/association/find/{subject_category}

Returns list of matching associations for a given subject category

/association/find/{subject_category}/{object_category}

Returns list of matching associations between a given subject and object category

/association/from/{subject}

Returns list of matching associations starting from a given subject (source)

/association/to/{object}

Returns list of matching associations pointing to a given object (target)

/association/type/{association_type}

Returns list of matching associations of a given type

/association/{id}

Returns the association with a given identifier

/bioentity/anatomy/{id}/genes/{taxid}

Returns gene IDs for all genes associated with a given anatomy, filtered by taxon

/bioentity/anatomy/{id}/genes

Returns genes associated with a given anatomy

/bioentity/case/{id}/diseases

Returns diseases associated with a case

/bioentity/case/{id}/genotypes

Returns genotypes associated with a case

/bioentity/case/{id}/models

Returns models associated with a case

/bioentity/case/{id}/phenotypes

Returns phenotypes associated with a case

/bioentity/case/{id}/variants

Returns variants associated with a case

/bioentity/disease/{id}/cases

Returns cases associated with a disease

/bioentity/disease/{id}/genes

Returns genes associated with a disease

/bioentity/disease/{id}/genotypes

Returns genotypes associated with a disease

/bioentity/disease/{id}/models

Returns associations to models of the disease

/bioentity/disease/{id}/models/{taxon}

Returns associations to models of the disease constrained by taxon

/bioentity/disease/{id}/pathways

Returns pathways associated with a disease

/bioentity/disease/{id}/phenotypes

Returns phenotypes associated with disease

/bioentity/disease/{id}/publications

Returns publications associated with a disease

/bioentity/disease/{id}/treatment

Returns substances associated with a disease

/bioentity/disease/{id}/variants

Returns variants associated with a disease

/bioentity/function/{id}

Returns annotations associated to a function term

/bioentity/function/{id}/genes

Returns genes associated to a GO term

/bioentity/function/{id}/publications

Returns publications associated to a GO term

/bioentity/function/{id}/taxons

Returns taxons associated to a GO term

/bioentity/gene/{id}/anatomy

Returns anatomical entities associated with a gene

/bioentity/gene/{id}/cases

Returns cases associated with a gene

/bioentity/gene/{id}/diseases

Returns diseases associated with gene

/bioentity/gene/{id}/expression/anatomy

Returns expression events for a gene

/bioentity/gene/{id}/function

Returns function associations for a gene

/bioentity/gene/{id}/genotypes

Returns genotypes associated with a gene

/bioentity/gene/{id}/homologs

Returns homologs for a gene

/bioentity/{type}/{id}

Return basic info on an object for a given type

/bioentity/gene/{id}/interactions

Returns interactions for a gene

/bioentity/gene/{id}/models

Returns models associated with a gene

/bioentity/gene/{id}/ortholog/diseases

Return diseases associated with orthologs of a gene

/bioentity/gene/{id}/ortholog/phenotypes

Return phenotypes associated with orthologs for a gene

/bioentity/gene/{id}/pathways

Returns pathways associated with gene

/bioentity/gene/{id}/phenotypes

Returns phenotypes associated with gene

/bioentity/gene/{id}/publications

Returns publications associated with a gene

/bioentity/gene/{id}/variants

Returns variants associated with a gene

/bioentity/genotype/{id}/cases

Returns cases associated with a genotype

/bioentity/genotype/{id}/diseases

Returns diseases associated with a genotype

/bioentity/genotype/{id}/genes

Returns genes associated with a genotype

/bioentity/genotype/{id}/genotypes

Returns genotypes-genotype associations

/bioentity/genotype/{id}/models

Returns models associated with a genotype

/bioentity/genotype/{id}/phenotypes

Returns phenotypes associated with a genotype

/bioentity/genotype/{id}/publications

Returns publications associated with a genotype

/bioentity/genotype/{id}/variants

Returns genotypes-variant associations

/bioentity/goterm/{id}/genes

Returns associations to GO terms for a gene

/bioentity/model/{id}/cases

Returns cases associated with a model

/bioentity/model/{id}/diseases

Returns diseases associated with a model

/bioentity/model/{id}/genes

Returns genes associated with a model

/bioentity/model/{id}/genotypes

Returns genotypes associated with a model

/bioentity/model/{id}/phenotypes

Returns phenotypes associated with a model

/bioentity/model/{id}/publications

Returns publications associated with a model

/bioentity/model/{id}/variants

Returns variants associated with a model

/bioentity/pathway/{id}/diseases

Returns diseases associated with a pathway

/bioentity/pathway/{id}/genes

Returns genes associated with a pathway

/bioentity/pathway/{id}/phenotypes

Returns phenotypes associated with a pathway

/bioentity/phenotype/{id}/anatomy

Returns anatomical entities associated with a phenotype

/bioentity/phenotype/{id}/cases

Returns cases associated with a phenotype

/bioentity/phenotype/{id}/diseases

Returns diseases associated with a phenotype

/bioentity/phenotype/{id}/gene/{taxid}/ids

Returns gene IDs for all genes associated with a given phenotype, filtered by taxon

