Genome-Wide Binding of Posterior HOXA/D Transcription Factors Reveals Subgrouping and Association with CTCF. (Q36253774)

13 August 2017

Genome-Wide Binding of Posterior HOXA/D Transcription Factors Reveals Subgrouping and Association with CTCF. (English)

1 reference

genome-wide association study

13 August 2017

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author

Ivana Jerković

1

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:28103242%20AND%20SRC:MED&resulttype=core&format=json

10 June 2020

Daniel M. Ibrahim

2

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10 June 2020

Guillaume Andrey

3

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10 June 2020

Stefan Haas

4

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10 June 2020

Peter Hansen

5

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10 June 2020

Peter Robinson

8

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10 June 2020

Jochen Hecht

9

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10 June 2020

10

Stefan Mundlos

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10 June 2020

Irene González-Navarrete

7

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Irene González Navarrete

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10 June 2020

author name string

Catrin Janetzki

6

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10 June 2020

language of work or name

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19 January 2017

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13 August 2017

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10 June 2020

volume

13

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10 June 2020

issue

1

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10 June 2020

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e1006567

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Creative Commons CC0 License

10 June 2020

copyright license

start time

19 January 2017

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April 2022 Public Data File from Crossref

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copyrighted, dedicated to the public domain by copyright holder

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ImageJ

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11 June 2022

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based on heuristic

inferred from PubMed Central ID database lookup

DESeq2

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DEseq2

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

cites work

A role for HOX13 proteins in the regulatory switch between TADs at the HoxD locus

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

DNA-dependent formation of transcription factor pairs alters their binding specificity

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

JASPAR 2016: a major expansion and update of the open-access database of transcription factor binding profiles

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Chromatin extrusion explains key features of loop and domain formation in wild-type and engineered genomes

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Key pathways regulated by HoxA9,10,11/HoxD9,10,11 during limb development

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

CTCF-dependent co-localization of canonical Smad signaling factors at architectural protein binding sites in D. melanogaster

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

RSAT 2015: Regulatory Sequence Analysis Tools.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Cellular and molecular insights into Hox protein action

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

footprintDB: a database of transcription factors with annotated cis elements and binding interfaces.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Distinct global shifts in genomic binding profiles of limb malformation-associated HOXD13 mutations

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

CTCF and cohesin: linking gene regulatory elements with their targets

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

DNA-binding specificities of human transcription factors

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

STAR: ultrafast universal RNA-seq aligner

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Cohesin regulates tissue-specific expression by stabilizing highly occupied cis-regulatory modules

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Inferring direct DNA binding from ChIP-seq

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Topological domains in mammalian genomes identified by analysis of chromatin interactions

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Structural basis for sequence specific DNA binding and protein dimerization of HOXA13

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

FIMO: scanning for occurrences of a given motif

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

BEDTools: a flexible suite of utilities for comparing genomic features

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Evolution of the Hox gene complex from an evolutionary ground state

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Model-based analysis of ChIP-Seq (MACS)

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Variation in homeodomain DNA binding revealed by high-resolution analysis of sequence preferences

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Functional Specificity of a Hox Protein Mediated by the Recognition of Minor Groove Structure

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

The role of Hox genes during vertebrate limb development

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

High-resolution profiling of histone methylations in the human genome

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Chromatin immunoprecipitation and microarray-based analysis of protein location

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Direct observation of individual endogenous protein complexes in situ by proximity ligation

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

AP-1 subunits: quarrel and harmony among siblings

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Multiple roles of Hoxa11 and Hoxd11 in the formation of the mammalian forelimb zeugopod

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Hoxa-13 and Hoxd-13 play a crucial role in the patterning of the limb autopod

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Analysis of Hox gene expression in the chick limb bud.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Crystal structure of the heterodimeric bZIP transcription factor c-Fos-c-Jun bound to DNA

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Absence of radius and ulna in mice lacking hoxa-11 and hoxd-11

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Homeobox genes and axial patterning

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Low affinity binding site clusters confer hox specificity and regulatory robustness.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Spatial enhancer clustering and regulation of enhancer-proximal genes by cohesin

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Chemical shift assignments of mouse HOXD13 DNA binding domain bound to duplex DNA.

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Cofactor binding evokes latent differences in DNA binding specificity between Hox proteins

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

A switch between topological domains underlies HoxD genes collinearity in mouse limbs

29 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

A dual role for Hox genes in limb anterior-posterior asymmetry

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

Serial deletions and duplications suggest a mechanism for the collinearity of Hoxd genes in limbs.

22 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5289628

10.1371/JOURNAL.PGEN.1006567

22 September 2018

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10 June 2020

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10 June 2020

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