Feed aggregator

GO-CAM Conference Call - 2019-01-22

GO wiki (new pages) - Mon, 01/21/2019 - 17:44

Vanaukenk: /* Agenda */

= Meeting URL =
https://stanford.zoom.us/j/976175422

= Agenda =
* Review of Noctua form
** [http://wiki.geneontology.org/index.php/Noctua#Creating_a_new_model_using_the_Noctua_form Guidelines for using the Noctua form]
** What constitutes a model?

= Minutes =
*On call:



[[Category: Annotation]] [[Category:Working Groups]] Vanaukenk
Categories: GO Internal

Manager Call 2019-01-23

GO wiki (new pages) - Fri, 01/18/2019 - 09:46

Suzialeksander: Created page with "= Meeting URL = https://stanford.zoom.us/j/754529609 = Agenda = == Upcoming Meetings == Cambridge (11-12 April) - any developments? === Next working meeting === *Next wee..."

= Meeting URL =
https://stanford.zoom.us/j/754529609

= Agenda =

== Upcoming Meetings ==

Cambridge (11-12 April) - any developments?

=== Next working meeting ===

*Next week, Berkeley (28 Jan- 1 Feb)
**Review more [https://docs.google.com/document/d/1C2LbGdWpN70XbhmLmaFDivC1_9TFwn0KDO6RC6HuxQE/edit detailed meeting agenda]

== Reactome pipeline ==

From https://github.com/geneontology/helpdesk/issues/97

Reactome is double-ingested, natively and via Reactome->GOA->GOC. Decide between:
# remove reactome from the pipeline and assume we get these from goa
# filter from goa

== New website ==

Test site at: http://test.geneontology.io

Final critical items https://github.com/geneontology/go-site/issues/789


[[Category:GO Consortium]] [[Category:GO Managers Meetings ]] Suzialeksander
Categories: GO Internal

Ontology meeting 2019-01-21

GO wiki (new pages) - Thu, 01/17/2019 - 07:13

David: Created page with "Call cancelled. US holiday Category: Ontology Category: Meetings"

Call cancelled. US holiday




[[Category: Ontology]]
[[Category: Meetings]] David
Categories: GO Internal

Manager Call 2019-01-16

GO wiki (new pages) - Tue, 01/15/2019 - 17:42

Cjm: Created page with "= Meeting URL = https://stanford.zoom.us/j/754529609 = Agenda = == 2018 Progress Report == *Anything more needed here? == Upcoming Meetings == === Next working meeting ==..."

= Meeting URL =
https://stanford.zoom.us/j/754529609

= Agenda =

== 2018 Progress Report ==

*Anything more needed here?

== Upcoming Meetings ==

=== Next working meeting ===

*Last week of January (Berkeley)
*Pre-hackathon call this week

== New website ==

Test site at: http://test.geneontology.io
Final critical items https://github.com/geneontology/go-site/issues/789



[[Category:GO Consortium]] [[Category:GO Managers Meetings ]] Cjm
Categories: GO Internal

GO-CAM Conference Call - 2019-01-14

GO wiki (new pages) - Mon, 01/14/2019 - 16:37

Vanaukenk: /* Agenda */

= Meeting URL =
*https://stanford.zoom.us/j/976175422

= Agenda =
*From 2019-01-07 annotation conference call:
**Import of whole genomes
***Working meeting at Berkeley the end of this month
***WormBase and MGI will be the first genome annotation sets to be imported
****gp2term relations
****evidence and annotation extensions
****search, display, editing
****gpad output
****overall data flow
****documentation
**Continued discussion of modeling questions
***Annotation of protein complexes and their respective members
****When to annotate to a complex vs making each individual MF just 'part of' the same process?
****[https://docs.google.com/document/d/1MssCGE45H3IFHvVq9y7BUo9Brw5bIwXnOSl7efPf1fI/edit Nuclear Pores Regulate Muscle Development and Maintenance by Assembling a Localized Mef2C Complex]
***Instance-level representation
***When to annotate to the same 'instance' of a biological process vs different 'instances'?
***Modeling from multiple species
***Creating a model for one species when the evidence derives from experiments in multiple species
**Import of Reactome pathways
***Glycolysis
***MAPK
***BMP
***Wnt
***ER-UPR
**Model manipulation
***Generation and use of templates
***Merging models
***Copying and/or re-using annotations

