Geneva ontology editors meeting- Dec 10-13, 2018 - Logistics: Difference between revisions

From GO Wiki
Jump to navigation Jump to search
 
(31 intermediate revisions by 5 users not shown)
Line 1: Line 1:
=Logistics=
==Dates==
==Dates==
*December 10-13, 2018
*December 10-13, 2018
** ARRIVAL: Dec 8th (Fly from US on Friday Dec 7th)
** DEPARTURE: Friday Dec 14th


== Venue ==
== Meeting Venue ==
* Geneva
* HEG (Haute Ecole de Gestion de Geneve), Carouge (Geneve)
* Campus de Battelle: https://goo.gl/maps/k93FWVUxdv42
* B building ('bâtiment'), Room B5.12
* Rue de la Tambourine 17
* 1227 Carouge
https://www.hesge.ch/heg/sites/default/files/documents/plan-acces-heg.pdf
The venue is just across the street from the hotel.


== Hotel ==
== Dinners==
* Saturday: 6:30 PM Cheval blanc Place de l'octroi - Tapas (http://www.lechevalblanc.ch/# )
* Sunday: 7 PM Café du Marché Place du Marché 4 - 1227 Carouge - 10 people
* Monday: Fondue Bain des Paquis 19h
* Tuesday: Auberge communale de Carouge (Vicolo39) 19h30 - 10 people
* Wednesday: Fete de l'escalade Chene-Bourg (free soup, food stands, parade, chocolate. We're celebrating chasing the Savoyads (now part of France) out of Geneva: https://en.wikipedia.org/wiki/L%27Escalade)
* Thursday: Bang Yai 19h30 - rue des Noirettes 7, Geneva 1227, Switzerland  -  10 people


==Travel==
== Lunches==
* Monday: cafeteria or pizzas
* Tuesday:
* Wednesday: Marché de Carouge - food stands
* Thursday: Le Vieux Pressoir (http://levieuxpressoir.ch/) 12h30 12 people


== Agenda ==
== Hotel ==
'''Ibis Style Carouge hotel''': https://www.accorhotels.com/gb/hotel-6863-ibis-styles-geneve-carouge/index.shtml
* Carouge Rondeau tram station (Trams 12 and 18)
* 3 Route De Saint Julien, 1227 CAROUGE, SWITZERLAND
* Tel: (+41)225448600
* Wifi and breakfast included
* Checkin /checkout: 12 noon


===Monday December 10===
==Access by public transportation==
The hotel and the HEG (where the meeting will be held) are essentially across the street from each other.
* '''Tram''' lines 18 et 12 : "Carouge (Rondeau)" stop
** Tram 18 is also connected from the train station ("Gare Cornavin")
* '''Bus''' 44 or 45 : "Grange-Collomb" stop


*9:00am-10:30am: Use a pre-generated spreadsheet to add missing xrefs across MFs- strategize and prioritize,
==Free Public transportation==
*10:30am- 10:45am: coffee break
* '''From Geneva Airport''' offers free public transport tickets valid for 80 minutes to new arrivals. This free ticket can be taken from a machine in the baggage claim area '''(just after the baggage carousels)'''. This ticket is only valid with your flight ticket to prove that you have arrived on that day.<br/>
*10:45am- 12:00pm: Data flow and updating. Design a strategy to keep the resources in synch and appoint key personnel as contact points for data exchange.
* '''In the city''': All visitors staying at a hotel benefit from the [http://www.geneve-tourisme.ch/?rubrique=0000000417 Geneva Transport Card], with no additional cost. This personal and non-transferable pass is established upon the visitor’s check-in in the hotel, enabling its holder to use of the entire public transportation network without restriction (bus, train and boat), with validity for the entire duration of the stay including the departure day.
*12:00pm - 1:00pm: lunch
*1:00pm-3:00pm: curators work to add missing xrefs
*3:00pm- 3:15pm: break
*3:15pm-4:15pm: Address the issue of automatically adding definitions to GO. Can we harvest Rhea reaction descriptions to automatically populate GO defs. What happens when Rhea reactions change? Do they ever change?
*4:15pm-5:00pm: Discuss a strategy to handle reaction directionality. Do we want to have all reactions point to the generic bidirectional reactions in Rhea, or are there some that we can restrict through cross-reference to the directional reaction. Plan a strategy to find these.


===Tuesday December 11===


*9:00am-10:30am: Update reaction xrefs, continued.  
* Trip planning: Geneva public transport website: http://www.tpg.ch/
*10:30am- 10:45am: coffee break
*10:45am-12:00pm: Automated classification of reactions based on reactants. ‘Currency’ participants, other types of participants. Discuss Rhea generic chemicals. Do we need reactant pools?
*12:00am- 1:00pm: lunch
*1:00pm- 3:00pm: QC methods for automatic classification of reactions based on participants.
*3:00pm-3:15pm: break
*3:15pm- 5:00pm: QC Reactome-GO-Rhea xrefs


===Wednesday December 12===


*9:00am- 10:30am: From Reactions to pathways. Examine imports of Reactome pathways into GO-CAM models. Test reasoning going from functions to processes.
==Travel==
*10:30am-10:45am: coffee break
Contact Lourdes to arrange your travel. Give her your preferred flights. Must be on US carrier or code share.
*10:45am-12:00pm: Discuss issues identified in the morning session.
*12:00pm- 1:00pm: lunch
*1:00pm- 3:00pm: Identify pathways for modeling in GO-CAM
*3:00pm- 5:00pm: Create template models. Compare to Reactome imports.


