Extracting transcription factor targets from ChIP-Seq data. - Wikidata - awgldk - TriplyDB

Extracting transcription factor targets from ChIP-Seq data.

Extracting transcription factor targets from ChIP-Seq data.

http://www.wikidata.org/entity/Q33474249

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Evaluation of algorithm performance in ChIP-seq peak detection Genome-wide location analysis reveals distinct transcriptional circuitry by paralogous regulators Foxa1 and Foxa2 GREAT improves functional interpretation of cis-regulatory regions JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles Evaluation of experimental design and computational parameter choices affecting analyses of ChIP-seq and RNA-seq data in undomesticated poplar trees Epigenomic plasticity enables human pancreatic α to β cell reprogramming.MaSC: mappability-sensitive cross-correlation for estimating mean fragment length of single-end short-read sequencing data Application of experimentally verified transcription factor binding sites models for computational analysis of ChIP-Seq data.A survey of motif finding Web tools for detecting binding site motifs in ChIP-Seq data.Adaptive bandwidth kernel density estimation for next-generation sequencing data.BIDCHIPS: bias decomposition and removal from ChIP-seq data clarifies true binding signal and its functional correlates.Sole-Search: an integrated analysis program for peak detection and functional annotation using ChIP-seq data.A blind deconvolution approach to high-resolution mapping of transcription factor binding sites from ChIP-seq data.ChIP-PaM: an algorithm to identify protein-DNA interaction using ChIP-Seq data Autoimmune kidney disease and impaired engulfment of apoptotic cells in mice with macrophage peroxisome proliferator-activated receptor gamma or retinoid X receptor alpha deficiency.Processing and analyzing ChIP-seq data: from short reads to regulatory interactions.Genome-wide analysis of histone modifications in human pancreatic islets.Next generation sequencing based approaches to epigenomics.PeakRanger: a cloud-enabled peak caller for ChIP-seq data.Systematic bias in high-throughput sequencing data and its correction by BEADS.Multiple functional polymorphisms in the G6PC2 gene contribute to the association with higher fasting plasma glucose levels.Discovering transcription factor binding sites in highly repetitive regions of genomes with multi-read analysis of ChIP-Seq data ZINBA integrates local covariates with DNA-seq data to identify broad and narrow regions of enrichment, even within amplified genomic regions.Computation for ChIP-seq and RNA-seq studies Study of FoxA pioneer factor at silent genes reveals Rfx-repressed enhancer at Cdx2 and a potential indicator of esophageal adenocarcinoma development A highly efficient and effective motif discovery method for ChIP-seq/ChIP-chip data using positional information.Foxa1 and Foxa2 maintain the metabolic and secretory features of the mature beta-cell Design and validation issues in RNA-seq experiments.Comprehensive genome-wide protein-DNA interactions detected at single-nucleotide resolution Pinpointing transcription factor binding sites from ChIP-seq data with SeqSite.Kinase-independent role of cyclin D1 in chromosomal instability and mammary tumorigenesis Tissue-specific regulation of mouse microRNA genes in endoderm-derived tissues Two novel type 2 diabetes loci revealed through integration of TCF7L2 DNA occupancy and SNP association data.Integrative genomic analysis of CREB defines a critical role for transcription factor networks in mediating the fed/fasted switch in liver.Islet-1 regulates Arx transcription during pancreatic islet alpha-cell development Searching for SNPs with cloud computing.Transcriptional regulation via TF-modifying enzymes: an integrative model-based analysis.TIP: a probabilistic method for identifying transcription factor target genes from ChIP-seq binding profiles.Histone deacetylase 3 is an epigenomic brake in macrophage alternative activation.Research resource: the pdx1 cistrome of pancreatic islets.

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P2860

Extracting transcription factor targets from ChIP-Seq data.

http://www.wikidata.org/entity/Q33474249

description

2009 nî lūn-bûn

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2009 թուականի Յունիսին հրատարակուած գիտական յօդուած

@hyw

2009 թվականի հունիսին 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

Extracting transcription factor targets from ChIP-Seq data.

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Extracting transcription factor targets from ChIP-Seq data.

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type

label

Extracting transcription factor targets from ChIP-Seq data.

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Extracting transcription factor targets from ChIP-Seq data.

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prefLabel

Extracting transcription factor targets from ChIP-Seq data.

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Extracting transcription factor targets from ChIP-Seq data.

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Extracting transcription factor targets from ChIP-Seq data.

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Geetu Tuteja

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Jonathan Schug

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Klaus H Kaestner

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Peter White

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P2860

Model-based analysis of ChIP-Seq (MACS)

Genome-wide analysis of transcription factor binding sites based on ChIP-Seq data

PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls

Genome-wide mapping of in vivo protein-DNA interactions

Integration of external signaling pathways with the core transcriptional network in embryonic stem cells

Genome-wide profiles of STAT1 DNA association using chromatin immunoprecipitation and massively parallel sequencing

FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology

Genome-wide identification of in vivo protein-DNA binding sites from ChIP-Seq data

Modeling ChIP sequencing in silico with applications

F-Seq: a feature density estimator for high-throughput sequence tags.

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10.1093/NAR/GKP536

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