= Minutes =
*On call:















[[Category: Annotation]] [[Category:Working Groups]] Vanaukenk
Categories: GO Internal

GO-CAM and Noctua 2019 Agenda and Minutes

GO wiki (new pages) - Mon, 01/14/2019 - 16:36

Vanaukenk:

*[[GO-CAM Conference Call - 2019-01-15]]






[[Category: Annotation]] [[Category:Working Groups]] Vanaukenk
Categories: GO Internal

Ontology meeting 2019-01-14

GO wiki (new pages) - Fri, 01/11/2019 - 08:56

David: /* And Projects */

= Conference Line =

*Zoom: https://stanford.zoom.us/j/828418143

= Agenda =

==Meetings==

===GOC Meeting Cambridge===

*GOC meeting - Cambridge, UK April 11th - 12th (right after ISB meeting)

==Discussion topics==

===Let's Review Pull Requests===
https://github.com/geneontology/go-ontology/pulls

===And Projects===
https://github.com/geneontology/go-ontology/projects

===Other business===

* https://github.com/geneontology/go-ontology/projects/1

= Minutes =
*On call:





[[Category: Ontology]]
[[Category: Meetings]] David
Categories: GO Internal

2019 Cambridge GOC Meeting Logistics

GO wiki (new pages) - Thu, 01/10/2019 - 09:55

Valwood:

=GOC Meeting, Cambridge , April 11th - 12th, 2019=

* Location:
** [http://www.unicen.cam.ac.uk/ Cambridge University Centre], Hicks Room.


==Registration==
* Please register at: XXXXXXXXX at [http://www.unicen.cam.ac.uk/ Cambridge University Centre], Hicks Room.
* The meeting will be £XXX in total. Please bring cash (GBP). You will receive an invoice upon payment at registration.


==Planned Schedule==


==Meeting Venue and Directions==
* Address Granta Place, Mill Lane, Cambridge, CB2 1RU
** [https://map.cam.ac.uk/University+Centre#52.201128,0.116362,18 Map]

=Arriving=

==By Plane==

(see taxi options from airport in section below)
====Arriving from London Heathrow airport====

The bus is the cheapest option from Heathrow Airport: there is an hourly bus to Cambridge which leaves from stops at both Heathrow Central Bus Station and Terminal 5. You can check the [http://www.nationalexpress.com/home.aspx National Express website] for timetables and prices. The journey takes around two hours and arrives at [https://www.google.co.uk/maps/place/Parkside,+Cambridge+CB1+1JE/@52.2033603,0.127031,17z/data=!3m1!4b1!4m5!3m4!1s0x47d87090f452bfc3:0x7edb60c4a5b37510!8m2!3d52.203357!4d0.1292197 Parkside, Parker's Piece].

A faster way to travel would be via taking the London Underground Piccadilly line from the airport to London King's Cross. You can then travel by train from London King's Cross station to Cambridge (the train ticket is approximately £20).

Another option to reach King's Cross is to take the [https://www.heathrowexpress.com/ Heathrow Express] to Paddington station and change to the London Underground Circle or Hammersmith & City lines. Note that this option is more expensive (around £25, plus £20 for the King's Cross-Cambridge trip) and not much faster than the underground one. If you arrive during the weekend and you book well in advance you may find cheaper tickets for the Heathrow Express service.

However you reach King's Cross, the trip from there to Cambridge, depending on which train you pick, takes between 50 minutes to 1h and 20 minutes. Add at least 20 minutes to this if you plan to use this occasion to take a picture at Platform 9¾, as there will most certainly be a queue!

You can check trains and times from King's Cross at [http://www.nationalrail.co.uk/default.aspx http://www.nationalrail.co.uk/default.aspx].

