KOBAS 2.0: a web server for annotation and identification of enriched pathways and diseases

By C. Xie, Xizeng Mao, Jiajun Huang, Yang Ding, Jianmin Wu, Shan Dong, Lei Kong, Ge Gao, Chuan-Yun Li, Liping Wei. Nucleic Acids Res., 2011

4,363 citations recorded by the source corpus.

High-throughput experimental technologies often identify dozens to hundreds of genes related to, or changed in, a biological or pathological process. From these genes one wants to identify biological pathways that may be involved and diseases that may be implicated. Here, we report a web server, KOBAS 2.0, which annotates an input set of genes with putative pathways and disease relationships based on mapping to genes with known annotations. It allows for both ID mapping and cross-species sequence similarity mapping. It then performs statistical tests to identify statistically significantly enriched pathways and diseases. KOBAS 2.0 incorporates knowledge across 1327 species from 5 pathway databases (KEGG PATHWAY, PID, BioCyc, Reactome and Panther) and 5 human disease databases (OMIM, KEGG DISEASE, FunDO, GAD and NHGRI GWAS Catalog). KOBAS 2.0 can be accessed at http://kobas.cbi.pku.edu.cn.

Subfields: Molecular Biology

View Paper: https://www.semanticscholar.org/paper/8a8babcd688b82323b9da4f6c06a413494cc4bbb

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In Molecular Biology

1. Jaak Vilo
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Citations in the corpus

• TSGene: a web resource for tumor suppressor genes (2012, methodology): “Biological features of 637 protein-coding TSGs in humans As the majority of TSGs are protein-coding genes (637 human protein-coding TSGs in Supplementary Table S1), we performed the pathway enrichment and disease association analyses to obtain general insight into their biological features using the”
• g:Profiler: a web server for functional enrichment analysis and conversions of gene lists (2019 update) (2019, methodology): “There are a several functional enrichment analysis tools such as Enrichr (1), WebGestalt (2), Metascape (3), KOBAS (4) and AgriGO (5) suitable for positioning the novel findings against the body of previous knowledge.”