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DC Field | Value | Language |
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dc.citation.endPage | 3285 | - |
dc.citation.number | 10 | - |
dc.citation.startPage | 3283 | - |
dc.citation.title | BIOINFORMATICS | - |
dc.citation.volume | 36 | - |
dc.contributor.author | Kim, Jinhwan | - |
dc.contributor.author | Yoon, Sora | - |
dc.contributor.author | Nam, Dougu | - |
dc.date.accessioned | 2023-12-21T17:38:03Z | - |
dc.date.available | 2023-12-21T17:38:03Z | - |
dc.date.created | 2020-06-26 | - |
dc.date.issued | 2020-05 | - |
dc.description.abstract | A Summary: We present an R-Shiny package, netGO, for novel network-integrated pathway enrichment analysis. The conventional Fisher's exact test (FET) considers the extent of overlap between target genes and pathway gene-sets, while recent network-based analysis tools consider only network interactions between the two. netGO implements an intuitive framework to integrate both the overlap and networks into a single score, and adaptively resamples genes based on network degrees to assess the pathway enrichment. In benchmark tests for gene expression and genome-wide association study (GWAS) data, netGO captured the relevant gene-sets better than existing tools, especially when analyzing a small number of genes. Specifically, netGO provides user-interactive visualization of the target genes, enriched gene-set and their network interactions for both netGO and FET results for further analysis. For this visualization, we also developed a standalone R-Shiny package shinyCyJS to connect R-shiny and the JavaScript version of cytoscape. | - |
dc.identifier.bibliographicCitation | BIOINFORMATICS, v.36, no.10, pp.3283 - 3285 | - |
dc.identifier.doi | 10.1093/bioinformatics/btaa077 | - |
dc.identifier.issn | 1367-4803 | - |
dc.identifier.scopusid | 2-s2.0-85084692775 | - |
dc.identifier.uri | https://scholarworks.unist.ac.kr/handle/201301/33025 | - |
dc.identifier.url | https://academic.oup.com/bioinformatics/article/36/10/3283/5728635 | - |
dc.identifier.wosid | 000537447900054 | - |
dc.language | 영어 | - |
dc.publisher | OXFORD UNIV PRESS | - |
dc.title | netGO: R-Shiny package for network-integrated pathway enrichment analysis | - |
dc.type | Article | - |
dc.description.isOpenAccess | FALSE | - |
dc.relation.journalWebOfScienceCategory | Biochemical Research Methods; Biotechnology & Applied Microbiology; Computer Science, Interdisciplinary Applications; Mathematical & Computational Biology; Statistics & Probability | - |
dc.relation.journalResearchArea | Biochemistry & Molecular Biology; Biotechnology & Applied Microbiology; Computer Science; Mathematical & Computational Biology; Mathematics | - |
dc.type.docType | Article | - |
dc.description.journalRegisteredClass | scie | - |
dc.description.journalRegisteredClass | scopus | - |
dc.subject.keywordPlus | FUNCTIONAL GENE NETWORKS | - |
dc.subject.keywordPlus | DATABASE | - |
dc.subject.keywordPlus | V2 | - |
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