====Arriving from London Stansted airport====
This is the nearest airport to Cambridge, an around 30 minute trip.
Depending on your time of arrival, you will find every half an hour or hourly a direct train to Cambridge, which takes approximately 30 minutes to reach the town. The cost of a one-way ticket is £10. You can check trains and times on [http://www.nationalrail.co.uk/default.aspx http://www.nationalrail.co.uk/default.aspx]. You can also download the [https://www.thetrainline.com/ trainline app] on your phone if you want to get e-tickets directly on your device. Just remember to activate the ticket before going on the train.

An alternative to the train for arriving in Cambridge from Stansted is via using the National Express coach service. You can check [http://www.nationalexpress.com/home.aspx their website] for times and prices. The airport bus stops at [https://www.google.co.uk/maps/place/Parkside,+Cambridge+CB1+1JE/@52.2033603,0.127031,17z/data=!3m1!4b1!4m5!3m4!1s0x47d87090f452bfc3:0x7edb60c4a5b37510!8m2!3d52.203357!4d0.1292197 Parkside, Parker's Piece].

====Arriving from London Luton airport====
You can go to the [http://www.nationalexpress.com/home.aspx National Express website] to see timetables and prices of buses from Luton to Cambridge. The ride takes approximately 2 hours. The airport bus stops at [https://www.google.co.uk/maps/place/Parkside,+Cambridge+CB1+1JE/@52.2033603,0.127031,17z/data=!3m1!4b1!4m5!3m4!1s0x47d87090f452bfc3:0x7edb60c4a5b37510!8m2!3d52.203357!4d0.1292197 Parkside, Parker's Piece].

====Arriving from London Gatwick airport====
The best way to get from London Gatwick airport to Cambridge is to take the train. There is a frequent service from Gatwick to St. Pancras station, which is adjacent to King's Cross station, where you can catch a train to Cambridge. Check train timetables from Luton at [http://www.nationalrail.co.uk/default.aspx http://www.nationalrail.co.uk/default.aspx].


'''''N.B. If you arrive at Cambridge via train, you will need your train ticket to exit the station.'''''

==Taxis==

If you prefer to reach Cambridge from any airport via a taxi transfer, a company that we can suggest is [http://www.kenwaycars.co.uk/ Kenway]. You can make a booking enquiry through their website or by sending an email to info@kenwaycars.org, specifying airport, flight number, and a destination address.

If you need a taxi company once in Cambridge, you can use companies like [https://www.panthertaxis.co.uk/ Panther taxi] (01223 715715) or [http://www.camcab.co.uk/ Camcab] (01223 704704). There is Uber in Cambridge, but since the taxis are quite cheap, a Uber ride can often cost the same or more (in rush hours) than a regular taxi ride.

==From London City Center==

In case you are going to spend some time in London before coming to Cambridge, you have a few options for coming here.

====By Train====

Cambridge is directly connected to London King's Cross and London Liverpool Street.
You can check trains and times at [http://www.nationalrail.co.uk/default.aspx http://www.nationalrail.co.uk/default.aspx] and download the [https://www.thetrainline.com/ trainline app] on your phone if you want to get e-tickets directly on your device.

'''''N.B. If you arrive at Cambridge via train, you will need your train ticket to exit the station.'''''

====By Bus====

Check [http://www.nationalexpress.com/home.aspx National Express website] to see timetables and info. The bus services stop on [https://www.google.co.uk/maps/place/Parkside,+Cambridge+CB1+1JE/@52.2033603,0.127031,17z/data=!3m1!4b1!4m5!3m4!1s0x47d87090f452bfc3:0x7edb60c4a5b37510!8m2!3d52.203357!4d0.1292197 Parkside, Parker's Piece].

====By Car====

If you arrive by car a suggestion would be to use the Park and Ride services (details at [http://cambridgeparkandride.info/ http://cambridgeparkandride.info/]), as parking in Cambridge is a nightmare.

=Attendees=
Please add your name to the table if you intend to attend the meeting, the dinner (Tuesday), so we can get a headcount estimate.
{| {{Prettytable}} class='sortable'
|-
! Name
! Organization
! Are you planning to attend the GOC meeting
|-
| Valerie Wood
| PomBase (Cambridge)
| Yes
|-
|}

NOT attending (please indicate if you will attend remotely):



= Group Photo =



=Remote Attendance=

Please join us via Zoom.

