(Q33546360)

27 July 2017

Dinucleotide weight matrices for predicting transcription factor binding sites: generalizing the position weight matrix (English)

1 reference

27 July 2017

Rahul Siddharthan

1

1 reference

PubMed ID

20339533

27 July 2017

language of work or name

English

0 references

publication date

22 March 2010

1 reference

27 July 2017

1 reference

27 July 2017

5

1 reference

27 July 2017

e9722

1 reference

27 July 2017

3

1 reference

Creative Commons Attribution 4.0 International

27 July 2017

start time

22 March 2010

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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A feature-based approach to modeling protein-DNA interactions

21 June 2018

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

21 June 2018

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

21 June 2018

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REDfly 2.0: an integrated database of cis-regulatory modules and transcription factor binding sites in Drosophila

21 June 2018

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Nearest-neighbor non-additivity versus long-range non-additivity in TATA-box structure and its implications for TBP-binding mechanism

21 June 2018

1 reference

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A systems approach to measuring the binding energy landscapes of transcription factors

21 June 2018

1 reference

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A genomic code for nucleosome positioning

21 June 2018

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Stubb: a program for discovery and analysis of cis-regulatory modules

21 June 2018

1 reference

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An improved map of conserved regulatory sites for Saccharomyces cerevisiae

21 June 2018

1 reference

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PhyloGibbs: a Gibbs sampling motif finder that incorporates phylogeny

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

Transcriptional regulatory code of a eukaryotic genome

21 June 2018

1 reference

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WebLogo: A Sequence Logo Generator

21 June 2018

1 reference

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A biophysical approach to transcription factor binding site discovery

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

A non-parametric model for transcription factor binding sites

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

Probabilistic clustering of sequences: inferring new bacterial regulons by comparative genomics

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

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

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

A role for the transcription factors Mbp1 and Swi4 in progression from G1 to S phase.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

Selection of DNA binding sites by regulatory proteins. Statistical-mechanical theory and application to operators and promoters.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

Identifying protein-binding sites from unaligned DNA fragments

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

Identification of consensus patterns in unaligned DNA sequences known to be functionally related.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

ACE2, an activator of yeast metallothionein expression which is homologous to SWI5.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

Long-range correlations in nucleotide sequences

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

Use of an evolutionary model to provide evidence for a wide heterogeneity of required affinities between transcription factors and their binding sites in yeast.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

Non-additivity in protein-DNA binding.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

Modeling within-motif dependence for transcription factor binding site predictions.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

SCPD: a promoter database of the yeast Saccharomyces cerevisiae.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2842295

10.1371/JOURNAL.PONE.0009722

31 October 2018

Identifiers

DOI

1 reference

27 July 2017

0 references

1 reference

27 July 2017

1 reference

PubMed ID

20339533