Functional-Network-Based Gene Set Analysis Using Gene-Ontology
نویسندگان
چکیده
منابع مشابه
Functional-Network-Based Gene Set Analysis Using Gene-Ontology
To account for the functional non-equivalence among a set of genes within a biological pathway when performing gene set analysis, we introduce GOGANPA, a network-based gene set analysis method, which up-weights genes with functions relevant to the gene set of interest. The genes are weighted according to its degree within a genome-scale functional network constructed using the functional annota...
متن کاملOntology-based Gene Set Enrichment Analysis Using an Efficient Semantic Similarity Measure and Functional Clustering
Gene set enrichment analysis allows to extract specific biological functions relative to a group of genes. To this aim, we propose here a novel approach for mining biological data, using the Gene Ontology (GO) as main source of genes annotation terms. Firstly, we will use our new semantic similarity measure (IntelliGO) in a clustering process, for grouping genes sharing similar biological funct...
متن کاملEnrichNet: network-based gene set enrichment analysis
MOTIVATION Assessing functional associations between an experimentally derived gene or protein set of interest and a database of known gene/protein sets is a common task in the analysis of large-scale functional genomics data. For this purpose, a frequently used approach is to apply an over-representation-based enrichment analysis. However, this approach has four drawbacks: (i) it can only scor...
متن کاملA novel method to quantify gene set functional association based on gene ontology.
Numerous gene sets have been used as molecular signatures for exploring the genetic basis of complex disorders. These gene sets are distinct but related to each other in many cases; therefore, efforts have been made to compare gene sets for studies such as those evaluating the reproducibility of different experiments. Comparison in terms of biological function has been demonstrated to be helpfu...
متن کاملTopoGSA: network topological gene set analysis
UNLABELLED TopoGSA (Topology-based Gene Set Analysis) is a web-application dedicated to the computation and visualization of network topological properties for gene and protein sets in molecular interaction networks. Different topological characteristics, such as the centrality of nodes in the network or their tendency to form clusters, can be computed and compared with those of known cellular ...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
ژورنال
عنوان ژورنال: PLoS ONE
سال: 2013
ISSN: 1932-6203
DOI: 10.1371/journal.pone.0055635