for analysis of non‐model organisms - Kan-E/RNAseqChef GitHub Wiki

When non-model organism is selected as a dataset 'Species', the 'Ortholog' window can be available to fully utilize the functional annotations of the closely related model organism.

There are the following issues with the annotation of non-model organisms.

• There are lots of genes not annotated in non-model organisms but annotated in model organisms.
• The number of genes linked to model organisms was different among species.

e.g. there are approximately 5000 genes that are not annotated in naked mole-rat but are annotated in human. The number of such annotated genes is different among species (in the case of naked mole-rat, mouse > human).

In the versions later than v1.0.8, the following species can be selected as 'Ortholog': "Homo sapiens", "Mus musculus", "Rattus norvegicus", "Bos taurus","Canis lupus familiaris","Danio rerio","Gallus gallus","Macaca mulatta", and "Pan troglodytes" for the analysis of animals; "Drosophila melanogaster" and "Caenorhabditis elegans" for the analysis of metazoa; "Saccharomyces cerevisiae" for the analysis of fungi; "Arabidopsis thaliana" for the analysis of plants.

Note: Gene ID conversion depends on biomaRt. The biomaRt has rarely encountered an unexpected server error. When you get above error message, please try using a different 'biomart host' or try again later.