Hi John, no need to migrate PSI-MOD to GitHub, it is already there! https://github.com/HUPO-PSI/psi-mod-CV Can you help with an outstanding issue: https://github.com/HUPO-PSI/psi-mod-CV/issues/5 Do you have the script that generates the XML from the OBO? If so, would you share it? If you send me your GitHub username, I can add you to the organization. Thanks! Eric From: John S. Garavelli jsgaravelli@users.sourceforge.net Sent: Monday, February 10, 2020 10:16 PM To: [psidev:mod-controlled-vocab-changes]...
John, I've got this in a pull request over on GitHub now. https://github.com/HUPO-PSI/psi-mod-CV/pull/8/commits/c8e93731d382e173db311856755357848b3c7666 Didn't know that RESID was still going. Happy to integrate those new RESID terms into PSI-MOD.
Thanks for bringing the Glutaminylation modification to my attention. I am trying to migrate the PSI-MOD to GitHub. I will check that report, prepare entries for RESID and PSI-MOD and notify you of the pending entry identifiers.
Hi Val, (crossposting this to both sites) This isn't currently in the PSI-MOD CV, but certainly should be! It would be similar to MOD:01970, but with a glutaminyl in place of the glutamyl. I'll create the pull request over on github to add this modification. Paul
Hi Val, we are now maintaining PSI-MOD over on GitHub, This site is now obsolete. I have posted your issue here: https://github.com/HUPO-PSI/psi-mod-CV/issues/9 I hope that it will be addressed very soon. Please continue the discussion there and create new term requests as GitHub issues over there. thanks! Eric
NTR: glutaminylation ?
proline isomerization
New terms added
MI:0524 tem edit
"disrupting-ptm" needs adding to drop-down menu
This is currently managed using the feature name field. Probably not ideal in the...
New RNA interactions-related terms
New RNA interactions-related terms
New RNA interactions-related terms
New term: Active site labeling
I have just commited the following 'site-labelling protection' to the CV. Please...
I have just commited the following 'site-labelling protection' to the CV. Please...
new term: quartz crystal microbalance
Created term 'quartz crystal microbalance' (MI:2196), using the definition proposed...
new term: quartz crystal microbalance
Hi. No, that's pretty much it. Just notice that 'conditional site labelling' currently...
Hi. No, that's pretty much it. Just notice that 'conditional site labelling' currently...
ok, so it looks like we will end up with: MI:0401:biochemical | probe interaction...
'site-labelling protection' seems to be quite specific as it is applicable only to...
'site-labelling protection' seems to be quite specific as it is applicable only to...
Pablo, 'site-labelling protection' seems to be quite specific as it is applicable...
Hi Lukasz, First, I put a copy of this and your previous email in sourceforge so...
I'm afraid it won't cut it - 'proximity labelling technology' is defined as: 'Methods...
Currently we have the term "conditional site labelling', which has the related synonym...
Y-3-H change definition to be more inclusive?
Currently we have the term "conditional site labelling', which has the related synonym...
ClipSeq /CRAC
Added Gerben's suggestions
added original submission zip archive for refer...
Added todos for the example file
Added a TODO text file
accepted tracked changed and clarified insertion.
removed non-OBO format comments at bottom and t...
added examine from original submission. this ha...
added draft15
One more problem with inhibitory/negative 3 hybrid is that it would describe 3-body...
New term: Active site labeling
CLASH
This issue handled with the batch of terms created in issue #379.
Posted on behalf of Simona Panni: In general I was trying to reduce the number of...
The following terms have been created: CLIP, MI:2191 Combination of cross-linking...
Posted in behalf of Simona Panni: In general I was trying to reduce the number of...
Hi Simona, I was having a look at your method requests and I have a question. Concerning...
import peff sub directories
import peff sub directories
import peff sub directories
Create peff directory
CLASH
ClipSeq /CRAC
LncRNA entry needed please
Done, assigned MI:2190 code. Pablo.
new qualifier=part_of
LncRNA entry needed please
New terms: conditional site labelling, BiLC, CODA-RET
Kinase exclusion assay
par_clip
The new term "subset" (MI:2179) has been created to solve this issue. Cheers, Pa...
par_clip
new qualifier=part_of
Hi, I would rather leave the definition of 3 hybird as it is and use it exclusively...
Y-3-H change definition to be more inclusive?
New terms: conditional site labelling, BiLC, CODA-RET
New terms: conditional site labelling, BiLC, CODA-RET
Kinase exclusion assay
"soultion" needs latering to "solution"
Sorted.
sorry about spelling mistake!
"soultion" needs latering to "solution"
Dimethyl labeling - heavy
TAG: G1-spin label
Main chain uniquitination ?
TAG: SNAP-tag
interaction detection method: hydrophobic interaction chromatography (HIC)
AU5 tag
MI:1353
uracil interference assay - new cv term
uracil interference assay - new cv term
AU5 tag
Done.
LUMIER term update (MI:0729)
Done.
add 'inferred-from' as xref qualifier
MI:1351
new db orphanet
MI:1350
new CV: ChEMBL target
MI:1348 ChEMBl entry also updated
updated to latest snapshots