2015 LEGO Jamboree Logistics: Difference between revisions
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*Regulation of transcription factor activity via protein stabilization, localization - direct or indirect regulation? | *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.] | **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.] | ||
*Signaling pathways and their outputs | |||
**Swiss-Prot:[http://www.ncbi.nlm.nih.gov/pubmed/26527061 cAMP/PKA enhances interleukin-1β-induced interleukin-6 synthesis through STAT3 in glial cells] | |||
*Apoptotic cell clearance pathway | |||
**Swiss-Prot: [http://www.ncbi.nlm.nih.gov/pubmed/23596312 Bruton's tyrosine kinase is required for apoptotic cell uptake via regulating the phosphorylation and localization of calreticulin] | |||
====Discussion and Action Items==== | ====Discussion and Action Items==== |
Revision as of 12:47, 4 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 also see http://www.ncbi.nlm.nih.gov/books/NBK22395/
- 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
- This paper shows that the Msd1/wdr8 complex is transported to the SPB by dynein, and then subsequently involved in microtubule attachment to the SPB
- Localized cell polarization and GTPase cycle - to be discussed possibly at a later time
- 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?
- Signaling pathways and their outputs
- Apoptotic cell clearance pathway
Discussion and Action Items
Thursday, December 10th
Schedule
- Future plans and thoughts
- Seeding models
- Plans for going forward
- Dedicated LEGO curation conference calls?
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