Genes2FANs: connecting genes through functional association networks
R Dannenfelser, NR Clark, A Ma'ayan - BMC bioinformatics, 2012 - Springer
Background Protein-protein, cell signaling, metabolic, and transcriptional interaction
networks are useful for identifying connections between lists of experimentally identified …
networks are useful for identifying connections between lists of experimentally identified …
A human functional protein interaction network and its application to cancer data analysis
Background One challenge facing biologists is to tease out useful information from massive
data sets for further analysis. A pathway-based analysis may shed light by projecting …
data sets for further analysis. A pathway-based analysis may shed light by projecting …
Genes2Networks: connecting lists of gene symbols using mammalian protein interactions databases
Background In recent years, mammalian protein-protein interaction network databases have
been developed. The interactions in these databases are either extracted manually from low …
been developed. The interactions in these databases are either extracted manually from low …
[HTML][HTML] FunCoup 5: functional association networks in all domains of life, supporting directed links and tissue-specificity
Abstract FunCoup (https://funcoup. sbc. su. se) is one of the most comprehensive functional
association networks of genes/proteins available. Functional associations are inferred by …
association networks of genes/proteins available. Functional associations are inferred by …
Genome-wide functional association networks: background, data & state-of-the-art resources
The vast amount of experimental data from recent advances in the field of high-throughput
biology begs for integration into more complex data structures such as genome-wide …
biology begs for integration into more complex data structures such as genome-wide …
Whole-genome annotation by using evidence integration in functional-linkage networks
The advent of high-throughput biology has catalyzed a remarkable improvement in our
ability to identify new genes. A large fraction of newly discovered genes have an unknown …
ability to identify new genes. A large fraction of newly discovered genes have an unknown …
Human interactome resource and gene set linkage analysis for the functional interpretation of biologically meaningful gene sets
X Zhou, P Chen, Q Wei, X Shen, X Chen - Bioinformatics, 2013 - academic.oup.com
Motivation: A molecular interaction network can be viewed as a network in which genes with
related functions are connected. Therefore, at a systems level, connections between …
related functions are connected. Therefore, at a systems level, connections between …
Extending gene ontology with gene association networks
Motivation: Gene ontology (GO) is a widely used resource to describe the attributes for gene
products. However, automatic GO maintenance remains to be difficult because of the …
products. However, automatic GO maintenance remains to be difficult because of the …
A novel network-based method for measuring the functional relationship between gene sets
Motivation: In the functional genomic era, a large number of gene sets have been identified
via high-throughput genomic and proteomic technologies. These gene sets of interest are …
via high-throughput genomic and proteomic technologies. These gene sets of interest are …
[PDF][PDF] Using the Gene Ontology tool to produce de novo protein-protein interaction networks with IS_A relationship
GS Oliveira, AR Santos - Genet Mol Res, 2016 - funpecrp.com.br
Since the first assembled genomes, gene sequences alone have not been sufficient to
understand complex metabolic processes involving several genes, each playing distinct …
understand complex metabolic processes involving several genes, each playing distinct …