Yasset Perez-Riverol
Yasset Perez-Riverol
We have two technology types for metabolomics: - **LC-MS-based metabolomics**: @mmattano used (https://github.com/bigbio/proteomics-sample-metadata/pull/680) in the PR the EDAM ontology `NT=LC-MS-based metabolomics;AC=EDAM:3172` we should move this term to PSI-MS or PRIDE...
During the PR from @mmattano https://github.com/bigbio/proteomics-sample-metadata/pull/680 we detected multiple fields that we need to decide if they will be required, recommended or optional: - `scan polarity` - `label` - `fraction`...
Recently, we have been contacted to represent affinity proteomics (AP) datasets in SDRF. We (PRIDE Team) is also working in a submission system for AP datasets. Similar to the new...
We should aim to have an SDRF in JSON. The idea is to have a serialization option for the tab-delimited format that users can use for example in web-services and...
Dear all @bigbio/collaborators : Long time since our last discussions in the repo about SDRF structure. First some updates: - The format has been submitted to HUPO-PSI revision process. -...
The following project @qinchunyuan needs to be fixed: https://github.com/bigbio/proteomics-metadata-standard/tree/fb26f36359d8118534cf5e9025d15dcc021bb62c/annotated-projects/PXD008222 The project is a cell line project but the information about the cell-line are not included.
Multiple users have been interested to annotated metaproteomics datasets. We have a first formalization of the use case here https://github.com/bigbio/proteomics-metadata-standard/blob/master/sdrf-proteomics/use-cases-under-development.adoc#metaproteomics-datasets but more information and examples are needed: - [ ]...
http://www.proteometools.org/index.php?id=52 - [x] PXD004732 - [ ] PXD006832 - [ ] PXD009449 - [x] PXD010595 - [ ] PXD005336
- Project Accession: [PXD015912] - URL Project: [https://www.ebi.ac.uk/pride/archive/projects/PXD015912] - PubMed Accession: [ ]
- Project Accession: [PXD005671] - URL Project: [ ] - PubMed Accession: [ ] Additional paper data https://onlinelibrary.wiley.com/doi/epdf/10.1002/rcm.7959