Genome-wide patterns of promoter sharing and co-expression in bovine skeletal muscle (Q33791193)

29 July 2017

Genome-wide patterns of promoter sharing and co-expression in bovine skeletal muscle (English)

1 reference

29 July 2017

Quan Gu

1

1 reference

29 July 2017

Shivashankar H Nagaraj

2

1 reference

29 July 2017

Nicholas J Hudson

3

1 reference

29 July 2017

Brian P Dalrymple

4

1 reference

29 July 2017

Antonio Reverter

5

1 reference

29 July 2017

language of work or name

English

0 references

publication date

12 January 2011

1 reference

29 July 2017

1 reference

29 July 2017

12

1 reference

29 July 2017

23

1 reference

https://scigraph.springernature.com/pub.10.1186/1471-2164-12-23

29 July 2017

0 references

cites work

Analysis of combinatorial regulation: scaling of partnerships between regulators with the number of governed targets

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Meis1 maintains stemness signature in MLL-AF9 leukemia

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Gene expression changes in mononuclear cells in patients with metabolic syndrome after acute intake of phenol-rich virgin olive oil

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Functional annotation of novel lineage-specific genes using co-expression and promoter analysis

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Nfix regulates fetal-specific transcription in developing skeletal muscle

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Assigning roles to DNA regulatory motifs using comparative genomics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Regulatory impact factors: unraveling the transcriptional regulation of complex traits from expression data.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Identification of interacting transcription factors regulating tissue gene expression in human

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

An evolutionarily conserved Myostatin proximal promoter/enhancer confers basal levels of transcription and spatial specificity in vivo.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

MEF2C silencing attenuates load-induced left ventricular hypertrophy by modulating mTOR/S6K pathway in mice

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

ChIP-Seq of transcription factors predicts absolute and differential gene expression in embryonic stem cells

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Inferring the transcriptional landscape of bovine skeletal muscle by integrating co-expression networks

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Genomic analysis reveals a tight link between transcription factor dynamics and regulatory network architecture

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Relationship between gene co-expression and sharing of transcription factor binding sites in Drosophila melanogaster

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Haematopoietic malignancies caused by dysregulation of a chromatin-binding PHD finger

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Intra- and inter-individual genetic differences in gene expression

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Human four-and-a-half LIM family members suppress tumor cell growth through a TGF-beta-like signaling pathway.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Analysis of mammalian gene batteries reveals both stable ancestral cores and highly dynamic regulatory sequences

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

PASTAA: identifying transcription factors associated with sets of co-regulated genes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Sustained NF-kappaB activation produces a short-term cell proliferation block in conjunction with repressing effectors of cell cycle progression controlled by E2F or FoxM1.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Combining partial correlation and an information theory approach to the reversed engineering of gene co-expression networks

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Coexpression, coregulation, and cofunctionality of neighboring genes in eukaryotic genomes

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

A network biology approach to prostate cancer

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

The evolution of gene regulation by transcription factors and microRNAs

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Large-scale mapping and validation of Escherichia coli transcriptional regulation from a compendium of expression profiles

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Genomic analysis of the hierarchical structure of regulatory networks

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

A gene coexpression network for bovine skeletal muscle inferred from microarray data.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Extracting gene networks for low-dose radiation using graph theoretical algorithms

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

An improved distance measure between the expression profiles linking co-expression and co-regulation in mouse

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

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

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Chemogenomic profiling on a genome-wide scale using reverse-engineered gene networks

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Gli2 and Gli3 have redundant and context-dependent function in skeletal muscle formation.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

FHL3 negatively regulates human high-affinity IgE receptor beta-chain gene expression by acting as a transcriptional co-repressor of MZF-1

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Coexpression analysis of human genes across many microarray data sets

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Genomic analysis of essentiality within protein networks

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Applied bioinformatics for the identification of regulatory elements

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Just-in-time transcription program in metabolic pathways

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Quantifying the relationship between co-expression, co-regulation and gene function

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

GATA transcription factors and fat cell formation.

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Transcription regulation and animal diversity

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Assigning numbers to the arrows: parameterizing a gene regulation network by using accurate expression kinetics

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Differential cell cycle effects induced by E2F1 mutants

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

The possible role of skeletal muscle in the adaptation to periods of energy deficiency

28 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3025955

Using Bayesian networks to analyze expression data

28 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Reverse engineering cellular networks.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

PCIT: an R package for weighted gene co-expression networks based on partial correlation and information theory approaches.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

BioMoby web services to support clustering of co-regulated genes based on similarity of promoter configurations.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Module networks revisited: computational assessment and prioritization of model predictions.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Genomic analysis of gene expression relationships in transcriptional regulatory networks

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Conservation and divergence of known apicomplexan transcriptional regulons

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Large-scale mapping of human protein-protein interactions by mass spectrometry

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

A Smad transcriptional corepressor

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Abundance of ribosomal RNA gene copies maintains genome integrity

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Regulation of smooth muscle cell differentiation by AT-rich interaction domain transcription factors Mrf2alpha and Mrf2beta.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

NF-kappaB signaling: a tale of two pathways in skeletal myogenesis

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Profiling molecular targets of TGF-beta1 in prostate fibroblast-to-myofibroblast transdifferentiation

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

ATF6 modulates SREBP2-mediated lipogenesis.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Global networks of functional coupling in eukaryotes from comprehensive data integration

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Validation of alternative methods of data normalization in gene co-expression studies

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

PermutMatrix: a graphical environment to arrange gene expression profiles in optimal linear order

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Network biology: understanding the cell's functional organization

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

Transcriptome Complexity in a Genome-Reduced Bacterium

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-23

MEF2 activates a genetic program promoting chamber dilation and contractile dysfunction in calcineurin-induced heart failure

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21226902

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Scale-free networks: a decade and beyond

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21226902

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2164-12-23

1 reference

Dimensions Publication ID

29 July 2017

0 references

1 reference

29 July 2017

1 reference