2015 LEGO Jamboree Logistics: Difference between revisions
Jump to navigation
Jump to search
Line 51: | Line 51: | ||
**MGI and Swiss-Prot: [http://www.ncbi.nlm.nih.gov/pubmed/17476689 PIM-2 is an independent regulator of chondrocyte survival and autophagy in the epiphyseal growth plate.] | **MGI and Swiss-Prot: [http://www.ncbi.nlm.nih.gov/pubmed/17476689 PIM-2 is an independent regulator of chondrocyte survival and autophagy in the epiphyseal growth plate.] | ||
*Mix of species in paper | *Mix of species in paper | ||
**[http://www.ncbi.nlm.nih.gov/pubmed/25088257 Ubiquitin-specific protease 19 regulates the stability of the E3 ubiquitin ligase MARCH6.] | **UCL: [http://www.ncbi.nlm.nih.gov/pubmed/25088257 Ubiquitin-specific protease 19 regulates the stability of the E3 ubiquitin ligase MARCH6.] | ||
*Useful example of when the substrate is a non-protein (for the ribonuclease activity). | |||
**UCL: [http://www.ncbi.nlm.nih.gov/pubmed/21317875 Structure of the Ire1 autophosphorylation complex and implications for the unfolded protein response.] | |||
*Looks like a relatively simple annotation model | |||
**UCL: [http://www.ncbi.nlm.nih.gov/pubmed/11163209 ER stress induces cleavage of membrane-bound ATF6 by the same proteases that process SREBPs.] | |||
*More complicated view of ER stress and UPR | |||
**UCL: [http://www.ncbi.nlm.nih.gov/pubmed/20160352 Wolfram syndrome 1 gene negatively regulates ER stress signaling in rodent and human cells.] | |||
*Regulation of transcription factor activity via protein stabilization, localization - direct or indirect regulation? | |||
**UCL: [http://www.ncbi.nlm.nih.gov/pubmed/17015834 DJ-1, a cancer- and Parkinson's disease-associated protein, stabilizes the antioxidant transcriptional master regulator Nrf2.] | |||
====Discussion and Action Items==== | ====Discussion and Action Items==== |
Revision as of 10:47, 2 December 2015
Dates
- December 8-10, 2015
- Start 9am December 8
- End at noon December 10, optionally continue through 4pm or so.
Venue
Geneva, Switzerland
Campus Biotech
Participants
Please use this link to register: https://goo.gl/1t1ybJ
Hotels
Agenda
Tuesday, December 8th
Schedule
- 10am Seminar: Using LEGO to Represent Biological Knowledge - Paul T. and Chris
- For a more general audience
- 11am Workshop Begins: More specific introduction to LEGO for curators
- Lunch
- 1:30pm? Hands-on with Noctua
- Creating simple annatons in Noctua
- A simple enzyme paper Pfkl-- http://www.ncbi.nlm.nih.gov/pubmed/?term=6244280
- A regulation paper Pfkl-- http://www.ncbi.nlm.nih.gov/pubmed/6446714
- Creating simple annatons in Noctua
Discussion and Action Items
Wednesday, December 9th
Schedule
- Continuing on with annotation examples and suggested papers from participants:
- Annotating causal relationships and downstream effects
- TAIR annotation consistency exercise: The MYB36 transcription factor orchestrates Casparian strip formation.
- Annotations involving specific isoforms and feedforward circuits
- Localized cell polarization and GTPase cycle
- Regulation of cell proliferation, ubiquitin ligase activity, protein stabilization and localization
- miRNA-mediated regulation of transcription factor activity and transcription of enzyme responsible for H2S production and subsequent cell differentation
- Role of SWI/SNF complex involved during development
- Autophagy and cellular differentiation
- Mix of species in paper
- Useful example of when the substrate is a non-protein (for the ribonuclease activity).
- Looks like a relatively simple annotation model
- More complicated view of ER stress and UPR
- Regulation of transcription factor activity via protein stabilization, localization - direct or indirect regulation?
Discussion and Action Items
Thursday, December 10th
Schedule
- Future plans and thoughts
- Seeding models
- Plans for going forward
Discussion and Action Items
Remote Attendees
Doug Howe - ZFIN - sorry I can't be there in person! If you are able to webcast any portions, I'd be happy to drink lots of coffee on my end. Sabrina Toro - ZFIN