WBConfCall 2020.02.06-Agenda and Minutes

Agenda

Advisory Board Meeting

any dates/etc.?

RNASeq Meta-Data for AGR

what are the plans?

• The EWG (high-throughput) has been discussing what kind of meta-data information to include for AGR 3.0. We will probably finalize the information table next Monday. Here is the meta-data table that we are looking at:

https://docs.google.com/spreadsheets/d/1H7bzMJVj6KevZHDGp61tCCdRo8ubHHzEKWaYu_7gn-w/edit#gid=0

Help Desk

• Alaska memory bug?

Is there a link from WormBase to Alaska, and an announcement about its function?

WormBase resources for non-coding RNA

• Is it possible that Hinxton gives Caltech a tutorial on what kind of curation and resources that WormBase has for non-coding RNA? It will be very helpful for us to answer help-desk questions and future on-site tutorials. A zoom meeting will be good.

---

---

Minutes

CalTech F2F meeting

• Need PS for this, but not on the call

SAB:

• Can teleconference for the grant and NIH

F2F:

• What do people want? Project meeting?
• AceDB datomic? - what do we want to do.
• Would be good to get together, could have a documentation session
• Punt this to the next call
• Have document of things to discuss as a group.
• What don't we want to discuss?
• Same room: Technical direction for the alliance Also curation priorities. Rebalancing what to prioritise, to produce a revised plan.

July 2018 OICR last one

Aim for F2F by June 2020 - California or alternative.

Doodle for meeting dates - April / May

Doc for agenda/topics

RNASeq meta data

• Mentioned in the DQM
• currently curated at both HX and CalTech
  • Need to have a working procedure.
  • Been through the whole table...almost have finalised schema - would be good to have the schema in the database
  • Deadline for V3 was last friday, but poss can add data in.
  • Wen will comunicate with Hinxton.

Alaska

• Project to J & Raymond working with Post Doc and UG student
• Post Doc moved on not sure of student support
• Not in state where WB can take it on?
• WB only getting bugs as Joseph put help@wormbase.org as contact
• Premature to release and link to WB.

RNA resources

Wen - added, not confident about answering HD issues. Chris will be giving a talk so background would be good.

HelpDesk questions should be answering by HX

• Onsite meetings - Would be good to have knowledge provided to CalTech
• Some summarisation in the grant application.
• HX could create a tutorial with help from others about data mining etc.
• Persue feedback to drill down
• linking data types to references
• Follow with a blog

Open Floor

Molecules

• WormBase approached by Frank Schroeder + Others about having Molecules that don't have chemical structures

but do have Chem formula and retention times and MS peaks

• Karen working with this
• Molecule model update to store this.
• PD will help with model
• Retention times will need in-relation-to markers so all 4 groups will work from common protocols
• Questions people will want to know is what is there in the rel retention range that has these peaks
• People aren't going to synthesize and work out all 20k compounds
• Storage 1st then mining and analysis tools.
• Groups are competing so would be good for WB to bring data together

Widget feedback

• Adam - Several widgets are being developed to replace existing function
• Homology
• more widgets

To make comments on open tickets on the github for these.