Difference between revisions of "WBConfCall 2023.03.16-Agenda and Minutes"
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* Caltech created a parallel PubMed search pipeline and paper editor UI for WormBase Parasite | * Caltech created a parallel PubMed search pipeline and paper editor UI for WormBase Parasite | ||
* Is this still being used? | * Is this still being used? | ||
| + | |||
| + | - Discussion was what should be done with the Lit. branch for ParaSite. Dionysis will take a look and discuss with Kimberly. | ||
== Grants for AI/ML Readiness of Data == | == Grants for AI/ML Readiness of Data == | ||
* [https://grants.nih.gov/grants/guide/notice-files/not-od-23-082.html NOT-OD-23-082- Administrative Supplements to Support Collaborations to Improve the AI/ML-Readiness of NIH-Supported Data] | * [https://grants.nih.gov/grants/guide/notice-files/not-od-23-082.html NOT-OD-23-082- Administrative Supplements to Support Collaborations to Improve the AI/ML-Readiness of NIH-Supported Data] | ||
* Proposal(s) from WB? | * Proposal(s) from WB? | ||
| + | |||
| + | - NIH/NLM provide supplements for making data FAIR or ready for AI/ML ingestion, and proposals can be quite open and broad as there's no consensus from the funding agencies on what is the best approach. Gene ontology seems like a good initial candidate. | ||
| + | |||
| + | - Other MODs can also work on getting supplemental funding | ||
== Bob Waterston single cell data == | == Bob Waterston single cell data == | ||
| Line 26: | Line 32: | ||
* Bob said it looks great - also shared with his lab and John Murray | * Bob said it looks great - also shared with his lab and John Murray | ||
* He asks if i)use log scale ii)display above CenGen and iii) if we want the L2 dataset from the 2017 paper in a similar format | * He asks if i)use log scale ii)display above CenGen and iii) if we want the L2 dataset from the 2017 paper in a similar format | ||
| + | |||
| + | - on i) there are dose discussions on how to setup a log display and some possibilities will be discussed and checked on the JS graphing library | ||
| + | - on ii) CenGen should be on top as it's the latests data available | ||
| + | - on iii) we might consider requesting the data and working on a similar display | ||
| + | |||
| + | More discussions: | ||
| + | - labelling/values consistency with CenGen graphs | ||
| + | - embryonic cell on top of lineage | ||
| + | - display/link static images | ||
| + | |||
| + | == New items == | ||
| + | |||
| + | * Paul brought up a discussion on adding new genomes/species to WormBase, including setting up Tier 1, 2 species. This discussion should be done in conjunction to WB's advisory board and meeting(s) should be scheduled in order for the conversations and plan to be defined. | ||
Latest revision as of 16:18, 16 March 2023
Contents
Agenda
Help Desk
1. Cristian Riccio (Miska Lab): whole genome assemblies of 18 wild isolates. Should we host?
- Sarah contacted Cristian, who works in Cambridge and she will provide more information. One option is to provide JBrowse tracks.
IWM 2023
- Who is going?
- Roster will be created to line up speakers, presentations, etc. - Pre registration is May 2nd' - travel funds were discussed
Alliance/Caltech Literature
- Caltech created a parallel PubMed search pipeline and paper editor UI for WormBase Parasite
- Is this still being used?
- Discussion was what should be done with the Lit. branch for ParaSite. Dionysis will take a look and discuss with Kimberly.
Grants for AI/ML Readiness of Data
- NOT-OD-23-082- Administrative Supplements to Support Collaborations to Improve the AI/ML-Readiness of NIH-Supported Data
- Proposal(s) from WB?
- NIH/NLM provide supplements for making data FAIR or ready for AI/ML ingestion, and proposals can be quite open and broad as there's no consensus from the funding agencies on what is the best approach. Gene ontology seems like a good initial candidate.
- Other MODs can also work on getting supplemental funding
Bob Waterston single cell data
- Data on staging
- Bob said it looks great - also shared with his lab and John Murray
- He asks if i)use log scale ii)display above CenGen and iii) if we want the L2 dataset from the 2017 paper in a similar format
- on i) there are dose discussions on how to setup a log display and some possibilities will be discussed and checked on the JS graphing library - on ii) CenGen should be on top as it's the latests data available - on iii) we might consider requesting the data and working on a similar display
More discussions: - labelling/values consistency with CenGen graphs - embryonic cell on top of lineage - display/link static images
New items
- Paul brought up a discussion on adding new genomes/species to WormBase, including setting up Tier 1, 2 species. This discussion should be done in conjunction to WB's advisory board and meeting(s) should be scheduled in order for the conversations and plan to be defined.
