(Q34590894)

3 August 2017

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title

Eukaryotic transcription factor binding sites--modeling and integrative search methods (English)

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3 August 2017

Sridhar Hannenhalli

1

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3 August 2017

language of work or name

English

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publication date

21 April 2008

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3 August 2017

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3 August 2017

volume

24

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3 August 2017

issue

11

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3 August 2017

page(s)

1325-1331

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Reconstruction of DNA sequencing by hybridization

3 August 2017

cites work

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Identifying cooperativity among transcription factors controlling the cell cycle in yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Predicting gene expression from sequence

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Additivity in protein-DNA interactions: how good an approximation is it?

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Phylogenetic shadowing of primate sequences to find functional regions of the human genome

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Modeling DNA sequence-based cis-regulatory gene networks

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Nucleotides of transcription factor binding sites exert interdependent effects on the binding affinities of transcription factors

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Clustering of genes into regulons using integrated modeling-COGRIM.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Interacting models of cooperative gene regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Evolution of transcription factor binding sites in Mammalian gene regulatory regions: conservation and turnover

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Frequent gain and loss of functional transcription factor binding sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Distinguishing regulatory DNA from neutral sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Locating mammalian transcription factor binding sites: a survey of computational and experimental techniques

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Conservation of regulatory elements between two species of Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Dense subgraph computation via stochastic search: application to detect transcriptional modules.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Predicting methylation status of CpG islands in the human brain.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Discovery and modeling of transcriptional regulatory regions

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Context-specific independence mixture modeling for positional weight matrices

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

De novo cis-regulatory module elicitation for eukaryotic genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Predicting transcription factor synergism

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Transcriptional regulation of protein complexes and biological pathways

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Enhanced position weight matrices using mixture models

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Computational discovery of cis-regulatory modules in Drosophila without prior knowledge of motifs

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

OSCAR: one-class SVM for accurate recognition of cis-elements.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Regulation of RNA polymerase II transcription by sequence-specific DNA binding factors

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

TRANSCompel: a database on composite regulatory elements in eukaryotic genes.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Reliable prediction of regulator targets using 12 Drosophila genomes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Assessment of composite motif discovery methods

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Non-independence of Mnt repressor-operator interaction determined by a new quantitative multiple fluorescence relative affinity (QuMFRA) assay.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

A nucleosome-guided map of transcription factor binding sites in yeast

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Beyond IkappaBs: alternative regulation of NF-kappaB activity

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

A cascade of transcriptional control leading to axis determination in Drosophila

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Predicting the in vivo signature of human gene regulatory sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Megabase deletions of gene deserts result in viable mice

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Comparative analysis of methods for representing and searching for transcription factor binding sites.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Identifying regulatory networks by combinatorial analysis of promoter elements

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Whole-genome discovery of transcription factor binding sites by network-level conservation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

MatInd and MatInspector: new fast and versatile tools for detection of consensus matches in nucleotide sequence data

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

SCORE: a computational approach to the identification of cis-regulatory modules and target genes in whole-genome sequence data. Site clustering over random expectation.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

REDUCE: An online tool for inferring cis-regulatory elements and transcriptional module activities from microarray data

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

JASPAR: an open-access database for eukaryotic transcription factor binding profiles

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Constrained binding site diversity within families of transcription factors enhances pattern discovery bioinformatics

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Improved benchmarks for computational motif discovery

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

A genomic code for nucleosome positioning

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Genome-wide discovery of transcriptional modules from DNA sequence and gene expression.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

TREMOR--a tool for retrieving transcriptional modules by incorporating motif covariance.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

A probabilistic method to detect regulatory modules.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

DNA binding sites: representation and discovery

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Embryonic epsilon and gamma globin genes of a prosimian primate (Galago crassicaudatus). Nucleotide and amino acid sequences, developmental regulation and phylogenetic footprints.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

A global view of the selection forces in the evolution of yeast cis-regulation

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Decoding human regulatory circuits

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Assessing computational tools for the discovery of transcription factor binding sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Identification of regulatory regions which confer muscle-specific gene expression.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Applied bioinformatics for the identification of regulatory elements

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

Combining biological networks to predict genetic interactions

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

The evolutionary significance of cis-regulatory mutations

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

CisModule: de novo discovery of cis-regulatory modules by hierarchical mixture modeling

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FBIOINFORMATICS%2FBTN198

10.1093/BIOINFORMATICS/BTN198

21 January 2018

Identifiers

DOI

1 reference

journals/bioinformatics/Hannenhalli08

3 August 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference