ArticlePLoS computational biology2008
A genomewide functional network for the laboratory mouse.
Article in PLoS computational biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 72 papers.
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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.
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Who cites it
72 citing papers in PubMed, 111 citations in OpenAlex.
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- An integrated brain-specific network identifies genes associated with neuropathologic and clinical traits of Alzheimer's disease.Briefings in bioinformatics · 2022Article
- TissueNexus: a database of human tissue functional gene networks built with a large compendium of curated RNA-seq data.Nucleic acids research · 2022Article
- Comparing Host Module Activation Patterns and Temporal Dynamics in Infection by Influenza H1N1 Viruses.Frontiers in immunology · 2021Article
- Genome-wide functional association networks: background, data & state-of-the-art resources.Briefings in bioinformatics · 2020Review
- Joint learning improves protein abundance prediction in cancers.BMC biology · 2019Article
- Prognostic model for multiple myeloma progression integrating gene expression and clinical features.GigaScience · 2019Article
- UNIPred-Web: a web tool for the integration and visualization of biomolecular networks for protein function prediction.BMC bioinformatics · 2019Article
- Identification of differentially expressed genes in small and non-small cell lung cancer based on meta-analysis of mRNA.Heliyon · 2019Article
- Brain-specific functional relationship networks inform autism spectrum disorder gene prediction.Translational psychiatry · 2018Article
- A proteogenomic approach to understand splice isoform functions through sequence and expression-based computational modeling.Briefings in bioinformatics · 2016Article
- COMPASS: A computational model to predict changes in MMSE scores 24-months after initial assessment of Alzheimer's disease.Scientific reports · 2016Article
- Algorithms for modeling global and context-specific functional relationship networks.Briefings in bioinformatics · 2016Article
- A Network of Splice Isoforms for the Mouse.Scientific reports · 2016Article
- MouseNet v2: a database of gene networks for studying the laboratory mouse and eight other model vertebrates.Nucleic acids research · 2016Article
- Taking Bioinformatics to Systems Medicine.Methods in molecular biology (Clifton, N.J.) · 2016Review
- Recent Advances and Emerging Applications in Text and Data Mining for Biomedical Discovery.Briefings in bioinformatics · 2016Review
- Functional Networks of Highest-Connected Splice Isoforms: From The Chromosome 17 Human Proteome Project.Journal of proteome research · 2015Article
- Regulatory network inferred using expression data of small sample size: application and validation in erythroid system.Bioinformatics (Oxford, England) · 2015Article
- Genes Caught In Flagranti: Integrating Renal Transcriptional Profiles With Genotypes and Phenotypes.Seminars in nephrology · 2015Review
12 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
Establishing a functional network is invaluable to our understanding of gene function, pathways, and systems-level properties of an organism and can be a powerful resource in directing targeted experiments. In this study, we present a functional network for the laboratory mouse based on a Bayesian integration of diverse genetic and functional genomic data. The resulting network includes probabilistic functional linkages among 20,581 protein-coding genes. We show that this network can accurately predict novel functional assignments and network components and present experimental evidence for predictions related to Nanog homeobox (Nanog), a critical gene in mouse embryonic stem cell pluripotency. An analysis of the global topology of the mouse functional network reveals multiple biologically relevant systems-level features of the mouse proteome. Specifically, we identify the clustering coefficient as a critical characteristic of central modulators that affect diverse pathways as well as genes associated with different phenotype traits and diseases. In addition, a cross-species comparison of functional interactomes on a genomic scale revealed distinct functional characteristics of conserved neighborhoods as compared to subnetworks specific to higher organisms. Thus, our global functional network for the laboratory mouse provides the community with a key resource for discovering protein functions and novel pathway components as well as a tool for exploring systems-level topological and evolutionary features of cellular interactomes. To facilitate exploration of this network by the biomedical research community, we illustrate its application in function and disease gene discovery through an interactive, Web-based, publicly available interface at http://mouseNET.princeton.edu.
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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.