ReactomeGSA
How to extract the genes associated with the enriched pathways from ReactomeGSA results? The excel file contains only the enriched pathways without the associated genes.
reactomegsa
• 371 views
•
link
written
by
Shaimaa Gamal •
0 answers
No answers yet.
Log in to answer this question.
More posts like this
-
Extract directionality from Reactome
written by Nikolas •Hi everyone. I am trying to extract some simple directionality for the Reactome pathways, i.e. simple information of the type: Protein A activates Protein B …
-
API kegg - IndexError: list index out of range
written by mirwa.zidi93 •Hi, I have an Excel table with gene symbols listed under the column "Symbol" (e.g., AKR1A1, adh) and their corresponding functions listed under the column …
-
extracting a gene from a gmt file
written by BogdanDear all, Starting from a conversation at : https://bioinformatics.stackexchange.com/questions/5400/how-to-convert-data-in-gmt-format-to-dataframe, would you please advise: Given a gmt file, how could extract the pathways that are associated …
-
Creating bed file for gene specific variant extraction from VCF file
written by karthick.n •Hi, I need to extract variants from VCF file for ACMG genes. I tried to create bed file from UCSC browser. But the bed file …
-
GSEA analysis RNA-seq data
written by Marco Pannone •Hello! I am performing the GO/pathway analysis of my RNA-seq data using GSEA. I have many DEGs, about 3000 in total, and I got many …
-
Question about selection of pathways to inhibit
written by rob.costa1234I have an RNAseq results of drug treated vs control cells and performed pathways analysis with Up an down regulated genes. What I am trying …
-
Reactome Pathway Analysis Error
written by ulapei •Hi, I am trying to perform Pathway Analysis using ''Reactome PA'' package. The results I get do not include any Enriched Terms, even though it …
-
Interpreting Chip Seq Results
written by benjyrollsHello I performed a ChIP Seq experiment and performed these steps MACS, CEAS, Gene Ontology Enrichment with GREAT . I have some enriched terms as …
-
Low Coverage in Pathway Enrichment Analysis using DAVID
written by hpw9 •<p>From a list of 3000 significantly differentially expressed genes (from a universe of 20000 genes using RNAseq gene expression data), I used DAVID Functional Annotation …
-
Extracting List Of Genes Associated With A Pathway In Kegg
written by Dataminer<p>Hi!</p> <p>Is their a way to extract a list of genes present in a KEGG pathway.</p> <p>For instance if I want to extraxct list of …