Of genes in your list belonging to a pathway, divided by the corresponding percentage in theīackground. Fold Enrichment is defined as the percentage Large number of pathways from various public databases.įDR is calculated based on nominal P-value from the hypergeometric test. For the 20 most studied species, we also manually collected a Our gene ID mapping and pathwayĭata are mostly derived from these two sources. Overlapping terms/pathways, protein-protein interaction networks, gene characterristics plots, and enriched promoter motifs.Īll query genes are first converted to ENSEMBL gene IDs or STRING-db protein IDs.
KEGG pathway diagrams with your genes highlighted, hierarchical clustering trees and networks summarizing (including bacteria and fungi) are annotated based on STRING-db (v.11). Just paste your gene list to get enriched GO terms and othe pathways for over 420 plant and animal species,īased on annotation from Ensembl, Ensembl plants and Ensembl Metazoa. A graphical tool for gene enrichment analysis To request to add a new species/genome, fill in thisįorm. Its database includes several custom genomes requested by users. 11, 2022: Like ShinyGO but your genome is not covered? If this server is busy, please use a mirror severįor questions, suggestions or data contributions.įeb. Such as G:profiler, Enrichr, STRING-db, and DAVID. Please always double check your results with other tools Pasted Ensembl gene IDs to ShinyGO 0.76 between Apand Jan.
Without funding, ShinyGO might 19, 2023: Thanks to a user's feedback, we found a serious bugĪs some genes are represented by multiple gene IDs in Ensebml, they are counted more Also include anyįeatures requests such as multiple gene sets. If you briefly state your general research area and how ShinyGOįacilitates your work, including major findings, We are working on a grant proposal (deadline June 5th) to redevelop,
We also included 14,094 species from STRING-DB 11.5. Thanks to Jenny's hardwork, we update to Ensembl releaseġ07 which includes 620 species: 215 main, 177 metazoa, 124 plants, 33 protists and 1 bacteria.
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