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Printable Handouts
Navigable Slide Index
- Introduction
- Talk overview
- European open science cloud
- Making efficient use of data for metabolomics
- Metabolomics standard initiative (history)
- Data sharing repositories
- MetabolomeXchange.org: Mx based on Px
- ISA-tab format capturing meta-data MI
- The ISAcreator: an editor for ISA-tab format
- Metadata configuration: CIMR templates (MSI)
- MetaboLights: study validation status
- MetaboLights: study validation
- OmicsDI: collection of omics
- OmicsDI
- Leading to data discovery
- MSI data/metadata standards activities
- Metabolite annotation/identification
- mzTab: capturing metabolomics identification
- Overview of data exchange standards
- NMR data exchange standards
- nmrML support
- qcML: capturing quality control
- Generating ISA-tab metadata files
- Journals support data-sharing and reuse
- Summary
- The ISA team
- COSMOS acknowledgments
- Funding and collaborators
Topics Covered
- Current state of data sharing and exchange standards
- Making efficient use of data for metabolomics
- Metabolomics standard initiative
- Data sharing repositories
- Metabolite annotation/identification
- Capturing metadata
- Metabolomics identification
- Quality control in metabolomics
- Journals for metabolomics data-sharing and reuse
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Talk Citation
Salek, R. (2018, May 31). Data sharing and data standards for metabolomics: where are we now? [Video file]. In The Biomedical & Life Sciences Collection, Henry Stewart Talks. Retrieved December 11, 2019, from https://hstalks.com/bs/3730/.Publication History
Financial Disclosures
- Dr. Reza Salek has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.
Data sharing and data standards for metabolomics: where are we now?
Published on May 31, 2018
38 min
Other Talks in the Series: Bioinformatics for Metabolomics
Transcript
0:00
Hello every one. My name is Reza Salek.
I'm from EMBL-EBI, which stands
for European Molecular Biology Lab - European Bioinformatics Institute.
The EBI is essentially in the business of biological sciences data.
It captures, shares, and makes publicly available
all the data and resources that people can use to get access to data,
to analyze data, and reuse data, in a wide variety of biological sciences.
0:32
In this talk, I'm only focusing on metabolomics,
which makes up a small portion of the efforts which are ongoing at EBI.
I would like to go through the current state
of data sharing and data standards in metabolomics.
I have to say here at the beginning that this is by
no means an effort within EBI or a particular group.
This is a community effort which many people, many labs,
and many groups, are involved in different aspects of standardizations
and contribute to data sharing and the different elements of it.
So, I will try to acknowledge as many people as possible that I can recall and
are involved, and I apologize in advance if I have missed
someone out of this, to be recognize.
I'm going to start with the notion that has been promoted