Difference between revisions of "WBConfCall 2022.03.17-Agenda and Minutes"
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** We'll also have reciprocal links | ** We'll also have reciprocal links | ||
** [https://docs.google.com/document/d/1E88K6t2lY2UODy9l3gf9v5AnikZKvoHmyK-krAsvVX8/ Minutes] | ** [https://docs.google.com/document/d/1E88K6t2lY2UODy9l3gf9v5AnikZKvoHmyK-krAsvVX8/ Minutes] | ||
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+ | ==== Minutes ==== | ||
=== Bob Waterson single cell embryo data === | === Bob Waterson single cell embryo data === |
Revision as of 03:20, 19 March 2022
Contents
Agenda
Help Desk
- Julie Ahringer asking for a genome-wide mapping of all Ahringer RNAi clones (sjj_* and sjj2_* ?PCR_Product objects) to identify, according to our primary and secondary RNAi mapping criteria, which genes are predicted to be knocked down by each clone
- Hinxton are in touch with her to scope out the size and timing of the work.[MZ]
Minutes
Julia Ahringer
- Need to have RNAi objects in database
- Mapping data could be included with the RNAi object or separately.
- Need to come up with an official schema for storing this data
- Deciding on making this a one of or something that we do every release
- Making it for each release is something that would help users as it has come up in many helpdesk tickets over the years (Chris Grove)
- If we show this data we will need to make sure it is clear to the user that the information was generated in-silico
- This could be made as a Micro Publication to make sure users use the data correctly
- Would entail generating a bolus of mappings between RNA and Gene Targets
Two open tickets:
- https://github.com/WormBase/website/issues/8570 Cells in C. elegans are roughly 3–30 ... (Still not responded to)
- https://github.com/WormBase/website/issues/8571 Add links to single cell tools in "Tools" menu #8571 (since the meeting has been responded to)
BioCyc-WB Links
- Report back from follow-up meeting last Thursday with Peter Karp:
- BioCyc will make available pathway images that WB will display, initially, on gene and molecule pages
- We'll also have reciprocal links
- Minutes
Minutes
Bob Waterson single cell embryo data
- Bob asking if interested in displaying the single cell embryo data from their 2019 Science paper in WormBase
- He has large tables of the tpms per cell type and for the lineage as well as the percent of cells expressing. * He made graphs of these, not interactive
- Could go in the 'Single cell gene expression graphs' section, where Sibyl put in CenGen Data. https://wormbase.org/species/c_elegans/gene/WBGene00001170#c13--10
- Can Web Team display the Bob's graphs, too?
- if we have the data we can generate a similar graph
- If they offer static images we could bring in as images or the Web Team can display directly on the 'Single cell gene expression graphs' section
- Daniela to talk to Todd and see what is the best way forward
- If we get raw data we can display as CenGen, may be able to reuse Sibyl's code
- Quickly get static images in is #1 priority