* https://stanford.zoom.us/j/976175422

* iPhone one-tap (US Toll): +18333021536,,976175422# or +16507249799,,976175422#
*Telephone:
** +1 650 724 9799 (US, Canada, Caribbean Toll) or +1 833 302 1536 (US, Canada, Caribbean Toll Free).
** UK toll free +44 (0) 80 0031 5717.
** Switzerland toll free +41 800 002 622

* Meeting ID: 976 175 422

=Accommodations=

To follow

=Food and drinks=

In Cambridge there are many restaurants, of many kinds. In fact, it can get really difficult to pick one! Here are some suggestions, to make your life a bit easier. Please keep in mind that, since the meeting will be in the first week of the University term, you may have some trouble in getting tables in some places.

*[http://www.themillworks.co.uk/ Millworks]: really close to the meeting venue. They define themselves as "an eclectic modern brasserie". You can get good food while being close to the river Cam.

*[http://www.anchorcambridge.com/ The Anchor]: also close to the meeting venue, serving traditional British pub grub. Pink Floyd had their first gigs in this pub. If you are lucky you can get a table with a nice view over the river.

*[http://vedanta-cambridge.co.uk/ Vedanta]: very good Indian restaurant on Regent street, but small, so it's good to book in advance!

*[http://www.thehouseauthenticthai.com/cambridge/home.html The House]: a good and cheap Thai restaurant, again on Regent Street.

*[http://www.eagle-cambridge.co.uk/ The Eagle]: the pub where Francis Crick announced on February 28th, 1953 that he and James Watson had "discovered the secret of life" (the structure of the DNA).

*[http://www.aromi.co.uk/ Aromi]: in case you want to have a slice of Italian pizza and a good coffee, maybe together with some Sicilian cannoli or some ice cream. There are two Aromi restaurants in the city centre, very close to each other, and they sell different products. They are both usually very busy!

*[http://www.sticksnsushi.co.uk/restaurants/cambridge.html Sticks'n'sushi]: Japanese restaurant in the city centre, with nice sushi and a cool atmosphere. A bit on the pricey side.

*[https://www.iguanas.co.uk/restaurants/cambridge Las Iguanas]: Latin American restaurant on Quayside with a vibrant atmosphere. Always with a 2-for-1 cocktail offer, in case you just want to go there for drinks. It does get a bit noisy with loud music, so not great if you look for something quiet.

*[https://thaikhun.co.uk/ Thaikhun]: in case you still want to stay in the Quayside area, this is a good Thai restaurant, still with an interesting vibe, but quieter

*[http://www.sixcambridge.co.uk/ Six]: if the weather is good, you can get a nice view of Cambridge, either from the rooftop bar, or from the restaurant that is on the floor right under the bar (so, unlike the bar, it's covered).

What constitutes a good coffee is of course really subjective, but here are some suggestions in case you are desperate:

*[http://www.aromi.co.uk/ Aromi]
*[https://caffenero.com/uk/en/ Caffé Nero]
*[http://www.savinos.co.uk/contactUs.php Savino's]
*[http://www.fitzbillies.com/ Fitzbillies] (also good for an afternoon tea)
*[http://hotnumberscoffee.co.uk/land Hot Numbers] [https://www.google.co.uk/maps/place/Hot+Numbers+Coffee/@52.1992715,0.121472,15z/data=!4m8!1m2!2m1!1sHot+Numbers,+Unit+6+Dale's+Brewery,+Gwydir+Street,+Cambridge,,+,+,+gb!3m4!1s0x47d870988d4c481b:0xc97ca0e02fb73288!8m2!3d52.1984856!4d0.1219986 Map]
*If you prefer, we also have a few [https://www.starbucks.co.uk/store-locator?map=52.204051,0.121294,15z Starbucks] in Cambridge!

= Local activities =


[[Category: GO Consortium Meetings]] Valwood
Categories: GO Internal

Manager Call 2019-01-09

GO wiki (new pages) - Tue, 01/08/2019 - 10:23

David: Created page with "*https://stanford.zoom.us/j/754529609 = Agenda = == Abstract for biocuration == * What has been submitted? * Who is attending ISB (Please add here)? **Suzi A **Kimberly V..."

