Table 1 controlled vocabulary usage and source overview

BAO

clonality, genetic modification, growth property, immunology isotype, transient modification

bio ontology

http://www.bioassayontology.org/

DOID

disease

bio ontology

http://diseaseontology.sourceforge.net/

EFO

unit

bio ontology

http://www.ebi.ac.uk/efo

MESH

cell type

bio ontology

http://www.nlm.nih.gov/mesh/meshhome.html

NCBITAXON

organism

bio ontology

http://www.ncbi.nlm.nih.gov/taxonomy

OBI

sex

bio ontology

http://purl.obolibrary.org/obo/obi

SNOMEDCT

antibody part, ethnicity

bio ontology

http://www.ihtsdo.org/

UBERON

organ, tissue

bio ontology

http://uberon.org/

CELLOSAURUS

sample

cellosaurus

http://web.expasy.org/cellosaurus/

CHEBI

compound

ebi

http://www.ebi.ac.uk/chebi

ENSG

gene

ensembl

http://www.ensembl.org/index.html

GENEONTOLOGY

gene ontology, biological process, cellular component (protein complex), molecular function

gene ontology

http://geneontology.org/

UNIPROT

protein

uniprot

http://www.uniprot.org/proteomes/

OWN

dye, health status, provider, sample entity, verification profile, yield fraction

own

https://gitlab.com/biotransistor/annotTutorial/