Difference between revisions of "WBConfCall 2020.02.06-Agenda and Minutes"

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(Created page with "= Agenda = == Placeholder == * Comment ------------- ------------- = Minutes = == Placeholder == * Comment")
 
 
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= Agenda =  
 
= Agenda =  
  
== Placeholder ==
+
== Advisory Board Meeting ==
* Comment
+
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. 
  
 
-------------
 
-------------
Line 12: Line 23:
 
= Minutes =
 
= Minutes =
  
== Placeholder ==
+
== CalTech F2F meeting ==
* Comment
+
* 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.

Latest revision as of 18:39, 6 February 2020

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.