Next generation software for functional trend analysis
By G. Berriz, John E. Beaver, Can Cenik, Murat Tasan, Frederick P. Roth. Bioinform., 2009
296 citations recorded by the source corpus.
Subfields: Molecular Biology
View Paper: https://www.semanticscholar.org/paper/ccdf7754634e44457cbfa81f04b5d952b3b007b4
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In Molecular Biology
- Jure Leskovec
- Albert-László Barabási
- Jörg Menche
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- Marc Vidal
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- Ge Gao
- Lei Kong
Citations in the corpus
- Identification of diagnostic subnetwork markers for cancer in human protein-protein interaction network (2010, methodology): “Next, we analyzed the identified subnetworks using FuncAssociate [26], which is a web application designed for characterizing large collections of genes and proteins.”
- Overlapping Communities Explain Core–Periphery Organization of Networks (2014, methodology): “6 CONCLUSION In closing, we note that our approach builds on the previous work on community detection [6], [7], [8], [9], [10], [11], [12], [13], [14], [15], [16].”
- g:Profiler—a web server for functional interpretation of gene lists (2016 update) (2016, unknown): “Tools such as Panther (14), FuncAssociate (15) and GOrilla (16) aim to support the analysis of many species, while others such as WebGestalt (17) focus on the convenient mapping of diverse gene identifiers.”
- KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases (2011, background): “Most of them focus on identification of enriched functional categories based on Gene Ontology (GO) (7), such as FuncAssociate (8), Ontologizer (9), BiNGO (10), FatiGO (11), GOToolBox (11) and GFinder (12).”
- Selecting causal genes from genome-wide association studies via functionally-coherent subnetworks (2014, methodology): “Functional enrichment analyses were performed using the FuncAssociate tool 29 .”
- Integrating personalized gene expression profiles into predictive disease-associated gene pools (2017, methodology): “We only use high confidence annotations associated with the evidence codes EXP, IDA, IMP, IGI, IEP, ISS, ISA, ISM or ISO and further remove all associations with a non-empty “qualifier” column.(39) Since the provided GO files only contain the most specific annotations explicitly, we add all implicit”