Quantitative models of the mechanisms that control genome-wide patterns of transcription factor binding during early Drosophila development - Test2 - elhamkhani - TriplyDB

Quantitative models of the mechanisms that control genome-wide patterns of transcription factor binding during early Drosophila development

Quantitative models of the mechanisms that control genome-wide patterns of transcription factor binding during early Drosophila development

http://www.wikidata.org/entity/Q28477071

about

Extensive divergence of transcription factor binding in Drosophila embryos with highly conserved gene expression Zelda binding in the early Drosophila melanogaster embryo marks regions subsequently activated at the maternal-to-zygotic transition An integrated encyclopedia of DNA elements in the human genome Pioneer transcription factors: establishing competence for gene expression Disentangling the many layers of eukaryotic transcriptional regulation Computational identification of diverse mechanisms underlying transcription factor-DNA occupancy Interplay between chromatin state, regulator binding, and regulatory motifs in six human cell types Formaldehyde crosslinking: a tool for the study of chromatin complexes.Analysis of chromatin binding dynamics using the crosslinking kinetics (CLK) method.Learning protein-DNA interaction landscapes by integrating experimental data through computational models.Incorporating chromatin accessibility data into sequence-to-expression modeling Integrating motif, DNA accessibility and gene expression data to build regulatory maps in an organism Optimally choosing PWM motif databases and sequence scanning approaches based on ChIP-seq data Computational models for large-scale simulations of facilitated diffusion Modeling the zebrafish segmentation clock's gene regulatory network constrained by expression data suggests evolutionary transitions between oscillating and nonoscillating transcription The role of GATA2 in lethal prostate cancer aggressiveness.Nucleosome repositioning links DNA (de)methylation and differential CTCF binding during stem cell development.Absence of a simple code: how transcription factors read the genome The unconserved groucho central region is essential for viability and modulates target gene specificity.Accurate prediction of inducible transcription factor binding intensities in vivo.Rapid genome-scale mapping of chromatin accessibility in tissue Cooperativity and rapid evolution of cobound transcription factors in closely related mammals Controls of nucleosome positioning in the human genome.Global analysis of Drosophila Cys₂-His₂ zinc finger proteins reveals a multitude of novel recognition motifs and binding determinants.REACTIN: regulatory activity inference of transcription factors underlying human diseases with application to breast cancer.Estimating binding properties of transcription factors from genome-wide binding profiles.The influence of transcription factor competition on the relationship between occupancy and affinity Establishment of regions of genomic activity during the Drosophila maternal to zygotic transition Effects of downstream genes on synthetic genetic circuits.Understanding DNA-binding specificity by bacteria hybrid selection.Sequence-based model of gap gene regulatory network.The role of chromatin accessibility in directing the widespread, overlapping patterns of Drosophila transcription factor binding.TIP: a probabilistic method for identifying transcription factor target genes from ChIP-seq binding profiles.Common binding by redundant group B Sox proteins is evolutionarily conserved in Drosophila.Differential Nucleosome Occupancies across Oct4-Sox2 Binding Sites in Murine Embryonic Stem Cells.Contribution of Sequence Motif, Chromatin State, and DNA Structure Features to Predictive Models of Transcription Factor Binding in Yeast.The MOF-containing NSL complex associates globally with housekeeping genes, but activates only a defined subset Total Binding Affinity Profiles of Regulatory Regions Predict Transcription Factor Binding and Gene Expression in Human Cells Noncommutative Biology: Sequential Regulation of Complex Networks.Rewiring of posttranscriptional RNA regulons: Puf4p in fungi as an example.

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Quantitative models of the mechanisms that control genome-wide patterns of transcription factor binding during early Drosophila development

http://www.wikidata.org/entity/Q28477071

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2011 nî lūn-bûn

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2011 թուականի Փետրուարին հրատարակուած գիտական յօդուած

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2011 թվականի փետրվարին հրատարակված գիտական հոդված

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2011年の論文

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Quantitative models of the mec ...... g early Drosophila development

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JOURNAL.PGEN.1001290

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Quantitative models of the mec ...... g early Drosophila development

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Mark D Biggin

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Peter J Sabo

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Sean Thomas

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Xiao-Yong Li

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

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

Transcription factors bind thousands of active and inactive regions in the Drosophila blastoderm

Core transcriptional regulatory circuitry in human embryonic stem cells

Regulation of even-skipped stripe 2 in the Drosophila embryo

Computational prediction of transcription-factor binding site locations

A genomic code for nucleosome positioning

Computational detection of genomic cis-regulatory modules applied to body patterning in the early Drosophila embryo.

Transcriptional control in the segmentation gene network of Drosophila

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

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10.1371/JOURNAL.PGEN.1001290

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John A Stamatoyannopoulos

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49820968

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21304941

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