(Q34028869)

30 July 2017

1 reference

title

Visualization and exploration of conserved regulatory modules using ReXSpecies 2 (English)

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30 July 2017

1 reference

Stephan Struckmann

1

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30 July 2017

Daniel Esch

series ordinal

2

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30 July 2017

Hans Schöler

series ordinal

3

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30 July 2017

Georg Fuellen

series ordinal

4

1 reference

30 July 2017

publication date

24 September 2011

1 reference

30 July 2017

published in

BMC Evolutionary Biology

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30 July 2017

volume

11

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30 July 2017

page(s)

267

1 reference

describes a project that uses

30 July 2017

Cytoscape

object named as

Cytoscape

1 reference

CZ Software Mentions: A large dataset of software mentions in the biomedical literature

cites work

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5 July 2018

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5 July 2018

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Knockdown of ZEB1, a master epithelial-to-mesenchymal transition (EMT) gene, suppresses anchorage-independent cell growth of lung cancer cells

5 July 2018

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Five-vertebrate ChIP-seq reveals the evolutionary dynamics of transcription factor binding

5 July 2018

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5 July 2018

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Wt1 is required for cardiovascular progenitor cell formation through transcriptional control of Snail and E-cadherin.

5 July 2018

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5 July 2018

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5 July 2018

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VANLO--interactive visual exploration of aligned biological networks

5 July 2018

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The transcriptional foundation of pluripotency

5 July 2018

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Evolution of non-coding regulatory sequences involved in the developmental process: reflection of differential employment of paralogous genes as highlighted by Sox2 and group B1 Sox genes

5 July 2018

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5 July 2018

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5 July 2018

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Discovering novel sequence motifs with MEME.

5 July 2018

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Evolution of the mammalian transcription factor binding repertoire via transposable 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=3203875

Cross-species de novo identification of cis-regulatory modules with GibbsModule: application to gene regulation in embryonic stem cells

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

The TRANSFAC project as an example of framework technology that supports the analysis of genomic 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=3203875

ReXSpecies--a tool for the analysis of the evolution of gene regulation across species

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Early embryonic lethality caused by disruption of the gene for choline kinase alpha, the first enzyme in phosphatidylcholine biosynthesis.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Discovery of functional elements in 12 Drosophila genomes using evolutionary signatures

5 July 2018

1 reference

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Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

STRING 7--recent developments in the integration and prediction of protein interactions

5 July 2018

1 reference

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RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Gut-enriched Krüppel-like factor interaction with Smad3 inhibits myofibroblast differentiation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

The mouse Ovol2 gene is required for cranial neural tube 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=3203875

TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Pax 2/8-regulated Gata 3 expression is necessary for morphogenesis and guidance of the nephric duct in the developing kidney

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Evolutionarily conserved elements in vertebrate, insect, worm, and yeast genomes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

MatInspector and beyond: promoter analysis based on transcription factor binding sites

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Identification of transcription factor binding sites with variable-order Bayesian networks

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

The MAPPER database: a multi-genome catalog of putative transcription factor binding sites

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous

5 July 2018

1 reference

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MUSCLE: a multiple sequence alignment method with reduced time and space complexity

5 July 2018

1 reference

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A gene network for navigating the literature

5 July 2018

1 reference

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Aligning multiple genomic sequences with the threaded blockset aligner

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Cytoscape: a software environment for integrated models of biomolecular interaction networks

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Identification of Ets-1 as an important transcriptional activator of CTP:phosphocholine cytidylyltransferase alpha in COS-7 cells and co-activation with transcriptional enhancer factor-4.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

The UCSC Genome Browser Database

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Resolution of the early placental mammal radiation using Bayesian phylogenetics

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

MRBAYES: Bayesian inference of phylogenetic trees

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Molecular phylogenetics and the origins of placental mammals

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Gene ontology: tool for the unification of biology

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Direct interaction of hematopoietic transcription factors PU.1 and GATA-1: functional antagonism in erythroid cells

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Identification of a novel Sry-related gene and its germ cell-specific expression

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Sequence logos: a new way to display consensus sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Evolution of eukaryotic transcription circuits

5 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-267

An alignment-free model for comparison of regulatory sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-267

Searching for statistically significant regulatory modules.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-267

PhyME: a software tool for finding motifs in sets of orthologous sequences.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-267

Toward Defining the Course of Evolution: Minimum Change for a Specific Tree Topology

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-267

Comparative analysis of human, bovine, and murine Oct-4 upstream promoter sequences

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-267

Sexually dimorphic expression of Gata-2 during mouse gonad development.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2148-11-267

Transcriptional regulation of the vitamin D(3) receptor gene by ZEB.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3203875

Epigenetic modifications of SOX2 enhancers, SRR1 and SRR2, correlate with in vitro neural differentiation

29 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21942985

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2148-11-267

1 reference

Dimensions Publication ID

30 July 2017

0 references

1 reference

30 July 2017

1 reference