A network-based gene-weighting approach for pathway analysis (Q30506064)

15 October 2017

A network-based gene-weighting approach for pathway analysis (English)

1 reference

15 October 2017

1 reference

Zhaoyuan Fang

1

1 reference

15 October 2017

Weidong Tian

series ordinal

2

1 reference

15 October 2017

Hongbin Ji

series ordinal

3

1 reference

15 October 2017

6 September 2011

1 reference

15 October 2017

1 reference

15 October 2017

22

1 reference

15 October 2017

3

1 reference

15 October 2017

565-580

1 reference

describes a project that uses

15 October 2017

Cytoscape

1 reference

9 June 2022

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

inferred from PubMed Central ID database lookup

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Functional enrichment analyses and construction of functional similarity networks with high confidence function prediction by PFP.

20 June 2018

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Babelomics: an integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling

20 June 2018

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Identification of functional modules that correlate with phenotypic difference: the influence of network topology.

20 June 2018

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Decreased fibronectin production significantly contributes to dysregulated repair of asthmatic epithelium

20 June 2018

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A review of statistical methods for preprocessing oligonucleotide microarrays.

20 June 2018

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

20 June 2018

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GAGE: generally applicable gene set enrichment for pathway analysis

20 June 2018

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Choosing the right path: enhancement of biologically relevant sets of genes or proteins using pathway structure

20 June 2018

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Global networks of functional coupling in eukaryotes from comprehensive data integration

20 June 2018

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Identification of differential gene pathways with principal component analysis

20 June 2018

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A novel signaling pathway impact analysis.

20 June 2018

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Testing gene set enrichment for subset of genes: Sub-GSE.

20 June 2018

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WikiPathways: pathway editing for the people

20 June 2018

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KEGG for linking genomes to life and the environment

20 June 2018

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Pathway-based approaches for analysis of genomewide association studies

20 June 2018

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Integration of biological networks and gene expression data using Cytoscape

20 June 2018

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A systems biology approach for pathway level analysis

20 June 2018

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Improving gene set analysis of microarray data by SAM-GS.

20 June 2018

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Reactome: a knowledge base of biologic pathways and processes

20 June 2018

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Analyzing gene expression data in terms of gene sets: methodological issues

20 June 2018

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PANTHER version 6: protein sequence and function evolution data with expanded representation of biological pathways

20 June 2018

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Pathway analysis of kidney cancer using proteomics and metabolic profiling

20 June 2018

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Autocrine PDGFR signaling promotes mammary cancer metastasis

20 June 2018

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

20 June 2018

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Epidermal growth factor receptor (EGFR) signaling in cancer

20 June 2018

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Evolving gene/transcript definitions significantly alter the interpretation of GeneChip data

20 June 2018

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

20 June 2018

1 reference

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Towards a proteome-scale map of the human protein–protein interaction network

20 June 2018

1 reference

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Discovering statistically significant pathways in expression profiling studies

20 June 2018

1 reference

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Pathway level analysis of gene expression using singular value decomposition

20 June 2018

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PAGE: parametric analysis of gene set enrichment

20 June 2018

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Testing association of a pathway with survival using gene expression data

20 June 2018

1 reference

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Metabolic profiles of cancer cells

20 June 2018

1 reference

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A global test for groups of genes: testing association with a clinical outcome

20 June 2018

1 reference

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

20 June 2018

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PANTHER: a library of protein families and subfamilies indexed by function

20 June 2018

1 reference

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Exploration, normalization, and summaries of high density oligonucleotide array probe level data

20 June 2018

1 reference

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Global functional profiling of gene expression.

20 June 2018

1 reference

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Summaries of Affymetrix GeneChip probe level data

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3292304

A comparison of normalization methods for high density oligonucleotide array data based on variance and bias

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3292304

Calcium signaling: a tale for all seasons

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3292304

The cell cycle and cancer

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3292304

Cell cycle control and cancer

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3292304

Cytokine receptor signalling

20 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3292304

Bayesian gene set analysis for identifying significant biological pathways

20 June 2018

1 reference

https://api.crossref.org/works/10.1038%2FCR.2011.149

Increased levels of vascular endothelial growth factor in induced sputum in asthmatic patients

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FCR.2011.149

Vascular endothelial growth factor up-regulation and bronchial wall remodelling in asthma.

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FCR.2011.149

Switching on kinases: oncogenic activation of BRAF and the PDGFR family

21 January 2018

1 reference

https://api.crossref.org/works/10.1038%2FCR.2011.149

Testing differential gene expression in functional groups. Goeman's global test versus an ANCOVA approach.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3292304

Aberrant methylation of the adenomatous polyposis coli (APC) gene promoter 1A in breast and lung carcinomas

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3292304

Analysis of adenomatous polyposis coli promoter hypermethylation in human cancer

26 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3292304

Statistical concerns about the GSEA procedure

26 November 2018

1 reference

12 December 2020

Prior biological knowledge-based approaches for the analysis of genome-wide expression profiles using gene sets and pathways

1 reference

12 December 2020

Involvement of adenomatous polyposis coli (APC)/beta-catenin signalling in human breast cancer

1 reference

12 December 2020

Expression of vascular endothelial growth factor, basic fibroblast growth factor, and angiogenin immunoreactivity in asthmatic airways and its relationship to angiogenesis

1 reference

12 December 2020

Gene expression of vascular endothelial growth factor and its receptors and angiogenesis in bronchial asthma

1 reference

12 December 2020

Identifiers

DOI

10.1038/CR.2011.149

1 reference

15 October 2017

1 reference

15 October 2017

PubMed publication ID

21894192

1 reference