Difference between revisions of "WBConfCall 2023.05.04-Agenda and Minutes"
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** Link out to their web site and analysis tools (planned) | ** Link out to their web site and analysis tools (planned) | ||
** Inclusion on http://single-cell.wormbase.org/ | ** Inclusion on http://single-cell.wormbase.org/ | ||
+ | *** if we have the files in .h5ad format we can try to set it up | ||
** Likely house keeping genes | ** Likely house keeping genes | ||
+ | *** these could be brought in via expression cluster | ||
** Makers used for cell cluster ID | ** Makers used for cell cluster ID | ||
+ | *** integrate into anatomy pages | ||
** Ligand-receptor expression informed cell-cell interaction | ** Ligand-receptor expression informed cell-cell interaction | ||
+ | *** for this and the following items Hinton does not have enough manpower to deal with it | ||
** Transcription factor code per cell type | ** Transcription factor code per cell type | ||
** cis-acting sites for cell types | ** cis-acting sites for cell types | ||
Line 20: | Line 24: | ||
* Booth | * Booth | ||
** received this morning an email from the contractor for booth logistics | ** received this morning an email from the contractor for booth logistics | ||
− | ** carpeting | + | *** carpeting |
− | ** electrical | + | *** electrical and extension cords |
− | ** furniture | + | **** Stavros Sarah can bring some extension cords |
+ | *** furniture | ||
+ | **** Sarah and Stavros can bring camping chairs | ||
* Swag | * Swag | ||
** General WB swag | ** General WB swag | ||
** Community curation swag | ** Community curation swag | ||
+ | ** microPublication swag | ||
+ | ** https://docs.google.com/document/d/1v8bCoL2Qy9hNQmJ57YOccg8HkmKXclulugfnYwGU7lM/edit | ||
+ | * Workshop | ||
+ | ** Scott will be remote | ||
+ | ** Check in with Todd if he can give the tools talk | ||
+ | |||
+ | == Orthology == | ||
+ | * Alliance and WB results differ, that influences the gene descriptions | ||
+ | * Need a manual assertion of homology using manually written concise descriptions? | ||
+ | |||
+ | == Name Server == | ||
+ | * Any update on this, Todd? | ||
+ | |||
+ | == Caltech server with WormBase name == | ||
+ | Valerio will test, then write to Todd |
Latest revision as of 17:22, 4 May 2023
Contents
Agenda and Minutes
HelpDesk
scRNA from Whole-body gene expression atlas of an adult metazoan
- Web site https://wormseq.org/
- Curatable data (need to decide what to take on)
- Interactive graph TPM / % cell expressing per gene (planned)
- Enriched gene set per cell (planned)
- Link out to their web site and analysis tools (planned)
- Inclusion on http://single-cell.wormbase.org/
- if we have the files in .h5ad format we can try to set it up
- Likely house keeping genes
- these could be brought in via expression cluster
- Makers used for cell cluster ID
- integrate into anatomy pages
- Ligand-receptor expression informed cell-cell interaction
- for this and the following items Hinton does not have enough manpower to deal with it
- Transcription factor code per cell type
- cis-acting sites for cell types
IWM
- Booth
- received this morning an email from the contractor for booth logistics
- carpeting
- electrical and extension cords
- Stavros Sarah can bring some extension cords
- furniture
- Sarah and Stavros can bring camping chairs
- received this morning an email from the contractor for booth logistics
- Swag
- General WB swag
- Community curation swag
- microPublication swag
- https://docs.google.com/document/d/1v8bCoL2Qy9hNQmJ57YOccg8HkmKXclulugfnYwGU7lM/edit
- Workshop
- Scott will be remote
- Check in with Todd if he can give the tools talk
Orthology
- Alliance and WB results differ, that influences the gene descriptions
- Need a manual assertion of homology using manually written concise descriptions?
Name Server
- Any update on this, Todd?
Caltech server with WormBase name
Valerio will test, then write to Todd