Difference between revisions of "WBConfCall 2022.03.03-Agenda and Minutes"
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==Agenda== | ==Agenda== | ||
| + | |||
| + | * New Hinxton WormBase GTL: Sarah Dyer | ||
* Follow-up to BioCyc presentation | * Follow-up to BioCyc presentation | ||
** From Peter K: "we would be open to discussing further with you the idea of inserting WormCyc pathway diagrams in Wormbase pages." | ** From Peter K: "we would be open to discussing further with you the idea of inserting WormCyc pathway diagrams in Wormbase pages." | ||
** Next steps? | ** Next steps? | ||
| + | WormBase can add an embedded image (we need an API endpoint). PS. We should discuss/consider about doing that for AGR as well. | ||
* Helpdesk | * Helpdesk | ||
| + | ** All clear | ||
| + | There were some power issues with Caltech causing some services to be down. Currently trying to make them more persistent (AWS). | ||
| + | SimpleMine discussion: Wen will send some AGR-related SimpleMine tickets to Magz. | ||
| + | |||
| + | |||
| + | * CGC data exchange revamp [Paul D] | ||
| + | ** Issues/Fixes | ||
| + | *** Long time since it was run and had support | ||
| + | *** Sanger MySQL NS retired - decoupled as lots of false +ves generates tmp_Ids for manual review. | ||
| + | *** Transgene IDs - The data retrieval and processing broken : Caltech-side Curation write-up [https://wiki.wormbase.org/index.php/Transgenes#CGC_Transgenes_from_Strain_via_Hinxton here] | ||
| + | *** Sanger->EBI - Infrastructure dependencies | ||
| + | *** CGC_data format - subtle changes over time broke the parser | ||
| + | ** EBI->CalTech | ||
| + | *** Start sending Transgene report (to Karen) | ||
| + | *** Author info report.....what should we do with this? | ||
* WS285 schema | * WS285 schema | ||
** 2 changes: | ** 2 changes: | ||
| − | ** Wen - Expression_cluster tag for Single_Cell_RNASeq //Wen WS285 for CenGen data | + | *** Wen - Expression_cluster tag for Single_Cell_RNASeq //Wen WS285 for CenGen data |
| − | ** Daniela - Expression model tag removals | + | *** Daniela - Expression model tag removals |
** Schedule: | ** Schedule: | ||
| − | ** Models release Friday/Monday March 04/07 | + | *** Models release Friday/Monday March 04/07 |
| − | ** Data freeze Monday March 28) | + | *** Data freeze Monday March 28) |
| + | ** Baer lab data ingest, possibly coming for WS285, ~1000 C. elegans spontaneous mutation accumulation (some interim data will be sent from Charlie. We'll investigate how we can add it to WB). | ||
| + | ** Any other new data for WS285? | ||
| + | |||
| + | * WS284 news [Magz] | ||
| + | ** 90 miRNA gene clusters from MirGeneDB - see issue #8466 for web-display | ||
| + | ** AlphaFold links | ||
| + | A web-ticket will be created for AlphaFold from PD. | ||
Latest revision as of 17:17, 3 March 2022
Agenda
- New Hinxton WormBase GTL: Sarah Dyer
- Follow-up to BioCyc presentation
- From Peter K: "we would be open to discussing further with you the idea of inserting WormCyc pathway diagrams in Wormbase pages."
- Next steps?
WormBase can add an embedded image (we need an API endpoint). PS. We should discuss/consider about doing that for AGR as well.
- Helpdesk
- All clear
There were some power issues with Caltech causing some services to be down. Currently trying to make them more persistent (AWS). SimpleMine discussion: Wen will send some AGR-related SimpleMine tickets to Magz.
- CGC data exchange revamp [Paul D]
- Issues/Fixes
- Long time since it was run and had support
- Sanger MySQL NS retired - decoupled as lots of false +ves generates tmp_Ids for manual review.
- Transgene IDs - The data retrieval and processing broken : Caltech-side Curation write-up here
- Sanger->EBI - Infrastructure dependencies
- CGC_data format - subtle changes over time broke the parser
- EBI->CalTech
- Start sending Transgene report (to Karen)
- Author info report.....what should we do with this?
- Issues/Fixes
- WS285 schema
- 2 changes:
- Wen - Expression_cluster tag for Single_Cell_RNASeq //Wen WS285 for CenGen data
- Daniela - Expression model tag removals
- Schedule:
- Models release Friday/Monday March 04/07
- Data freeze Monday March 28)
- Baer lab data ingest, possibly coming for WS285, ~1000 C. elegans spontaneous mutation accumulation (some interim data will be sent from Charlie. We'll investigate how we can add it to WB).
- Any other new data for WS285?
- 2 changes:
- WS284 news [Magz]
- 90 miRNA gene clusters from MirGeneDB - see issue #8466 for web-display
- AlphaFold links
A web-ticket will be created for AlphaFold from PD.
