Distinguishing direct versus indirect transcription factor-DNA interactions. - Wikidata - awgldk - TriplyDB

Distinguishing direct versus indirect transcription factor-DNA interactions.

Distinguishing direct versus indirect transcription factor-DNA interactions.

http://www.wikidata.org/entity/Q27939876

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Fkh1 and Fkh2 bind multiple chromosomal elements in the S. cerevisiae genome with distinct specificities and cell cycle dynamics Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data ScerTF: a comprehensive database of benchmarked position weight matrices for Saccharomyces species YeTFaSCo: a database of evaluated yeast transcription factor sequence specificities Genomic regions flanking E-box binding sites influence DNA binding specificity of bHLH transcription factors through DNA shape Dry and wet approaches for genome-wide functional annotation of conventional and unconventional transcriptional activators Disentangling the many layers of eukaryotic transcriptional regulation Computational identification of diverse mechanisms underlying transcription factor-DNA occupancy The zinc cluster transcription factor Ahr1p directs Mcm1p regulation of Candida albicans adhesion MuMoD: a Bayesian approach to detect multiple modes of protein-DNA binding from genome-wide ChIP data Bayesian hierarchical model of protein-binding microarray k-mer data reduces noise and identifies transcription factor subclasses and preferred k-mers Mapping functional transcription factor networks from gene expression data.Improving analysis of transcription factor binding sites within ChIP-Seq data based on topological motif enrichment Learning protein-DNA interaction landscapes by integrating experimental data through computational models.Mapping Mammalian Cell-type-specific Transcriptional Regulatory Networks Using KD-CAGE and ChIP-seq Data in the TC-YIK Cell Line.Prediction and validation of protein-protein interactors from genome-wide DNA-binding data using a knowledge-based machine-learning approach Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data.A data integration approach to mapping OCT4 gene regulatory networks operative in embryonic stem cells and embryonal carcinoma cells.ChIP on Chip: surprising results are often artifacts.Robust target gene discovery through transcriptome perturbations and genome-wide enhancer predictions in Drosophila uncovers a regulatory basis for sensory specification.Predicting direct protein interactions from affinity purification mass spectrometry data.Computational study of associations between histone modification and protein-DNA binding in yeast genome by integrating diverse information.Two distinct promoter architectures centered on dynamic nucleosomes control ribosomal protein gene transcription Characterizing a collective and dynamic component of chromatin immunoprecipitation enrichment profiles in yeast Nucleosome repositioning links DNA (de)methylation and differential CTCF binding during stem cell development.Curated collection of yeast transcription factor DNA binding specificity data reveals novel structural and gene regulatory insights.Accurate prediction of inducible transcription factor binding intensities in vivo.Is transcription factor binding site turnover a sufficient explanation for cis-regulatory sequence divergence?Explicit DNase sequence bias modeling enables high-resolution transcription factor footprint detection.Spatial promoter recognition signatures may enhance transcription factor specificity in yeast.Binding of nucleoid-associated protein fis to DNA is regulated by DNA breathing dynamics.Pax6 interactions with chromatin and identification of its novel direct target genes in lens and forebrain Fission yeast CSL proteins function as transcription factors Experimental strategies for studying transcription factor-DNA binding specificities.Nucleosome free regions in yeast promoters result from competitive binding of transcription factors that interact with chromatin modifiers.Determination and inference of eukaryotic transcription factor sequence specificity.Loregic: a method to characterize the cooperative logic of regulatory factors Transcriptional regulation in Saccharomyces cerevisiae: transcription factor regulation and function, mechanisms of initiation, and roles of activators and coactivators.Extensive characterization of NF-κB binding uncovers non-canonical motifs and advances the interpretation of genetic functional traits.The orchestration of mammalian tissue morphogenesis through a series of coherent feed-forward loops.

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P2860

Distinguishing direct versus indirect transcription factor-DNA interactions.

http://www.wikidata.org/entity/Q27939876

description

2009 nî lūn-bûn

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2009 թուականի Նոյեմբերին հրատարակուած գիտական յօդուած

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2009 թվականի նոյեմբերին հրատարակված գիտական հոդված

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2009年の論文

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2009年論文

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2009年論文

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2009年論文

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2009年論文

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2009年論文

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2009年论文

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name

Distinguishing direct versus indirect transcription factor-DNA interactions.

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Distinguishing direct versus indirect transcription factor-DNA interactions.

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Distinguishing direct versus indirect transcription factor-DNA interactions.

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Distinguishing direct versus indirect transcription factor-DNA interactions.

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Distinguishing direct versus indirect transcription factor-DNA interactions.

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Distinguishing direct versus indirect transcription factor-DNA interactions.

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Distinguishing direct versus indirect transcription factor-DNA interactions.

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Distinguishing direct versus indirect transcription factor-DNA interactions.

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Distinguishing direct versus indirect transcription factor-DNA interactions.

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Genome Research

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Distinguishing direct versus indirect transcription factor-DNA interactions.

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Alexander J Hartemink

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Martha L Bulyk

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Raluca Gordân

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P2860

Dynamic remodeling of individual nucleosomes across a eukaryotic genome in response to transcriptional perturbation

A multiparameter network reveals extensive divergence between C. elegans bHLH transcription factors

Explicit equilibrium modeling of transcription-factor binding and gene regulation.

Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression.

A role for the transcription factors Mbp1 and Swi4 in progression from G1 to S phase.

Regulation of mating and filamentation genes by two distinct Ste12 complexes in Saccharomyces cerevisiae

Sum1 and Ndt80 proteins compete for binding to middle sporulation element sequences that control meiotic gene expression.

Potential interface between ribosomal protein production and pre-rRNA processing.

Sfp1 plays a key role in yeast ribosome biogenesis.

A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters

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419920

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10.1101/GR.094144.109

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11

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2009-11-01T00:00:00Z

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26714295

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19652015

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