*https://stanford.zoom.us/j/754529609

= Agenda =


== Abstract for biocuration ==
* What has been submitted?

* Who is attending ISB (Please add here)?
**Suzi A
**Kimberly VA


==Next hackathon==
Last week of January (LA or Berkeley?)

Proposed aims (David, Kimberly, Pascale):
* import of legacy annotations & GP2term relations
** also for importing legacy annotations - mapping existing annotation extensions to GO-CAM models

# We will follow up by email, but it is looking like late February.

==GOC Meeting in Cambridge==
Scheduled for two full days April 11-12.
Should we go ahead and book travel?

= Minutes =
*On call:



[[Category:GO Consortium]] [[Category:GO Managers Meetings ]] David
Categories: GO Internal

Annotation Conf. Call 2019-01-08

GO wiki (new pages) - Mon, 01/07/2019 - 06:28

Vanaukenk: /* Annotation Review */

= Agenda =
== 2019 ==
=== Annotation Group Priorities ===
==== Annotation Review ====
*Annotation to regulation terms - what does GO mean by 'regulation'?

==== Topic-Specific Projects ====
==== GO-CAM/Noctua ====
==== Documentation ====
*Relations and their use in annotation

=== Meetings ===
==== Consortium Meetings ====
*GOC meeting - Cambridge, UK April 11th - 13th (right after ISB meeting)
*GOC meeting - Berkeley, CA October 7th - 10th ???

==== Working Meetings ====
*Whole genome import - CA January 28th - February 1st

= Minutes =
*On call:

[[Category:Annotation Working Group]] Vanaukenk
Categories: GO Internal

Annotation Call 2019 Agenda and Minutes

GO wiki (new pages) - Mon, 01/07/2019 - 06:28

Vanaukenk: Created page with "* Annotation Conf. Call 2019-01-08 Category:Annotation Working Group"

* [[Annotation Conf. Call 2019-01-08]]



[[Category:Annotation Working Group]] Vanaukenk
Categories: GO Internal

Ontology meeting 2019-01-07

GO wiki (new pages) - Fri, 01/04/2019 - 09:00

David:

= Conference Line =

*Zoom: https://stanford.zoom.us/j/828418143

= Agenda =

==Meetings==

===GOC Hackathon===

==Discussion topics==

===Analysis of plant enzymes===

* At the Geneva meeting we noticed that the definitions of the MF terms that Harold added recently did not match either the EC xref or the MetaCyc xref.
** Harold will report on the extent of the problem.
** To handle this, should we keep the MFs as originally defined and add parent terms that correspond to the correct EC's if they don't exist? This would allow us to classify these with respect to Rhea as well.

===Addition of new has_input subclasses===
* https://github.com/geneontology/go-ontology/pull/16797
* David will set up a meeting with Jim and Kimberly to finalize the work on this project.

===Other business===

* https://github.com/geneontology/go-ontology/projects/1

= Minutes =
*On call:





[[Category: Ontology]]
[[Category: Meetings]] David
Categories: GO Internal

Ontology editors' conference call minutes 2019

GO wiki (new pages) - Wed, 01/02/2019 - 08:09

David: Created page with "*Jan 7 *Jan 14 *Jan 21 *Jan 28 *Ontology meet..."

