from biosharing to fairsharing - mapping the standards landscape
TRANSCRIPT
Mapping the landscape of interoperability standards:
inform and educate
Susanna-Assunta Sansone, PhDConsultant,
Founding Academic EditorAssociate Director,
Principal Investigator
Inter-UnionWorkshopon21stCenturyScientificandTechnicalDataDevelopingaroadmapfordataintegrationConvenedbytheICSU-CODATACommissiononDataStandardsforScience,Paris,19-21June2017
Aweb-based,curatedandsearchableportalthat monitorsthedevelopment and
evolution ofstandards,theiruse indatabases andtheadoptionofbothindata
policies,toinform andeducate theusercommunity
part of FAIR .org
Formats Terminologies Guidelines
Initial focus on metadata (or content) standards
Formats Terminologies Guidelines
Enhance their findability
220+
115+
548+
source sourcesource
miame
MIRIAMMIQASMIX
MIGEN
ARRIVEMIAPE
MIASE
MIQE
MISFISHIE….
REMARK
CONSORT
SRAxml
SOFT FASTA
DICOM
MzMLSBRML
SEDML…
GELML
ISA
CML
MITAB
AAOCHEBIOBI
PATO ENVOMOD
BTOIDO…
TEDDY
PRO
XAO
DO
VO
882 -> ~1000
Formats Terminologies Guidelines
Initial focus on life/biomedical sciences, but not limited to
220+
115+
548+
source sourcesource
miame
MIRIAMMIQASMIX
MIGEN
ARRIVEMIAPE
MIASE
MIQE
MISFISHIE….
REMARK
CONSORT
SRAxml
SOFT FASTA
DICOM
MzMLSBRML
SEDML…
GELML
ISA
CML
MITAB
AAOCHEBIOBI
PATO ENVOMOD
BTOIDO…
TEDDY
PRO
XAO
DO
VO
882 -> ~1000
de jurestandard
organizations
de facto
grass-rootsgroups
Databases/data repositories
Metadata standards
Formats Terminologies Guidelines
Readyforuse,implementation,orrecommendation
Indevelopment
Statusuncertain
Deprecatedassubsumedorsuperseded
Allrecordsaremanuallycurated
in-houseandverifiedbythe
communitybehindeachresource
Interlink standards among themselves and with repositories, as relevant, and use ‘indicators’ to describe their status
Data policies by funders, journals and other organizations
Help users to understand if and how standards are used
Formats
Guideline
Formats
Terminology
Promote adoption e.g. by educating policy makers
Technologically-delineated views of the world
Biologically-delineated views of the world
Generic features (‘common core’)- description of source biomaterial- experimental design components
Arrays
Scanning Arrays &Scanning
Columns
GelsMS MS
FTIR
NMR
Columns
transcriptomics proteomics metabolomics
plant biologyepidemiology microbiology
Highlight the fragmentation of standards
Arrays
Scanning Arrays &Scanning
Columns
GelsMS MS
FTIR
NMR
Columns
transcriptomics proteomics metabolomics
plant biologyepidemiology microbiology
Proteomics-based gut microbiota profiling
Proteomics and metabolomics based gut microbiota profiling
Need for modularization to combine and validate
Standard developing groups:Journal, publishers:
Cross-links, data exchange:
Societies and organisations: Institutional RDM services:
Projects, programmes:
part of FAIR .org
2013
2015
2016
https://doi.org/10.6084/m9.figshare.3795816.v2
https://doi.org/10.6084/m9.figshare.4055496.v1
https://datascience.nih.gov/sites/default/files/bd2k/docs/ExecSumm_CBDMSworkshopFEB2015.pdf