2018 Berkeley GO Docathon

Agenda (Draft)

Rooms

• 153 has been reserved on Tuesday, January 23rd. 248 is reserved for the other 4 days.

Monday, January 22nd

• Noctua landing page - click on About link at upper right
• Noctua Quick Start Guide
• [https://docs.google.com/document/d/18ihslb7prB6CWtu2yjF-pMHZBTY1-AdXJAu-ZyuyXS4/edit# GO-CAM Guidelines (this is the old Google doc)
  • Relations - definitions, examples

Tuesday, January 23rd

• GO-CAM Guidelines
  • Relations - definitions, examples
  • Reasoning, inferred annotations
  • Use of evidence
• GO-CAM Paper
• Annotation File Pipelines
  • File submissions
  • Jenkins jobs and reports
  • GO rules

Wednesday, January 24th

• GOC website - move more detailed documentation off of the website, but provide links to internal (i.e. wiki or readthedocs) pages
  • Annotation Guidelines - use GO handbook chapters wherever possible
    • Overall GO philosophy
    • Annotation of specific areas of biology, e.g. apoptosis, signaling, transcription
      • Give GO-CAM examples wherever possible
    • Annotation of specific types of experiments, e.g. ChIP
    • Types of gene products, e.g. transmembrane proteins
    • Evidence Codes
    • Annotation Extension
    • File Format Guide

Thursday, January 25th

• GOC website - move more detailed documentation off of the website, but provide links to internal (i.e. wiki or readthedocs) pages
  • FAQs
  • Ontology Documentation
  • GO Database

Friday, January 26th

• GOC website - move more detailed documentation off of the website, but provide links to internal (i.e. wiki or readthedocs) pages
  • Annotation Tools, Downloads, and Beyond
  • Contributing to GO
  • Submitting GO Annotations
  • Other Useful Links

Logistics

Accommodations

• http://www.fourpointssanfranciscobaybridge.com/

There are two ways travelers can secure their reservation:

1. By Phone- 1-800-325-3535 and mention "Gene Ontology" 2. Via the Web- https://www.starwoodmeeting.com/Book/GeneOntology

Getting there:

• shuttle from MacArthur BART

Taxis also available from either MacArthur or Ashby

Parking

We will try to reserve as many spots outside the front entrance as we can. Look for spots that say "GO meeting". if you see one, take it.

If there is none available, don't worry. Park temporarily and grab a parking pass from the person at the gate, you can then park in the garage:

• http://biosciopsatberkeley.lbl.gov/location/aquatic-park-office/

Meeting Location

Berkeley Lab, Aquatic Park Offices

Lawrence Berkeley National Laboratory (LBNL), Aquatic Park office of Biosciences Operations at Berkeley Physical address: 717 Potter Street, Berkeley, CA 94710

Meeting room: room 181

Travel between hotel and meeting

• Walk, 1.3 miles
• Free Hollis Shuttle
• Taxi/Lyft/Uber

Aim to be at the lab for 9am

Participants

Name	Organization	Comments
David Hill	Jackson Laboratory
Kimberly Van Auken	Caltech
Pascale Gaudet	SIB Swiss Institute of Bioinformatics
Huaiyu Mi	USC

LBL:

• Chris Mungall
• Eric Douglass
• Seth Carbon
• Suzi Lewis