De novo discovery of a tissue-specific gene regulatory module in a chordate (Q34056053)

30 July 2017

title

De novo discovery of a tissue-specific gene regulatory module in a chordate (English)

1 reference

30 July 2017

6

Arend Sidow

1 reference

30 July 2017

David S Johnson

1

1 reference

30 July 2017

Qing Zhou

2

1 reference

30 July 2017

Kasumi Yagi

3

1 reference

30 July 2017

Nori Satoh

4

1 reference

30 July 2017

Wing Wong

5

1 reference

30 July 2017

publication date

16 September 2005

1 reference

30 July 2017

1 reference

30 July 2017

volume

15

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30 July 2017

issue

10

1 reference

30 July 2017

page(s)

1315-1324

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Assembly of polymorphic genomes: algorithms and application to Ciona savignyi

30 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Computational discovery of DNA motifs associated with cell type-specific gene expression in Ciona

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Novel transcription regulatory elements in Caenorhabditis elegans muscle genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Noncoding regulatory sequences of Ciona exhibit strong correspondence between evolutionary constraint and functional importance

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Whole-genome analysis of temporal gene expression during foregut development

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Transcriptional control in the segmentation gene network of Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Evolutionary origins of the vertebrate heart: Specification of the cardiac lineage in Ciona intestinalis

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Regulatory roles of conserved intergenic domains in vertebrate Dlx bigene clusters.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

LAGAN and Multi-LAGAN: efficient tools for large-scale multiple alignment of genomic DNA

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

The Draft Genome of Ciona intestinalis: Insights into Chordate and Vertebrate Origins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Genome-wide identification of tissue-specific enhancers in the Ciona tadpole

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Evolutionary conservation of otd/Otx2 transcription factor action: a genome-wide microarray analysis in Drosophila

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila 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=1240073

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

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Gapped BLAST and PSI-BLAST: a new generation of protein database search programs

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Genomic cis-regulatory architecture and trans-acting regulators of a single interneuron-specific gene battery in C. elegans

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Muscle development and lineage-specific expression of CiMDF, the MyoD-family gene of Ciona intestinalis

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

A gene expression map for Caenorhabditis elegans.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Patterns of gene expression during Drosophila mesoderm development

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Characterization of a notochord-specific enhancer from the Brachyury promoter region of the ascidian, Ciona intestinalis.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

Cell lineage analysis in ascidian embryos by intracellular injection of a tracer enzyme. III. Up to the tissue restricted stage

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1240073

A cDNA resource from the basal chordateCiona intestinalis

28 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16169925

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Neural tissue in ascidian embryos is induced by FGF9/16/20, acting via a combination of maternal GATA and Ets transcription factors

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/16169925

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1101/GR.4062605

1 reference

30 July 2017

1 reference

30 July 2017

1 reference