ArticleGenomics2012
GenRev: exploring functional relevance of genes in molecular networks.
Article in Genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers, 2 of them syntheses that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
30 citing papers in PubMed, 2 syntheses or guidelines pooled it.
- Exploring drug-target interaction networks of illicit drugs.BMC genomics · 2013Pooled it
- Network-assisted investigation of combined causal signals from genome-wide association studies in schizophrenia.PLoS computational biology · 2012Pooled it
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- Network and pathway-based analysis of genes associated with esophageal squamous cell carcinoma.Annals of translational medicine · 2023Article
- The VRNetzer platform enables interactive network analysis in Virtual Reality.Nature communications · 2021Article
- MMS22L Expression as a Predictive Biomarker for the Efficacy of Neoadjuvant Chemoradiotherapy in Oesophageal Squamous Cell Carcinoma.Frontiers in oncology · 2021Article
- Identification of osteosarcoma driver genes using a network method.Oncology letters · 2020Article
- A network-based pathway-extending approach using DNA methylation and gene expression data to identify altered pathways.Scientific reports · 2019Article
- Integration of Molecular Interactome and Targeted Interaction Analysis to Identify a COPD Disease Network Module.Scientific reports · 2018Article
- Controllability in an islet specific regulatory network identifies the transcriptional factor NFATC4, which regulates Type 2 Diabetes associated genes.NPJ systems biology and applications · 2018Article
- ndmaSNF: cancer subtype discovery based on integrative framework assisted by network diffusion model.Oncotarget · 2017Article
- Identification of candidate genes related to pancreatic cancer based on analysis of gene co-expression and protein-protein interaction network.Oncotarget · 2017Article
- Network and Pathway-Based Analyses of Genes Associated with Parkinson's Disease.Molecular neurobiology · 2017Article
- Analyzing the genes related to Alzheimer's disease via a network and pathway-based approach.Alzheimer's research & therapy · 2017Article
- Comparison of statistical methods for subnetwork detection in the integration of gene expression and protein interaction network.BMC bioinformatics · 2017Article
- A network-based pathway-expanding approach for pathway analysis.BMC bioinformatics · 2016Article
- Concordance between somatic copy number loss and down-regulated expression: A pan-cancer study of cancer predisposition genes.Scientific reports · 2016Article
- dbCPG: A web resource for cancer predisposition genes.Oncotarget · 2016Article
- Identification of breast cancer candidate genes using gene co-expression and protein-protein interaction information.Oncotarget · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors.
Funding
Abstract
We introduce GenRev, a network-based software package developed to explore the functional relevance of genes generated as an intermediate result from numerous high-throughput technologies. GenRev searches for optimal intermediate nodes (genes) for the connection of input nodes via several algorithms, including the Klein-Ravi algorithm, the limited kWalks algorithm and a heuristic local search algorithm. Gene ranking and graph clustering analyses are integrated into the package. GenRev has the following features. (1) It provides users with great flexibility to define their own networks. (2) Users are allowed to define each gene's importance in a subnetwork search by setting its score. (3) It is standalone and platform independent. (4) It provides an optimization in subnetwork search, which dramatically reduces the running time. GenRev is particularly designed for general use so that users have the flexibility to choose a reference network and define the score of genes. GenRev is freely available at http://bioinfo.mc.vanderbilt.edu/GenRev.html.
Indexed as
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What OpenQuestion holds
Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.