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FAIRDOM Community Standards
FAIRDOM is a joint action of ERA-Net ERASysAPP and European Research Infrastructure ISBE to establish a data and model management service facility for Systems Biology. The prime mission is to support researchers, students, trainers, funders and publishers by enabling Systems Biology projects to make their Data, Operating procedures and Models, Findable, Accessible, Interoperable and Reusable (FAIR). This collections encompasses community standards used in FAIRDOM.

This record is maintained by: FAIRDOM  , wittigu   ORCID

Record added: Nov. 28, 2016, 2:48 p.m..
Record updated: Oct. 24, 2019, 1:18 p.m. by The FAIRsharing Team.

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Showing records 1 - 50 of 53.
Registry Name Abbreviation Type Subject Domain Taxonomy Related Database Related Standard Related Policy In Collection/Recommendation Status

Binary Alignment Map Format BAM Standard None ready

Biological Pathway eXchange BioPAX Standard None ready

Browser Extensible Data Format BED Standard None
None ready

CellML CellML Standard ready
Chemical Entities of Biological Interest ChEBI Standard None ready

Core Information for Metabolomics Reporting CIMR Standard ready
Enzyme Mechanism Ontology EMO Standard None uncertain
Evidence and Conclusion Ontology ECO Standard None ready

FASTA Sequence Format FASTA Standard None ready

FASTQ Sequence and Sequence Quality Format FASTQ Sequence and Sequence Quality Format Standard None ready

Gel electrophoresis Markup Language PSI GelML Standard None ready

Gene Feature File version 1 GFF Standard None None deprecated
Gene Ontology GO Standard ready
HUPO PSI Mass Spectrometry Controlled Vocabulary PSI-MS CV Standard None ready
InterLex InterLex Standard None in development

Investigation Study Assay Tabular ISA-Tab Standard ready
Just Enough Results Model Ontology JERM Standard None ready

KEGG Mark-up Language KGML Standard None ready
Kinetic Simulation Algorithm Ontology KiSAO Standard None ready

macromolecular Crystallographic Information File PDBx/mmCIF Standard None ready

Mathematics Markup Language MathML Standard None
None None ready
Medical Subject Headings MESH Standard None ready

MicroArray Gene Expression Markup Language MAGE-ML Standard None deprecated

MicroArray Gene Expression Tabular Format MAGE-TAB Standard None
None ready

Minimal Information About a Cellular Assay MIACA Standard None None ready

Minimal Information about a high throughput SEQuencing Experiment MINSEQE Standard ready

Minimal Information Required In the Annotation of Models MIRIAM Standard ready

Minimum Information about a Cardiac Electrophysiology Experiment MICEE Standard None None ready

Minimum Information About a Genotyping Experiment MIGen Standard None None None ready

Minimum Information About a Microarray Experiment MIAME Standard ready

Minimum Information about a Molecular Interaction Experiment MIMIx Standard ready

Minimum Information About a Proteomics Experiment MIAPE Standard ready

Minimum Information About a RNAi Experiment MIARE Standard None ready

Minimum Information About a Simulation Experiment MIASE Standard None ready

Minimum Information about Flow Cytometry MIFlowCyt Standard ready

Minimum Information for Publication of Quantitative Real-Time PCR Experiments MIQE Standard None ready

mz Markup Language mzML Standard ready

NeuroML NeuroML Standard None ready
Ontology of Physics for Biology OPB Standard None None ready

Open Microscopy Environment eXtensible Markup Language OME-XML Standard None ready

Pharmacometrics Markup Language PharmML Standard None ready
Protein MODification PSI-MOD Standard None ready
RNA Ontology RNAO Standard None ready

Sequence Alignment Map SAM Standard None ready
Sequence Ontology SO Standard None ready

Simulation Experiment Description Markup Language SED-ML Standard None ready
SoftWare Ontology SWO Standard None ready

Standards for Reporting Enzymology Data Guidelines STRENDA Standard ready

Systems Biology Graphical Notation SBGN Standard None ready

Systems Biology Markup Language SBML Standard ready