Difference between revisions of "PAINT 2014 Summer Jamboree Kickoff Meeting Logistics"

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(Monday, July 28th)
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=====1:30pm - 5:30pm=====
 
=====1:30pm - 5:30pm=====
 
Jamboree
 
Jamboree
 +
 +
====Discussion and Action Items====
 +
'''Discussion of specific Panther families'''
 +
* PTHR13348 - Li brought up a question for PTHR13348 where the Annotation tab is showing a single ID in the with field for the "protein binding" annotation even though there are actually three ID's listed in the with field in MGI's annotation. Suzi explained that this is a parsing issue that the with field is so irregular that when there are more than one with ID's for a single annotated gene with the same reference, only one is displayed. This is not trivial to change. We agreed to accept this as an issue to be aware of as is.
 +
* PTHR24073 - Karen brought up a question about this family, which is the Rab GTPase superfamily. The family is huge (>2700 sequences) with a duplication node near the top. The majority of the nodes immediately below the duplication node clearly represent major classes of Rab proteins, e.g. Rab2's, Rab21's, Ift27's, Ift22's. Having scanned through the tree and annotated genes, in some clades, there is experimental evidence for "GTPase activity". However, in others, there is only evidence for "GTP binding" and/or "GDP binding". Karen asked about how to handle this family, specifically
 +
 +
 +
1. ACTION ITEM (Suzi) - In PAINT, clicking on links within the Annotations tab should NOT recenter, but clicking on a term in the\
 +
Annotation matrix should recenter to the LCA
 +
 +
2. ACTION ITEM (Karen) - Update the PAINT User Guide with info about committing an "In Progress" family, include link to web view\
 +
of SVN log messages.
 +
 +
3. ACTION ITEM (Suzi/Paul) - update/modify the upcoming Jenkins report
 +
 +
4. ACTION ITEM (Suzi) - send out contact info for people to let know about when you see a bunch of partial sequences
  
 
===Tuesday, July 29th===
 
===Tuesday, July 29th===

Revision as of 17:02, 28 July 2014

Dates

  • July 28-31, 2014

Hotels

Five hotels are within a 15-30 minute walk to the meeting venue. Ordered below by price per night, lowest to highest.

  1. Hotel California
  2. Cardinal Hotel
  3. Stanford Terrace Inn
  4. Sheraton Palo Alto Hotel
  5. Westin Palo Alto

Venue

3165 Porter Dr, Palo Alto, CA
Room 1118 (downstairs)

Porter Drive is not on campus, it is off of Page Mill Road.

There is plenty of free parking in the front and rear of the building.

Agenda

Monday, July 28th

9:00am - 12:00pm

Introduction

12:00-1:30pm

Lunch

1:30pm - 5:30pm

Jamboree

Discussion and Action Items

Discussion of specific Panther families

  • PTHR13348 - Li brought up a question for PTHR13348 where the Annotation tab is showing a single ID in the with field for the "protein binding" annotation even though there are actually three ID's listed in the with field in MGI's annotation. Suzi explained that this is a parsing issue that the with field is so irregular that when there are more than one with ID's for a single annotated gene with the same reference, only one is displayed. This is not trivial to change. We agreed to accept this as an issue to be aware of as is.
  • PTHR24073 - Karen brought up a question about this family, which is the Rab GTPase superfamily. The family is huge (>2700 sequences) with a duplication node near the top. The majority of the nodes immediately below the duplication node clearly represent major classes of Rab proteins, e.g. Rab2's, Rab21's, Ift27's, Ift22's. Having scanned through the tree and annotated genes, in some clades, there is experimental evidence for "GTPase activity". However, in others, there is only evidence for "GTP binding" and/or "GDP binding". Karen asked about how to handle this family, specifically


1. ACTION ITEM (Suzi) - In PAINT, clicking on links within the Annotations tab should NOT recenter, but clicking on a term in the\

Annotation matrix should recenter to the LCA

2. ACTION ITEM (Karen) - Update the PAINT User Guide with info about committing an "In Progress" family, include link to web view\

of SVN log messages.

3. ACTION ITEM (Suzi/Paul) - update/modify the upcoming Jenkins report

4. ACTION ITEM (Suzi) - send out contact info for people to let know about when you see a bunch of partial sequences

Tuesday, July 29th

9:00pm - 10:00pm

Daily kickoff discussion

10:00am - 12:00pm

Jamboree

12:00-1:30pm

Lunch

1:30pm - 5:30pm

Jamboree

Wednesday, July 30th

9:00pm - 10:00pm

Daily kickoff discussion

10:00am - 12:00pm

Jamboree

12:00-1:30pm

Lunch

1:30pm - 5:30pm

Jamboree

Thursday, July 31st

9:00pm - 10:00pm

Daily kickoff discussion

10:00am - 12:00pm

Jamboree

12:00-1:30pm

Lunch

1:30pm - 4:30pm

Closing and wrap up

Participants

Name Organization

Li Ni

MGI, JAX

Suzi Lewis

LBL

Moni Munoz-Torres

LBL

Paul Thomas

USC

Judy Blake

MGI, JAX

Karen Christie

MGI, JAX

Kimberley Van Auken

WormBase, Caltech

Rama Balakrishnan

SGD, Stanford

Pascale Gaudet

SIB

Huaiyu Mi

USC

Marc Feuermann

SIB

Remote Attendees

  • We will have Webex to share our presentations/desktop. I will send the invitation to the go-discuss mailing list.
  • For voice/audio we will use the GO Conference line (1866 953 9688, code: 801561#).