scispace - formally typeset
Open AccessJournal ArticleDOI

Genome-wide prioritization of disease genes and identification of disease-disease associations from an integrated human functional linkage network.

Reads0
Chats0
TLDR
The functional-linkage network is used to prioritize candidate genes for 110 diseases, and to reliably disclose hidden associations between disease pairs having dissimilar phenotypes, such as hypercholesterolemia and Alzheimer's disease.
Abstract
We integrate 16 genomic features to construct an evidence-weighted functional-linkage network comprising 21,657 human genes. The functional-linkage network is used to prioritize candidate genes for 110 diseases, and to reliably disclose hidden associations between disease pairs having dissimilar phenotypes, such as hypercholesterolemia and Alzheimer's disease. Many of these disease-disease associations are supported by epidemiology, but with no previous genetic basis. Such associations can drive novel hypotheses on molecular mechanisms of diseases and therapies.

read more

Content maybe subject to copyright    Report

Citations
More filters
Journal ArticleDOI

Structure and dynamics of molecular networks: A novel paradigm of drug discovery: A comprehensive review

TL;DR: It is shown how network techniques can help in the identification of single-target, edgetic, multi-target and allo-network drug target candidates and an optimized protocol of network-aided drug development is suggested, and a list of systems-level hallmarks of drug quality is provided.
Journal ArticleDOI

Prioritizing candidate disease genes by network-based boosting of genome-wide association data

TL;DR: It is demonstrated that a functional network of human genes provides a valuable statistical framework for prioritizing candidate disease genes, both for candidate gene-based and GWAS-based studies.
Journal ArticleDOI

Computational tools for prioritizing candidate genes: boosting disease gene discovery

TL;DR: Computational methods that integrate complex, heterogeneous data sets — such as expression data, sequence information, functional annotation and the biomedical literature — allow prioritizing genes for future study in a more informed way to substantially increase the yield of downstream studies.
Journal ArticleDOI

Genome-wide inferring gene–phenotype relationship by walking on the heterogeneous network

TL;DR: A heterogeneous network is constructed by connecting the gene network and phenotype network using the phenotype-gene relationship information from the OMIM database using leave-one-out cross-validation to evaluate the ability of finding the gene-phenotype relationship.
Journal ArticleDOI

Rational association of genes with traits using a genome-scale gene network for Arabidopsis thaliana

TL;DR: A probabilistic network (AraNet) of functional associations among 19,647 genes of the reference flowering plant Arabidopsis thaliana is presented, and associations are predictive for diverse biological pathways, and outperform predictions derived only from literature-based protein interactions.
References
More filters
Journal ArticleDOI

NCBI Reference Sequence (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins

TL;DR: The National Center for Biotechnology Information Reference Sequence (RefSeq) database provides a non-redundant collection of sequences representing genomic data, transcripts and proteins that pragmatically includes sequence data that are currently publicly available in the archival databases.
Journal ArticleDOI

Apolipoprotein E: high-avidity binding to beta-amyloid and increased frequency of type 4 allele in late-onset familial Alzheimer disease.

TL;DR: It is demonstrated that there was a highly significant association of apolipoprotein E type 4 allele (APOE-epsilon 4) and late-onset familial Alzheimer disease.
Journal ArticleDOI

The KEGG resource for deciphering the genome

TL;DR: A knowledge-based approach for network prediction is developed, which is to predict, given a complete set of genes in the genome, the protein interaction networks that are responsible for various cellular processes.
Related Papers (5)