===Thursday December 13===
= Agenda =
*9:00am-10:30am: Create guidelines for GO-CAM models and biochemical pathways. Create models according to guidelines.
*10:30am-10:45am: coffee break
*10:45am-12:00pm: Test model reasoning: annotations and inferences
*12:00pm-1:00pm: lunch
*1:00pm-3:00pm: Create documentation for GO-CAM model biochemical pathway work flow.
*3:00pm-3:15pm: break
*3:15pm-5:00pm: general ontology developer’s discussion of priorities, GH tickets workflow etc.


===Friday December 14, Departure===
https://docs.google.com/document/d/1ixnmDZ75cFFdGN9H6CY5hyRkoPrCn6MvZVmERo_--Rw/edit


 
= Participants =
== Participants ==


Ontology Group
Ontology Group


* David Hill MGI
* David Hill MGI  
* Harold Drabkin MGI
* Harold Drabkin MGI
* Kimberly Van Auken WormBase
* Kimberly Van Auken WormBase
* Pascale Gaudet SIB
* Paul Thomas USC
* Paul Thomas USC
* Huaiyu Mi USC
* Huaiyu Mi USC
* Pascale Gaudet SIB


Software Group
Software Group
 
* Chris Mungall - Berkeley
*Ben Good- Berkeley
* Ben Good- Berkeley
*Jim Balhoff - Berkeley
* Jim Balhoff - Berkeley (RENCI UNC)


External Curators
External Curators


*Peter D-Eustachio Reactome
* Peter D'Eustachio Reactome
*Alan Bridges Rhea
* Antonio Fabregat Mundo EBI Reactome
*Anne Morgat
* Alan Bridges Rhea
* Anne Morgat Rhea
* Thierry Lombardot Rhea
* Nicole Redaschi




[[Category:Meetings]]
[[Category:Meetings]]

Latest revision as of 09:54, 10 December 2018

Logistics

Dates

  • December 10-13, 2018
    • ARRIVAL: Dec 8th (Fly from US on Friday Dec 7th)
    • DEPARTURE: Friday Dec 14th

Meeting Venue

  • HEG (Haute Ecole de Gestion de Geneve), Carouge (Geneve)
  • Campus de Battelle: https://goo.gl/maps/k93FWVUxdv42
  • B building ('bâtiment'), Room B5.12
  • Rue de la Tambourine 17
  • 1227 Carouge

https://www.hesge.ch/heg/sites/default/files/documents/plan-acces-heg.pdf The venue is just across the street from the hotel.

Dinners

  • Saturday: 6:30 PM Cheval blanc Place de l'octroi - Tapas (http://www.lechevalblanc.ch/# )
  • Sunday: 7 PM Café du Marché Place du Marché 4 - 1227 Carouge - 10 people
  • Monday: Fondue Bain des Paquis 19h
  • Tuesday: Auberge communale de Carouge (Vicolo39) 19h30 - 10 people
  • Wednesday: Fete de l'escalade Chene-Bourg (free soup, food stands, parade, chocolate. We're celebrating chasing the Savoyads (now part of France) out of Geneva: https://en.wikipedia.org/wiki/L%27Escalade)
  • Thursday: Bang Yai 19h30 - rue des Noirettes 7, Geneva 1227, Switzerland - 10 people

Lunches

  • Monday: cafeteria or pizzas
  • Tuesday:
  • Wednesday: Marché de Carouge - food stands
  • Thursday: Le Vieux Pressoir (http://levieuxpressoir.ch/) 12h30 12 people

Hotel

Ibis Style Carouge hotel: https://www.accorhotels.com/gb/hotel-6863-ibis-styles-geneve-carouge/index.shtml

  • Carouge Rondeau tram station (Trams 12 and 18)
  • 3 Route De Saint Julien, 1227 CAROUGE, SWITZERLAND
  • Tel: (+41)225448600
  • Wifi and breakfast included
  • Checkin /checkout: 12 noon

Access by public transportation

The hotel and the HEG (where the meeting will be held) are essentially across the street from each other.

  • Tram lines 18 et 12 : "Carouge (Rondeau)" stop
    • Tram 18 is also connected from the train station ("Gare Cornavin")
  • Bus 44 or 45 : "Grange-Collomb" stop

Free Public transportation

  • From Geneva Airport offers free public transport tickets valid for 80 minutes to new arrivals. This free ticket can be taken from a machine in the baggage claim area (just after the baggage carousels). This ticket is only valid with your flight ticket to prove that you have arrived on that day.
  • In the city: All visitors staying at a hotel benefit from the Geneva Transport Card, with no additional cost. This personal and non-transferable pass is established upon the visitor’s check-in in the hotel, enabling its holder to use of the entire public transportation network without restriction (bus, train and boat), with validity for the entire duration of the stay including the departure day.



Travel

Contact Lourdes to arrange your travel. Give her your preferred flights. Must be on US carrier or code share.

Agenda

https://docs.google.com/document/d/1ixnmDZ75cFFdGN9H6CY5hyRkoPrCn6MvZVmERo_--Rw/edit

Participants

Ontology Group

  • David Hill MGI
  • Harold Drabkin MGI
  • Kimberly Van Auken WormBase
  • Paul Thomas USC
  • Huaiyu Mi USC
  • Pascale Gaudet SIB

Software Group

  • Chris Mungall - Berkeley
  • Ben Good- Berkeley
  • Jim Balhoff - Berkeley (RENCI UNC)

External Curators

  • Peter D'Eustachio Reactome
  • Antonio Fabregat Mundo EBI Reactome
  • Alan Bridges Rhea
  • Anne Morgat Rhea
  • Thierry Lombardot Rhea
  • Nicole Redaschi