*[[Ontology meeting 2019-01-07|Jan 7]]
*[[Ontology meeting 2019-01-14|Jan 14]]
*[[Ontology meeting 2019-01-21|Jan 21]]
*[[Ontology meeting 2019-01-28|Jan 28]]
*[[Ontology meeting 2019-02-04|Feb 4]]
*[[Ontology meeting 2019-02-11|Feb 11]]
*[[Ontology meeting 2019-02-18|Feb 18]]
*[[Ontology meeting 2019-02-25|Feb 25]]
*[[Ontology meeting 2019-03-04|Mar 4]]
*[[Ontology meeting 2019-03-11|Mar 11]]
*[[Ontology meeting 2019-03-18|Mar 18]]
*[[Ontology meeting 2019-03-25|Mar 25]]
*[[Ontology meeting 2019-04-01|Apr 1]]
*[[Ontology meeting 2019-04-08|Apr 8]]
*[[Ontology meeting 2019-04-15|Apr 15]]
*[[Ontology meeting 2019-04-22|Apr 23]]
*[[Ontology meeting 2019-04-29|Apr 29]]
*[[Ontology meeting 2019-05-06|May 6]]
*[[Ontology meeting 2019-05-13|May 13]]
*[[Ontology meeting 2019-05-20|May 20]]
*[[Ontology meeting 2019-06-03|Jun 3]]
*[[Ontology meeting 2019-06-10|Jun 10]]
*[[Ontology meeting 2019-06-17|Jun 17]]
*[[Ontology meeting 2019-06-24|Jun 24]]
*[[Ontology meeting 2019-07-01|Jul 01]]
*[[Ontology meeting 2019-07-08|Jul 08]]
*[[Ontology meeting 2019-07-15|Jul 15]]
*[[Ontology meeting 2019-07-22|Jul 22]]
*[[Ontology meeting 2019-07-29|Jul 29]]
*[[Ontology meeting 2019-08-05|Aug 05]]
*[[Ontology meeting 2019-08-12|Aug 12]]
*[[Ontology meeting 2019-08-19|Aug 19]]
*[[Ontology meeting 2019-08-26|Aug 26]]
*[[Ontology meeting 2019-09-09|Sep 09]]
*[[Ontology meeting 2019-09-16|Sep 16]]
*[[Ontology meeting 2019-09-23|Sep 23]]
*[[Ontology meeting 2019-09-30|Sep 30]]
*[[Ontology meeting 2019-10-07|Oct 07]]
*[[Ontology meeting 2019-10-14|Oct 14]]
*[[Ontology meeting 2019-10-21|Oct 21]]
*[[Ontology meeting 2019-10-28|Oct 28]]
*[[Ontology meeting 2019-11-04|Nov 04]]
*[[Ontology meeting 2019-11-11|Nov 11]]
*[[Ontology meeting 2019-11-18|Nov 18]]
*[[Ontology meeting 2019-11-25|Nov 25]]
*[[Ontology meeting 2019-12-02|Dec 02]]
*[[Ontology meeting 2019-12-09|Dec 09]]
*[[Ontology meeting 2019-12-16|Dec 16]]
*[[Ontology meeting 2019-12-23|Dec 24]]



[[Category:Meetings]]
[[Category:Ontology]] David
Categories: GO Internal

Ontology meeting 2018-12-17

GO wiki (new pages) - Mon, 12/17/2018 - 06:41

David: Created page with "= Conference Line = *Zoom: https://stanford.zoom.us/j/828418143 = Agenda = ==Meetings== ===Ontology Developers' workshop=== * '''Agenda''': https://docs.google.com/documen..."

= Conference Line =

*Zoom: https://stanford.zoom.us/j/828418143

= Agenda =

==Meetings==

===Ontology Developers' workshop===
* '''Agenda''': https://docs.google.com/document/d/1ixnmDZ75cFFdGN9H6CY5hyRkoPrCn6MvZVmERo_--Rw/edit

==Discussion topics==

===Progress Report===
* Priorities for next year.

= Minutes =
*On call:





[[Category: Ontology]]
[[Category: Meetings]] David
Categories: GO Internal

Annotation Conf. Call 2018-12-18

GO wiki (new pages) - Mon, 12/17/2018 - 06:13

Vanaukenk: /* Agenda */

= Meeting URL =
*https://stanford.zoom.us/j/976175422

== GO Conference Calls ==
*Tuesdays at 8am PDT
**1st Tuesday: Alliance Biological Function
**2nd Tuesday: GO Consortium
**3rd Tuesday: GO-CAM Working Group
**4th Tuesday: GO-CAM Working Group
**5th Tuesday: Alliance Biological Function
*One Zoom URL for all - https://stanford.zoom.us/j/976175422

= Agenda =

== Progress Reports ==
*Due this week
*Template is here: https://drive.google.com/drive/folders/1qoT_E4R_rrkEpDwjqtyfvqrgt66v5Xp9
*Rename the file and save in the same location.
*Any questions or issues?

