H2020 Phenome and Metabolome aNalysis (PhenoMenal) Project
PhenoMeNal (Phenome and Metabolome aNalysis) aims to build a comprehensive and standardised e-infrastructure that will support the data processing and analysis pipelines for molecular phenotype data generated by metabolomics applications. PhenoMeNal will provide services enabling computation and analysis to improve the understanding of the causes and mechanisms underlying health, healthy ageing and diseases. As part of this development, PhenoMenal has commissioned a survey to assess to landscape of format specification, vocabularies and nomenclatures as well as policies in the clinical and technical area to gauge coverage and diffusion/acceptance of such resources. The Biosharing collection represents an overview of the resources considered so far.

This record is maintained by: proccaserra   ORCID

Record added: Aug. 16, 2016, 12:18 p.m..
Record updated: Aug. 20, 2016, 3:41 p.m. by proccaserra.

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29 records in view

Registry Name Abbreviation Type Domain Taxonomy Related Database Related Standard Related Policy In Collection/Recommendation Status

Biological Expression Language BEL Standard None None None ready

CDISC Clinical Data Acquisition Standards Harmonization CDISC CDASH Standard None ready

CDISC Study Data Tabulation Model CDISC SDTM Standard None ready
CDISC Terminology CDISC Terminology Standard None ready

Core Information for Metabolomics Reporting CIMR Standard None None ready

Common Workflow Language CWL Standard None None ready

Fast Healthcare Interoperability Resources FHIR Standard None ready
Health Level Seven Reference Implementation Model HL7 Standard None uncertain

The Human Metabolome Database HMDB Database None ready
Human Phenotype Ontology HP Standard None ready
International Classification of Diseases Version 10 ICD-10 Standard None ready

imaging mz Markup Language imzML Standard None None ready

IUPAC International Chemical Identifier InChI Standard None ready

Investigation Study Assay Tabular ISA-Tab Standard ready

Joint Committee on Atomic and Molecular Physical data - working group on Data eXchange JCAMP-DX Standard None None None uncertain
Logical Observation Identifier Names and Codes LOINC Standard None None ready

Metabolomics Workbench MW Database None None None ready

MetaboLights MTBLS Database ready

mz5 mz5 Standard None None ready

mz Markup Language mzML Standard ready
NCI thesaurus NCIT Standard None ready
Nuclear Magnetic Resonance Controlled Vocabulary nmrCV Standard None ready

Nuclear Magnetic Resonance Markup Language NMR-ML Standard None ready
HUPO PSI Mass Spectrometry Controlled Vocabulary PSI-MS CV Standard None ready

Systems Biology Markup Language SBML Standard ready

Simplified Molecular Input Line Entry Specification Format SMILES Standard None None ready
Systematized Nomenclature of Medicine-Clinical Terms SNOMEDCT Standard None ready

Standard Preanalytical Code SPREC Standard None None None ready
The Unified Code for Units of Measure UCUM Standard None None ready