Alignment and prediction of cis-regulatory modules based on a probabilistic model of evolution (Q33419102)

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English	Alignment and prediction of cis-regulatory modules based on a probabilistic model of evolution	scientific article

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scholarly article

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Europe PubMed Central

PubMed publication ID

26 July 2017

Alignment and prediction of cis-regulatory modules based on a probabilistic model of evolution (English)

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Europe PubMed Central

PubMed publication ID

26 July 2017

probabilistic modeling

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3

object named as

Saurabh Sinha

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Europe PubMed Central

PubMed publication ID

26 July 2017

1

object named as

Xin He

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

2

object named as

Xu Ling

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Europe PubMed Central

PubMed publication ID

26 July 2017

language of work or name

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inferred from title

publication date

13 March 2009

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Europe PubMed Central

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26 July 2017

PLOS Computational Biology

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Europe PubMed Central

PubMed publication ID

26 July 2017

5

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

3

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

e1000299

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Europe PubMed Central

PubMed publication ID

26 July 2017

copyright license

Creative Commons Attribution 4.0 International

13 March 2009

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April 2022 Public Data File from Crossref

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CSMET: comparative genomic motif detection via multi-resolution phylogenetic shadowing

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A systematic characterization of factors that regulate Drosophila segmentation via a bacterial one-hybrid system

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Systematic identification of mammalian regulatory motifs' target genes and functions

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

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21 June 2018

Alignment uncertainty and genomic analysis

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21 June 2018

Evolution and selection in yeast promoters: analyzing the combined effect of diverse transcription factor binding sites

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21 June 2018

The UCSC Genome Browser Database: 2008 update

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MORPH: probabilistic alignment combined with hidden Markov models of cis-regulatory modules

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Phylogenetic simulation of promoter evolution: estimation and modeling of binding site turnover events and assessment of their impact on alignment tools

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The evolutionary significance of cis-regulatory mutations

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21 June 2018

Large-scale turnover of functional transcription factor binding sites in Drosophila

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Detecting the limits of regulatory element conservation and divergence estimation using pairwise and multiple alignments

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Parametric alignment of Drosophila genomes

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Ubiquitous selective constraints in the Drosophila genome revealed by a genome-wide interspecies comparison

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PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny

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Genome-wide prediction of mammalian enhancers based on analysis of transcription-factor binding affinity

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Genome-wide identification of human functional DNA using a neutral indel model

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Evolutionary population genetics of promoters: predicting binding sites and functional phylogenies.

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Sampling motifs on phylogenetic trees

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Bayesian coestimation of phylogeny and sequence alignment

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MONKEY: identifying conserved transcription-factor binding sites in multiple alignments using a binding site-specific evolutionary model

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Drosophila DNase I footprint database: a systematic genome annotation of transcription factor binding sites in the fruitfly, Drosophila melanogaster.

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Adaptive evolution of transcription factor binding sites

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Computational identification of developmental enhancers: conservation and function of transcription factor binding-site clusters in Drosophila melanogaster and Drosophila pseudoobscura

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MCALIGN: stochastic alignment of noncoding DNA sequences based on an evolutionary model of sequence evolution

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21 June 2018

CONREAL: conserved regulatory elements anchored alignment algorithm for identification of transcription factor binding sites by phylogenetic footprinting

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Position specific variation in the rate of evolution in transcription factor binding sites

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21 June 2018

Cluster-Buster: Finding dense clusters of motifs in DNA sequences.

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The evolution of transcriptional regulation in eukaryotes

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Homotypic regulatory clusters in Drosophila.

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Simultaneous alignment and annotation of cis-regulatory regions

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Going the distance: a current view of enhancer action

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based on heuristic

inferred from PubMed ID database lookup

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10.1371/JOURNAL.PCBI.1000299

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Europe PubMed Central

PubMed publication ID

26 July 2017

DBLP publication ID

journals/ploscb/HeLS09

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DBLP Dataset 2021-01-02

28 January 2021

PMC publication ID

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

PubMed publication ID

1 reference

Europe PubMed Central

PubMed publication ID

26 July 2017

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