PhyloScan: identification of transcription factor binding sites using cross-species evidence (Q21203111)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17244358%20AND%20SRC:MED&resulttype=core&format=json

24 December 2019

title

PhyloScan: identification of transcription factor binding sites using cross-species evidence (English)

1 reference

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24 December 2019

0 references

0 references

2

Lee Ann McCue

Lee Ann

McCue

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17244358%20AND%20SRC:MED&resulttype=core&format=json

24 December 2019

C Steven Carmack

1

C Steven

Carmack

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17244358%20AND%20SRC:MED&resulttype=core&format=json

24 December 2019

Lee A Newberg

series ordinal

3

author given names

Lee A

author last names

Newberg

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17244358%20AND%20SRC:MED&resulttype=core&format=json

24 December 2019

Charles E Lawrence

series ordinal

4

author given names

Charles E

author last names

Lawrence

1 reference

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24 December 2019

language of work or name

English

0 references

publication date

23 January 2007

1 reference

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Algorithms for Molecular Biology

24 December 2019

published in

1 reference

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24 December 2019

volume

2

1 reference

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24 December 2019

issue

1

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page(s)

1

1 reference

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

24 December 2019

cites work

1 reference

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19 March 2017

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19 March 2017

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19 March 2017

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19 March 2017

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19 March 2017

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19 March 2017

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19 March 2017

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A comprehensive library of DNA-binding site matrices for 55 proteins applied to the complete Escherichia coli K-12 genome

19 March 2017

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19 March 2017

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19 March 2017

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

7 April 2017

1 reference

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Automatic clustering of orthologs and in-paralogs from pairwise species comparisons

7 April 2017

1 reference

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Information content of binding sites on nucleotide sequences

7 April 2017

1 reference

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Factors influencing the identification of transcription factor binding sites by cross-species comparison.

7 April 2017

1 reference

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Statistical significance of clusters of motifs represented by position specific scoring matrices in nucleotide sequences

12 September 2017

1 reference

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The evolution of DNA regulatory regions for proteo-gamma bacteria by interspecies comparisons

12 September 2017

1 reference

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Comparative analysis of FUR regulons in gamma-proteobacteria

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1794230

Computational analysis of the transcriptional regulation of pentose utilization systems in the gamma subdivision of Proteobacteria

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1794230

Phylogenetic footprinting of transcription factor binding sites in proteobacterial genomes

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1794230

Computer analysis of transcription regulatory patterns in completely sequenced bacterial genomes

12 September 2017

1 reference

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Methods and statistics for combining motif match scores

12 September 2017

1 reference

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MATRIX SEARCH 1.0: a computer program that scans DNA sequences for transcriptional elements using a database of weight matrices.

12 September 2017

1 reference

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Gibbs motif sampling: detection of bacterial outer membrane protein repeats

12 September 2017

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Methods for calculating the probabilities of finding patterns in sequences

12 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1794230

PredictRegulon: a web server for the prediction of the regulatory protein binding sites and operons in prokaryote genomes.

12 September 2017

1 reference

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RegulonDB (version 4.0): transcriptional regulation, operon organization and growth conditions in Escherichia coli K-12

27 September 2017

1 reference

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Gibbs Recursive Sampler: finding transcription factor binding sites

27 September 2017

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Conservation of the biotin regulon and the BirA regulatory signal in Eubacteria and Archaea.

27 September 2017

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Multiple PU.1 sites cooperate in the regulation of p40(phox) transcription during granulocytic differentiation of myeloid cells

27 September 2017

1 reference

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Regulation of aromatic amino acid biosynthesis in gamma-proteobacteria.

27 September 2017

1 reference

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Comparative approach to analysis of regulation in complete genomes: multidrug resistance systems in gamma-proteobacteria.

27 September 2017

1 reference

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Transcriptional regulation of transport and utilization systems for hexuronides, hexuronates and hexonates in gamma purple bacteria

27 September 2017

1 reference

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Mammalian genomes ease location of human DNA functional segments but not their description

27 September 2017

1 reference

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Evolutionary distances for protein-coding sequences: modeling site-specific residue frequencies

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1794230

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

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1794230

Binding matrix: a novel approach for binding site recognition

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1794230

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

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1794230

Transcriptional regulation of an archaeal operon in vivo and in vitro

29 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1794230

SIGNAL SCAN 4.0: additional databases and sequence formats

29 November 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/17244358

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1748-7188-2-1

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17244358%20AND%20SRC:MED&resulttype=core&format=json

journals/almob/CarmackMNL07

24 December 2019

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

1 reference

9 September 2019

https://scigraph.springernature.com/pub.10.1186/1748-7188-2-1

1 reference

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:17244358%20AND%20SRC:MED&resulttype=core&format=json

24 December 2019

PubMed publication ID

17244358

2 references