Activity for Proteomics Standards Initiative
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Eric Deutsch posted a comment on ticket #73
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]...
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Paul M Thomas posted a comment on ticket #73
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.
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John S. Garavelli posted a comment on ticket #73
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.
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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
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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
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Valerie Wood created ticket #73
NTR: glutaminylation ?
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Valerie Wood created ticket #72
proline isomerization
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Pablo Porras created ticket #384
New terms added
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MI:0524 tem edit
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"disrupting-ptm" needs adding to drop-down menu
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This is currently managed using the feature name field. Probably not ideal in the...
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New RNA interactions-related terms
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New RNA interactions-related terms
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New RNA interactions-related terms
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New term: Active site labeling
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I have just commited the following 'site-labelling protection' to the CV. Please...
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I have just commited the following 'site-labelling protection' to the CV. Please...
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new term: quartz crystal microbalance
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Created term 'quartz crystal microbalance' (MI:2196), using the definition proposed...
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Lukasz Salwinski created ticket #382
new term: quartz crystal microbalance
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Hi. No, that's pretty much it. Just notice that 'conditional site labelling' currently...
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Hi. No, that's pretty much it. Just notice that 'conditional site labelling' currently...
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ok, so it looks like we will end up with: MI:0401:biochemical | probe interaction...
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'site-labelling protection' seems to be quite specific as it is applicable only to...
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'site-labelling protection' seems to be quite specific as it is applicable only to...
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Pablo, 'site-labelling protection' seems to be quite specific as it is applicable...
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Hi Lukasz, First, I put a copy of this and your previous email in sourceforge so...
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I'm afraid it won't cut it - 'proximity labelling technology' is defined as: 'Methods...
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Currently we have the term "conditional site labelling', which has the related synonym...
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Y-3-H change definition to be more inclusive?
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Currently we have the term "conditional site labelling', which has the related synonym...
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ClipSeq /CRAC
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Added Gerben's suggestions
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added original submission zip archive for refer...
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Added todos for the example file
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Added a TODO text file
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accepted tracked changed and clarified insertion.
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removed non-OBO format comments at bottom and t...
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added examine from original submission. this ha...
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Pierre-Alain Binz committed [r634]
added draft15
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One more problem with inhibitory/negative 3 hybrid is that it would describe 3-body...
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New term: Active site labeling
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CLASH
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This issue handled with the batch of terms created in issue #379.
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Posted on behalf of Simona Panni: In general I was trying to reduce the number of...
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The following terms have been created: CLIP, MI:2191 Combination of cross-linking...
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Posted in behalf of Simona Panni: In general I was trying to reduce the number of...
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Hi Simona, I was having a look at your method requests and I have a question. Concerning...
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import peff sub directories
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import peff sub directories
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import peff sub directories
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Create peff directory
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simona panni created ticket #380
CLASH
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ClipSeq /CRAC
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LncRNA entry needed please
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Done, assigned MI:2190 code. Pablo.
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new qualifier=part_of
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margaret duesbury created ticket #377
LncRNA entry needed please
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New terms: conditional site labelling, BiLC, CODA-RET
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Kinase exclusion assay
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par_clip
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The new term "subset" (MI:2179) has been created to solve this issue. Cheers, Pa...
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par_clip
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Birgit Meldal created ticket #375
new qualifier=part_of
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Hi, I would rather leave the definition of 3 hybird as it is and use it exclusively...
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Y-3-H change definition to be more inclusive?
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New terms: conditional site labelling, BiLC, CODA-RET
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New terms: conditional site labelling, BiLC, CODA-RET
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Kinase exclusion assay
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"soultion" needs latering to "solution"
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Sorted.
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sorry about spelling mistake!
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"soultion" needs latering to "solution"
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Vladimir Gorshkov created ticket #71
Dimethyl labeling - heavy
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TAG: G1-spin label
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Main chain uniquitination ?
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TAG: SNAP-tag
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interaction detection method: hydrophobic interaction chromatography (HIC)
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Sandra Orchard modified ticket #366
AU5 tag
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MI:1353
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uracil interference assay - new cv term
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kroey created ticket #367
uracil interference assay - new cv term
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Proteomics Standards Initiative released /OldFiles/mzdata.xsd
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Anna Melidoni created ticket #366
AU5 tag
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Done.
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LUMIER term update (MI:0729)
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Done.
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add 'inferred-from' as xref qualifier
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MI:1351
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new db orphanet
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MI:1350
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new CV: ChEMBL target
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MI:1348 ChEMBl entry also updated
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Marine Dumousseau committed [r629]
updated to latest snapshots
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