Difference between revisions of "WormBase-Caltech Weekly Calls"
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=== Metabolomic data === | === Metabolomic data === | ||
* Can we show chemical structures for metabolites? | * Can we show chemical structures for metabolites? | ||
− | * | + | * User (M. Witting) says metabolism people will want monoisotopic masses - these masses aren't available through ChEBI at the moment and it will be a while for them to provide them. Will find a formula and sources files for Juancarlos to implement a calculator in the OA. |
+ | * We already use, sync and collaborate with ChEBI |
Revision as of 18:17, 3 March 2016
Contents
Previous Years
2016 Meetings
March 3, 2016
Sentence-level indexing
- Chris playing around with flagging sentences as positive/negative for phenotype and flagging keywords as true or false positives
- It may be helpful to objectify sentences and generate unambiguous, unique IDs for sentences
- There will likely be difficulty in unambiguously pulling out sentences from re-processed papers
- Best identifier would be the sentence itself
- Sentence 'objects' could be connected to annotations in WB
Proteomic datasets
- Wen wants to systematically collect proteomic datasets
- Many are scattered across different resources
- Would also help ParaSite to index similar datasets for parasites
- MESH terms may help identify proteomic papers
MOD-human disease collaboration
- FlyBase working on a shared template for curating human disease
- SGD, ZFIN, MGI, FlyBase, and WormBase meeting at Caltech to discuss
- One priority is minimizing redundancy of effort
- There is a common portal for human diseases in progress
- Should consider Monarch initiative approach
AddGene & WB constructs
- Karen working with AddGene to pull in worm reagents (plasmids/constructs)
- AddGene does want to have better linking to WormBase
Metabolomic data
- Can we show chemical structures for metabolites?
- User (M. Witting) says metabolism people will want monoisotopic masses - these masses aren't available through ChEBI at the moment and it will be a while for them to provide them. Will find a formula and sources files for Juancarlos to implement a calculator in the OA.
- We already use, sync and collaborate with ChEBI