(Q35748712)

10 August 2017

title

Discovering transcriptional regulatory regions in Drosophila by a nonalignment method for phylogenetic footprinting (English)

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10 August 2017

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4

Andrea Califano

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10 August 2017

Alona Sosinsky

1

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10 August 2017

Barry Honig

series ordinal

2

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10 August 2017

Richard S Mann

series ordinal

3

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10 August 2017

language of work or name

English

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publication date

29 March 2007

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Proceedings of the National Academy of Sciences of the United States of America

10 August 2017

published in

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10 August 2017

volume

104

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10 August 2017

issue

15

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10 August 2017

page(s)

6305-6310

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FlyBase: anatomical data, images and queries

10 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Assessing computational tools for the discovery of transcription factor binding sites

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

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

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

VISTA: computational tools for comparative genomics

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Finding Functional Features in Saccharomyces Genomes by Phylogenetic Footprinting

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Sequencing and comparison of yeast species to identify genes and regulatory elements

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Covariation in frequencies of substitution, deletion, transposition, and recombination during eutherian evolution

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Computational detection of genomic cis-regulatory modules applied to body patterning in the early Drosophila embryo

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Discovery of regulatory elements by a computational method for phylogenetic footprinting

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

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

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Genome-wide analysis of clustered Dorsal binding sites identifies putative target genes in the Drosophila embryo

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Phylogenetic footprinting of transcription factor binding sites in proteobacterial genomes

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Active conservation of noncoding sequences revealed by three-way species comparisons

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Identification of a Coordinate Regulator of Interleukins 4, 13, and 5 by Cross-Species Sequence Comparisons

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Evidence for stabilizing selection in a eukaryotic enhancer element.

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Analysis of vertebrate SCL loci identifies conserved enhancers

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Detecting conserved regulatory elements with the model genome of the Japanese puffer fish, Fugu rubripes

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

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

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Spatial control of the gap gene knirps in the Drosophila embryo by posterior morphogen system

27 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1851073

Target Explorer: An automated tool for the identification of new target genes for a specified set of transcription factors

27 July 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

Prediction of similarly acting cis-regulatory modules by subsequence profiling and comparative genomics in Drosophila melanogaster and D.pseudoobscura.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

Human-mouse genome comparisons to locate regulatory sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

Annotating regulatory DNA based on man-mouse genomic comparison.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

Discovery of regulatory elements in vertebrates through comparative genomics.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

Tracing the evolutionary history of Drosophila regulatory regions with models that identify transcription factor binding sites

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

Permutation pattern discovery in biosequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

SPLASH: structural pattern localization analysis by sequential histograms.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

FusionDB: a database for in-depth analysis of prokaryotic gene fusion events

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

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

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

Activation of posterior gap gene expression in the Drosophila blastoderm.

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

Comparative genome analysis delimits a chromosomal domain and identifies key regulatory elements in the alpha globin cluster

21 January 2018

1 reference

https://api.crossref.org/works/10.1073%2FPNAS.0701614104

21 January 2018

Identifiers

DOI

10.1073/PNAS.0701614104

1 reference

10 August 2017

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1 reference

10 August 2017

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