Shawn Rynearson
Hi all, I have a question and/or suggestion regarding the annotation of mobile element integration sites. We are developing de novo transposable element (TE) annotation software which output their results...
Definition: Has a separate non-coding transcript that hosts non-coding microRNAs such as like MIRs. I am not sure where this might fit in the SO or indeed whether you may...
Hi, 1. Can SO:0000325 rRNA_large_subunit_primary_transcript have the synonym "35S rRNA primary transcript"? It can be a narrow synonym if there are other large subunit primary transcripts of different sizes (the...
would like to annotate some tRNA modifications and possibly features and Midori Harris suggested that we (PomBase) could use the SOM ontology developed by Colin Batchelor. I'd therefore like to...
Providing a predicate to link an instance of a SO experimental feature with Evidence Code Ontology. For example, a CAGE_cluster has evidence code http://purl.org/obo/owl/obo#ECO_0000309.
The current definition of ‘gene’ is “a sequence region (or regions) that includes all of the sequence elements necessary to encode a functional transcript. A gene may include regulatory regions,...
The current definition of ‘sequence alteration’ is “a sequence_feature whose extent is the deviation from another sequence” There has historically been some confusion between ‘sequence alteration’ and ‘sequence variant’. To...
The current definition of ‘sequence variant’ is “a non exact copy of a sequence_feature or genome exhibiting one or more sequence_alteration” A. As suggested for ‘sequence alterations’, SO should clarify...
## New feature publishDir is noted as operating in an '_asynchronous manner_', which often is the preferred method of transfer. However this can cause issues when transferring a file type...
I've added a return type and a dockerfile. Review the changes and let me know what you think.