Post by abhishek on Feb 19, 2022 0:52:14 GMT -5
I'm using the latest version of DAVID Knowledgebase (v2021q4, Available at david-d.ncifcrf.gov) for enrichment of a set of genes that I have. Using the Functional Annotation Table tool, I could download the annotations for the entire set of genes. However, the annotations obtained for few genes, particluarly from KEGG PATHWAY seem to be invalid. For instance, there is a gene in my dataset with Entrez Gene ID: 13389684. DAVID returned the following KEGG PATHWAY terms for this gene.
While cross-checking these pathways in KEGG, I found that all of these pathways (in fact a lot of pathways obtained for few other genes too!) are invalid. e.g this is what KEGG returns for ldo05208
According to the release notes, DAVID has integrated the October 1, 2021 release of KEGG database (Release 100.0) so technically it shouldn't return obsolete pathways. Is this an anomaly in DAVID or am I doing something wrong?
ldo00190:Oxidative phosphorylation,
ldo04260:Cardiac muscle contraction,
ldo04714:Thermogenesis,
ldo04932:Non-alcoholic fatty liver disease,
ldo05010:Alzheimer disease,
ldo05012:Parkinson disease,
ldo05014:Amyotrophic lateral sclerosis,
ldo05016:Huntington disease,
ldo05020:Prion disease,
ldo05022:Pathways of neurodegeneration - multiple diseases,
ldo05208:Chemical carcinogenesis - reactive oxygen species,
ldo05415:Diabetic cardiomyopathy,
While cross-checking these pathways in KEGG, I found that all of these pathways (in fact a lot of pathways obtained for few other genes too!) are invalid. e.g this is what KEGG returns for ldo05208
According to the release notes, DAVID has integrated the October 1, 2021 release of KEGG database (Release 100.0) so technically it shouldn't return obsolete pathways. Is this an anomaly in DAVID or am I doing something wrong?