(Q35630203)

9 August 2017

Expression2Kinases: mRNA profiling linked to multiple upstream regulatory layers (English)

1 reference

9 August 2017

Avi Ma'ayan

6

0 references

author name string

Edward Y Chen

1

1 reference

9 August 2017

Huilei Xu

2

1 reference

9 August 2017

Simon Gordonov

3

1 reference

9 August 2017

Maribel P Lim

4

1 reference

9 August 2017

Matthew H Perkins

5

1 reference

9 August 2017

language of work or name

English

0 references

publication date

10 November 2011

1 reference

9 August 2017

1 reference

9 August 2017

28

1 reference

9 August 2017

105-111

1 reference

9 August 2017

1

1 reference

describes a project that uses

9 August 2017

Cytoscape

1 reference

9 June 2022

https://europepmc.org/search?query=(METHODS:'Cytoscape')

based on heuristic

inferred from PubMed Central ID database lookup

limma

1 reference

22 June 2022

https://europepmc.org/article/PMC/3244772

based on heuristic

inferred from PubMed Central ID database lookup

cites work

Discovering biological progression underlying microarray samples

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Correlation of microarray-based breast cancer molecular subtypes and clinical outcomes: implications for treatment optimization

12 July 2018

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Drug-induced regulation of target expression

12 July 2018

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ChEA: transcription factor regulation inferred from integrating genome-wide ChIP-X experiments

12 July 2018

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The Gene Ontology in 2010: extensions and refinements

12 July 2018

1 reference

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JASPAR 2010: the greatly expanded open-access database of transcription factor binding profiles

12 July 2018

1 reference

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GATE: software for the analysis and visualization of high-dimensional time series expression data

12 July 2018

1 reference

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KEGG for representation and analysis of molecular networks involving diseases and drugs

12 July 2018

1 reference

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Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

12 July 2018

1 reference

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KEA: kinase enrichment analysis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

SNAVI: Desktop application for analysis and visualization of large-scale signaling networks

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Defining developmental potency and cell lineage trajectories by expression profiling of differentiating mouse embryonic stem cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

RNA-Seq: a revolutionary tool for transcriptomics

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Human Protein Reference Database--2009 update

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Model-based analysis of ChIP-Seq (MACS)

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

A ribosomal S-6 kinase-mediated signal to C/EBP-beta is critical for the development of liver fibrosis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

DrugBank: a knowledgebase for drugs, drug actions and drug targets

12 July 2018

1 reference

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Novel homeodomain-interacting protein kinase family member, HIPK4, phosphorylates human p53 at serine 9

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Wnt antagonism inhibits hepatic stellate cell activation and liver fibrosis

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

NetworKIN: a resource for exploring cellular phosphorylation networks

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Gene expression profiles during hepatic stellate cell activation in culture and in vivo

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

The Connectivity Map: using gene-expression signatures to connect small molecules, genes, and disease

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

ARACNE: An Algorithm for the Reconstruction of Gene Regulatory Networks in a Mammalian Cellular Context

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Linear models and empirical bayes methods for assessing differential expression in microarray experiments

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

TRANSFAC and its module TRANSCompel: transcriptional gene regulation in eukaryotes

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Breast cancer bone metastasis mediated by the Smad tumor suppressor pathway

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Deregulated expression of Polycomb-group oncogenes in human malignant lymphomas and epithelial tumors

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

A multigene assay to predict recurrence of tamoxifen-treated, node-negative breast cancer

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Adipogenic transcriptional regulation of hepatic stellate cells

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Phospho.ELM: a database of experimentally verified phosphorylation sites in eukaryotic proteins

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

PhosphoSite: A bioinformatics resource dedicated to physiological protein phosphorylation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Reduction in Smad2/3 signaling enhances tumorigenesis but suppresses metastasis of breast cancer cell lines

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

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

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Gene expression profiling predicts clinical outcome of breast cancer

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Calcium/calmodulin-dependent protein kinase types II and IV differentially regulate CREB-dependent gene expression

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Differential activation of CREB by Ca2+/calmodulin-dependent protein kinases type II and type IV involves phosphorylation of a site that negatively regulates activity

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Physical Module Networks: an integrative approach for reconstructing transcription regulation

12 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Large-scale learning of combinatorial transcriptional dynamics from gene expression.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

GSEA-P: a desktop application for Gene Set Enrichment Analysis.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Decoding NMDA receptor signaling: identification of genomic programs specifying neuronal survival and death.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

An important role of neural activity-dependent CaMKIV signaling in the consolidation of long-term memory.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

Control of recruitment and transcription-activating function of CBP determines gene regulation by NMDA receptors and L-type calcium channels.

25 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3244772

10.1093/BIOINFORMATICS/BTR625

25 September 2018

Identifiers

DOI

1 reference

journals/bioinformatics/ChenXGLPM12

9 August 2017

1 reference

DBLP Dataset 2021-01-02

28 January 2021

1 reference

9 August 2017

1 reference