== Ontology Editor's Geneva Meeting ==
*The ontology editor's met in Geneva last week to discuss plans to align reactions amongst GO - Rhea - Reactome.
*The plan is that, going forward, Rhea reactions will be the authoritative source for GO catalytic activity terms.
*We also reviewed and discussed conversion of Reactome pathways to GO-CAM models (Ben Good's work).

== Annotation Guidelines ==
*We would like to discuss new guidelines written for annotating from mutant phenotypes:
**[http://wiki.geneontology.org/index.php/Annotation#Annotating_from_phenotypes Annotating from phenotypes]

== 2019 ==
*Next consortium-wide call: Tuesday, January 8th, 2019


[[Category:Annotation Working Group]] Vanaukenk
Categories: GO Internal

Manager Call 2018-12-19

GO wiki (new pages) - Thu, 12/13/2018 - 08:52

Pascale:

*https://stanford.zoom.us/j/754529609

= Agenda =

* Abstract for biocuration? Moving towards a common shared curation community. No-one volunteering to steer right now. Technical updates or curation-centric?

* Who is attending ISB (Please add here)?

==Annual report==
* Reminder that each WG (ontology, annotation, PAINT, outreach, QC) and annotation group needs to submit a report
* No template for WG.
* Reports are to be submitted in the Google drive: https://drive.google.com/drive/folders/1qoT_E4R_rrkEpDwjqtyfvqrgt66v5Xp9
# Need to add plans for next year as well.

==Next few weeks==
* Alliance grant due Jan 31; Xmas holidays coming up
* What is the impact on the work that people can do on GO? (esp: Chris, Seth, Kimberly, David - anyone else directly involved in Alliance and also key in GO?)
# We need to be aware of this.

==Follow up on priorities==

* '''Release tasks update'''

* '''GO website migration''':
# Status
# What will happen with the help desk?

* '''Noctua+GO-CAM repository''': Moving existing non-GO-CAM annotations to GO central: Jim, Ben, Chris, Seth: strategy

# Created a project; https://github.com/orgs/geneontology/projects/34



==Next hackathon==
Early February in LA?

Proposed aims (David, Kimberly, Pascale):
* import of legacy annotations & GP2term relations
** also for importing legacy annotations - mapping existing annotation extensions to GO-CAM models

# We will follow up by email, but it is looking like late February.

==On call==




[[Category:GO Consortium]] [[Category:GO Managers Meetings ]] Pascale
Categories: GO Internal

Outreach

GO wiki (new pages) - Thu, 12/13/2018 - 06:46

Pascale:



==GO helpdesk==
*[[gohelp|GO helpdesk]]

==GO seminars==
We will invite GO users and tool developers to present their work, to increase interactions with users and take user needs into account when we make new development.

Will start in 2019.

=Old working groups related to Outreach=
MUST REVIEW THESE PAGES

The purpose of the User Advocacy group is to establish lines of communication between the scientific community and the GO Consortium. The goal is to ensure that the GOC does not become insular and remains receptive to the needs of the scientific community. In addition, open lines of communication will increase the awareness and usefulness of GO in the scientific community.

This purpose includes:
#ensuring that changes in the GO are publicized and communicated to the community
#acting as a broker between the community and the GOC so that the GOC does not become insular
#providing user support for the products produced by GO
#providing documentation for the products produced by GO.

This group will ensure that GO remains useful, relevant, and accessible to the scientific community. This [[Media:Advocacy_diagram_v4.jpg|figure]] outlines this group's aims and organisation.

==Sections:==

*[[gohelp|GO helpdesk]]



'''Other:'''

*[[GO survey 2009/10]]
*[[users_meetings|Future Users Meetings]]
*[[tools_standards|Standards for GO tools]]
*[[journals_advice|RSC journals: marking up text]]

==Old pages to review==

* [[Mock-ups for GO website]]
*[[:Category:AmiGO working group | AmiGO Working Group]]

*[[Outreach and Advocacy]]
*[[Annotation Outreach group summary|Group summary]]
* [[Annotation Outreach group reports|Reports]]
* [[Metrics]]
* [[Priorities]]
* [[Annotation Outreach group meetings|Meeting minutes]]


