WormBase-Caltech Weekly Calls
From WormBaseWiki
Contents
Previous Years
2016 Meetings
April 7, 2016
Tissue-enrichment tool
- Juancarlos and Raymond working on
- How to best integrate this into WormBase?
- Best to have all production code/material in one place, but could set up a proxy if it's already up and running
- Considering we don't know yet how popular the tool will be, the proxy could be a sufficient first step
- Could be a subdomain, e.g. tissueenrichement.wormbase.org, similar to the data submission forms
- Is this adaptable for the other MODs/organisms? Will submit the paper first
Karen's talk at ZFIN
- Talk went well
- some interest with SVM
- Having good discussions about data types and nomenclature
- Have their own reagent mapping pipeline to their genome browser
Daniela starting on gene regulation curation
- Daniela working with Xiaodong to learn the curation process
- Xiaodong's last day, next Friday 16th
April 21, 2016
Author submission forms
- Cell Press generating simple 3-column table asking for reagents
- Likely has a for-profit incentive; we need to push data tables that aid the MODs
- Chris will send around the table for minimum information of phenotype data
- Chris will look into a similar table for interactions
File content changes
- GAFs, for example, get changed
- We need a mechanism/protocol to make notes of changes to file formats, etc.
- We could post timestamp and signature entries to a READ_ME file in each FTP directory for all changes to files
- In addition, we can post on the WB homepage and bog
- Ranjana will email Todd and Kevin to ask about best practices
- Ranjana will then send email to staff once a decision has been made
Micropublications
- Force11 (https://www.force11.org/) Force2016 challenge
- Research communication challenge submission
- Some positive tweets sent around about micropublication
- Some suggestions to use BioCaddie (https://biocaddie.org/)