(Q33921389)

30 July 2017

A linear model for transcription factor binding affinity prediction in protein binding microarrays (English)

1 reference

30 July 2017

3

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author name string

Matti Annala

series ordinal

1

1 reference

30 July 2017

Kirsti Laurila

series ordinal

2

1 reference

30 July 2017

Matti Nykter

series ordinal

4

1 reference

30 July 2017

language of work or name

English

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publication date

26 May 2011

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30 July 2017

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30 July 2017

6

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30 July 2017

5

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30 July 2017

e20059

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Creative Commons Attribution 4.0 International

30 July 2017

start time

26 May 2011

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

High resolution models of transcription factor-DNA affinities improve in vitro and in vivo binding predictions

1 reference

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Variation in transcription factor binding among humans

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

A data integration framework for prediction of transcription factor targets

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Function of C/EBPdelta in a regulatory circuit that discriminates between transient and persistent TLR4-induced signals

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Universal protein-binding microarrays for the comprehensive characterization of the DNA-binding specificities of transcription factors

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Design of compact, universal DNA microarrays for protein binding microarray experiments

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Probabilistic inference of transcription factor binding from multiple data sources

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Genome-wide mapping of in vivo protein-DNA interactions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Quantifying similarity between motifs

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Design of a combinatorial DNA microarray for protein-DNA interaction studies

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Compact, universal DNA microarrays to comprehensively determine transcription-factor binding site specificities

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Statistical mechanical modeling of genome-wide transcription factor occupancy data by MatrixREDUCE.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

A genomic code for nucleosome positioning

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Extensive low-affinity transcriptional interactions in the yeast genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Integrated assessment and prediction of transcription factor binding

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

ETS transcription factors and their emerging roles in human cancer

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

DIP-chip: rapid and accurate determination of DNA-binding specificity.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Rapid analysis of the DNA-binding specificities of transcription factors with DNA microarrays.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Transcription factors as targets for cancer therapy

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

An algorithm for finding protein-DNA binding sites with applications to chromatin-immunoprecipitation microarray experiments

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Exploring the DNA-binding specificities of zinc fingers with DNA microarrays

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Genome-wide location and function of DNA binding proteins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

DNA binding sites: representation and discovery

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Mapping chromosomal proteins in vivo by formaldehyde-crosslinked-chromatin immunoprecipitation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Control of apoptosis by Rel/NF-kappaB transcription factors

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

TRANSFAC: an integrated system for gene expression regulation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Extracting regulatory sites from the upstream region of yeast genes by computational analysis of oligonucleotide frequencies.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Transcription factors: an overview

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Detecting subtle sequence signals: a Gibbs sampling strategy for multiple alignment

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Formaldehyde-mediated DNA-protein crosslinking: a probe for in vivo chromatin structures

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

The POU-specific domain of Pit-1 is essential for sequence-specific, high affinity DNA binding and DNA-dependent Pit-1-Pit-1 interactions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

Transcription factors: structural families and principles of DNA recognition

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3102690

RankMotif++: a motif-search algorithm that accounts for relative ranks of K-mers in binding transcription factors.

5 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0020059

Lessons from the DREAM2 Challenges

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0020059

A model for measurement error for gene expression arrays

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0020059

Correct transcription of an immunoglobulin κ gene requires an upstream fragment containing conserved sequence elements

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0020059

10.1371/JOURNAL.PONE.0020059

21 January 2018

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DOI

1 reference

30 July 2017

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1 reference

30 July 2017

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