Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data - Wikidata - thesis-toulmin - TriplyDB

Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data

Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data

http://www.wikidata.org/entity/Q24614616

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A user's guide to the encyclopedia of DNA elements (ENCODE)Current bioinformatic approaches to identify DNase I hypersensitive sites and genomic footprints from DNase-seq data DNA methylation patterns associate with genetic and gene expression variation in HapMap cell lines An integrated encyclopedia of DNA elements in the human genome Epigenetic priors for identifying active transcription factor binding sites Pioneer transcription factors: establishing competence for gene expression Regulatory network inferred using expression data of small sample size: application and validation in erythroid system Next-generation sequencing: a powerful tool for the discovery of molecular markers in breast ductal carcinoma in situ Identifying novel transcriptional components controlling energy metabolism Using protein-binding microarrays to study transcription factor specificity: homologs, isoforms and complexes Protein-DNA binding in high-resolution New loci associated with chronic hepatitis B virus infection in Han Chinese Methylome-wide Association Study of Atrial Fibrillation in Framingham Heart Study Computational identification of diverse mechanisms underlying transcription factor-DNA occupancy Cistrome plasticity and mechanisms of cistrome reprogramming POWRS: position-sensitive motif discovery Annotation of functional variation in personal genomes using RegulomeDB Genome-wide predictors of NF-κB recruitment and transcriptional activity TranscriptomeBrowser 3.0: introducing a new compendium of molecular interactions and a new visualization tool for the study of gene regulatory networks.MotifLab: a tools and data integration workbench for motif discovery and regulatory sequence analysis.Linking proteomic and transcriptional data through the interactome and epigenome reveals a map of oncogene-induced signaling.Using DNase digestion data to accurately identify transcription factor binding sites Global Mapping of Transcription Factor Binding Sites by Sequencing Chromatin Surrogates: a Perspective on Experimental Design, Data Analysis, and Open Problems Wellington: a novel method for the accurate identification of digital genomic footprints from DNase-seq data.Learning protein-DNA interaction landscapes by integrating experimental data through computational models.Improved nucleosome-positioning algorithm iNPS for accurate nucleosome positioning from sequencing data.Incorporating chromatin accessibility data into sequence-to-expression modeling Integrating motif, DNA accessibility and gene expression data to build regulatory maps in an organism Identification of active transcriptional regulatory elements from GRO-seq data.Inferring dynamic gene regulatory networks in cardiac differentiation through the integration of multi-dimensional data.Optimally choosing PWM motif databases and sequence scanning approaches based on ChIP-seq data BinDNase: a discriminatory approach for transcription factor binding prediction using DNase I hypersensitivity data.Romulus: robust multi-state identification of transcription factor binding sites from DNase-seq data.Combining transcription factor binding affinities with open-chromatin data for accurate gene expression prediction A review on machine learning principles for multi-view biological data integration.Role of the chromatin landscape and sequence in determining cell type-specific genomic glucocorticoid receptor binding and gene regulation.Predicting transcription factor binding motifs from DNA-binding domains, chromatin accessibility and gene expression data.Variants in exons and in transcription factors affect gene expression in trans.Nucleosome organization in the vicinity of transcription factor binding sites in the human genome.Modeling gene regulation from paired expression and chromatin accessibility data

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Accurate inference of transcription factor binding from DNA sequence and chromatin accessibility data

http://www.wikidata.org/entity/Q24614616

description

2011 nî lūn-bûn

@nan

2011 թուականի Մարտին հրատարակուած գիտական յօդուած

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2011 թվականի մարտին հրատարակված գիտական հոդված

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2011年の論文

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2011年論文

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2011年論文

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2011年論文

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2011年論文

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2011年論文

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2011年论文

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name

Accurate inference of transcri ...... d chromatin accessibility data

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Accurate inference of transcri ...... d chromatin accessibility data

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Accurate inference of transcri ...... d chromatin accessibility data

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type

label

Accurate inference of transcri ...... d chromatin accessibility data

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Accurate inference of transcri ...... d chromatin accessibility data

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Accurate inference of transcri ...... d chromatin accessibility data

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prefLabel

Accurate inference of transcri ...... d chromatin accessibility data

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Accurate inference of transcri ...... d chromatin accessibility data

@en

Accurate inference of transcri ...... d chromatin accessibility data

@nl

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Genome Research

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Accurate inference of transcri ...... d chromatin accessibility data

@en

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Athma A Pai

http://www.w3.org/2001/XMLSchema#string

Jacob F Degner

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Jonathan K Pritchard

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P2860

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

The insulator binding protein CTCF positions 20 nucleosomes around its binding sites across the human genome

Model-based analysis of ChIP-Seq (MACS)

Trait-associated SNPs are more likely to be eQTLs: annotation to enhance discovery from GWAS

TRANSFAC: a database on transcription factors and their DNA binding sites

A gene atlas of the mouse and human protein-encoding transcriptomes

Unbiased reconstruction of a mammalian transcriptional network mediating pathogen responses

DNAse footprinting: a simple method for the detection of protein-DNA binding specificity

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

Fast and systematic genome-wide discovery of conserved regulatory elements using a non-alignment based approach

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447-55

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scholarly article

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170154

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10.1101/GR.112623.110

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3

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21

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Roger Pique-Regi

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2011-03-01T00:00:00Z

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49635134

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21106904

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3044858

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