* See also http://wiki.geneontology.org/index.php/Category:AmiGO

==Users meetings==
[[Avian GO Workshop May 2008]]<br>

==Retired==
*[[GO news digest| GO News Digest]]
*[[newsletter]] - discontinued as of Oct 2008. See [[news feed]].
*[[news feed|News pages]]
*[[News group]]
*[[Annotation_Outreach_group_reports|Annotation_Outreach_group Monthly Reports]]


*[[User Advocacy group summary (Retired)]]
*[[User Advocacy group aims 2006 (Archived)]]


*[[Web Presence Working Group: Meetings (Archived)]]
*[[AmiGO: Prototypes]]



[[Category:Outreach]] Pascale
Categories: GO Internal

Annotation Conf. Call 2018-11-27

GO wiki (new pages) - Thu, 11/29/2018 - 03:55

Pascale: Created page with "= Meeting URL = *https://stanford.zoom.us/j/976175422 == GO Conference Calls == *Tuesdays at 8am PDT **1st Tuesday: Alliance Biological Function **2nd Tuesday: GO Consortium..."

= Meeting URL =
*https://stanford.zoom.us/j/976175422

== GO Conference Calls ==
*Tuesdays at 8am PDT
**1st Tuesday: Alliance Biological Function
**2nd Tuesday: GO Consortium
**3rd Tuesday: GO-CAM Working Group
**4th Tuesday: GO-CAM Working Group
**5th Tuesday: Alliance Biological Function
*One Zoom URL for all - https://stanford.zoom.us/j/976175422

= Agenda =

==GO Rules reports==
*Curators should begin reviewing their reports.html file under the snapshot release and begin to address any errors that have been flagged.
*Curators should think about what enhancements could be made to the annotation error reports most efficient to use/work with. Ruth’s suggestion: review Protein2GO email reports.


== Progress Reports ==
*Due December 19th
*Template is here: https://drive.google.com/drive/folders/1qoT_E4R_rrkEpDwjqtyfvqrgt66v5Xp9
*Rename the file and save in the same location.


[[Category:Annotation Working Group]] Pascale
Categories: GO Internal

Manager Call 2018-12-05

GO wiki (new pages) - Thu, 11/29/2018 - 03:47

Pascale: Created page with "*https://stanford.zoom.us/j/754529609 = Agenda = ==Annual report== * Reminder that each WG (ontology, annotation, PAINT, outreach, QC) and annotation group needs to submit a..."

*https://stanford.zoom.us/j/754529609

= Agenda =

==Annual report==
* Reminder that each WG (ontology, annotation, PAINT, outreach, QC) and annotation group needs to submit a report
* No template for WG.
*Reports re to be submitted in the Google drive: https://drive.google.com/drive/folders/1qoT_E4R_rrkEpDwjqtyfvqrgt66v5Xp9




==On call==

[[Category:GO Consortium]] [[Category:GO Managers Meetings ]] Pascale
Categories: GO Internal

Ontology meeting 2018-12-03

GO wiki (new pages) - Wed, 11/28/2018 - 05:28

David: Created page with "= Conference Line = *Zoom: https://stanford.zoom.us/j/828418143 = Agenda = ==Meetings== ===Ontology Developers' workshop=== * '''Logistics''': Geneva_ontology_editors_me..."

= Conference Line =

*Zoom: https://stanford.zoom.us/j/828418143

= Agenda =

==Meetings==

===Ontology Developers' workshop===
* '''Logistics''': [[Geneva_ontology_editors_meeting-_Dec_10-13,_2018_-_Logistics]]
** Planning on Dec 8th arrival/Dec 14th departure; please let Pascale know if you arrive/depart on different days
* '''Draft Agenda''': https://docs.google.com/document/d/1ixnmDZ75cFFdGN9H6CY5hyRkoPrCn6MvZVmERo_--Rw/edit

==Discussion topics==

===Preparation for Geneva===
In preparation for the meeting, we should all have a look at the project describing our tasks:
* https://github.com/geneontology/go-ontology/projects/10


= Minutes =
*On call:





[[Category: Ontology]]
[[Category: Meetings]] David
Categories: GO Internal