguous critical residuesQ33283275
Discriminative motif discovery in DNA and protein sequences using the DEME algorithmQ33302687
Discovering sequence motifs with arbitrary insertions and deletionsQ33330862
An integrated software system for analyzing ChIP-chip and ChIP-seq dataQ33382059
Identifying tissue-selective transcription factor binding sites in vertebrate promotersQ33817930
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P433issue9
P407language of work or nameEnglishQ1860
P304page(s)e24576
P577publication date2011-09-12
P1433published inPLOS OneQ564954
P1476titleAMD, an automated motif discovery tool using stepwise refinement of gapped consensuses
P478volume6

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cites work (P2860)
Q38077120Computational approaches, databases and tools for in silico motif discovery.
Q35986214Contrasting invertebrate immune defense behaviors caused by a single gene, the Caenorhabditis elegans neuropeptide receptor gene npr-1
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Q33994879Digital expression profiling of the compartmentalized translatome of Purkinje neurons
Q38534164Discriminative motif optimization based on perceptron training
Q40627472GATA transcription factor as a likely key regulator of the Caenorhabditis elegans innate immune response against gut pathogens
Q34582221Retinal transcriptome profiling at transcription start sites: a cap analysis of gene expression early after axonal injury.
Q93195737Sex chromosome evolution in parasitic nematodes of humans
Q61798137Shared cis-regulatory architecture identified across defense response genes is associated with broad-spectrum quantitative resistance in rice
Q36744733Structurally differentiated cis-elements that interact with PU.1 are functionally distinguishable in acute promyelocytic leukemia
Q38429142TSS-Seq analysis of low pH-induced gene expression in intercalated cells in the renal collecting duct
Q99707637The C. elegans GATA transcription factor elt-2 mediates distinct transcriptional responses and opposite infection outcomes towards different Bacillus thuringiensis strains
Q92800116The Inducible Response of the Nematode Caenorhabditis elegans to Members of Its Natural Microbiota Across Development and Adult Life

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