/bioentity/phenotype/{id}/genes

Returns genes associated with a phenotype

/bioentity/phenotype/{id}/genotypes

Returns genotypes associated with a phenotype

/bioentity/phenotype/{id}/pathways

Returns pathways associated with a phenotype

/bioentity/phenotype/{id}/publications

Returns publications associated with a phenotype

/bioentity/phenotype/{id}/variants

Returns variants associated with a phenotype

/bioentity/publication/{id}/diseases

Returns diseases associated with a publication

/bioentity/publication/{id}/genes

Returns genes associated with a publication

/bioentity/publication/{id}/genotypes

Returns genotypes associated with a publication

/bioentity/publication/{id}/models

Returns models associated with a publication

/bioentity/publication/{id}/phenotypes

Returns phenotypes associated with a publication

/bioentity/publication/{id}/variants

Returns variants associated with a publication

/bioentity/substance/{id}/participant_in

Returns associations between an activity and process and the specified substance

/bioentity/substance/{id}/roles

Returns associations between given drug and roles

/bioentity/substance/{id}/treats

Returns substances associated with a disease

/bioentity/variant/{id}/cases

Returns cases associated with a variant

/bioentity/variant/{id}/diseases

Returns diseases associated with a variant

/bioentity/variant/{id}/genes

Returns genes associated with a variant

/bioentity/variant/{id}/genotypes

Returns genotypes associated with a variant

/bioentity/variant/{id}/models

Returns models associated with a variant

/bioentity/variant/{id}/phenotypes

Returns phenotypes associated with a variant

/bioentity/variant/{id}/publications

Returns publications associated with a variant

/bioentity/{id}

Returns basic info on object of any type

/bioentity/{id}/associations

Returns associations for an entity regardless of the type

/bioentityset/graph

TODO Graph object spanning all entities

/bioentityset/homologs/

Returns homology associations for a given input set of genes

/bioentityset/associations

Returns compact associations for a given input set

/bioentityset/descriptor/counts

Summary statistics for objects associated

/bioentityset/overrepresentation

Summary statistics for objects associated

/bioentityset/slimmer/anatomy

For a given gene(s), summarize its annotations over a defined set of slim

/bioentityset/slimmer/function

For a given gene(s), summarize its annotations over a defined set of slim

/bioentityset/slimmer/phenotype

For a given gene(s), summarize its annotations over a defined set of slim

/genome/features/within/{build}/{reference}/{begin}/{end}

Returns list of matches

/relation/usage/pivot

Relation usage count for all subj x obj category combinations

/relation/usage/pivot/label

Relation usage count for all subj x obj category combinations, showing label

/relation/usage/

All relations used plus count of associations

/relation/usage/between/{subject_category}/{object_category}

All relations used plus count of associations

/variation/set/{id}

Deletes variant set

/variation/set/{id}

Returns a variant set

/variation/set/{id}

Updates a variant set

/variation/set/

Returns list of variant sets

/variation/set/

Creates a new variant set

/variation/set/analyze/{id}

Returns list of matches

/variation/set/archive/{year}/{month}/{day}

Returns list of variant sets from a specified time period

/cam/activity

Returns list of models

/cam/instance/{id}

Returns list of matches

/cam/instances

Returns list of all instances

/cam/model

Returns list of ALL models

/cam/model/contributors

Returns list of all contributors across all models

/cam/model/properties

Returns list of all properties used across all models

/cam/model/property_values

Returns list property-values for all models

/cam/model/query

Returns list of models matching query

/cam/model/{id}

Returns a complete model

/cam/physical_interaction

Returns list of models

/evidence/graph/{id}

Returns evidence graph object for a given association

/evidence/graph/{id}/table

Returns evidence as a association_results object given an association

/graph/edges/from/{id}

Returns edges emanating from a given node

/graph/node/{id}

Returns a graph node

/identifier/mapper/{source}/{target}/

TODO maps a list of identifiers from a source to a target

/identifier/prefixes/

Returns list of prefixes

/identifier/prefixes/contract/{uri}

Returns contracted URI

/identifier/prefixes/expand/{id}

Returns expanded URI

/individual/pedigree/{id}

Returns list of matches

/individual/{id}

Returns list of matches

/mart/case/{object_category}/{taxon}

Bulk download of case associations

/mart/disease/{object_category}/{taxon}

Bulk download of disease associations

/mart/gene/{object_category}/{taxon}

Bulk download of gene associations

/mart/ortholog/{taxon1}/{taxon2}

Bulk download of orthologs

/mart/paralog/{taxon1}/{taxon2}

Bulk download of paralogs

/metadata/datasets

Get metadata for all datasets from SciGraph

/mme/disease

Match a patient to diseases based on their phenotypes

/mme/fly

Match a patient to fruit fly genes based on similar phenotypes

/mme/mouse

Match a patient to mouse genes based on similar phenotypes

/mme/nematode

Match a patient to nematode genes based on similar phenotypes

/mme/zebrafish

Match a patient to zebrafish genes based on similar phenotypes

/nlp/annotate/

Annotate a given text using SciGraph annotator

/nlp/annotate/

Annotate a given text using SciGraph annotator

/nlp/annotate/entities

Annotate a given content using SciGraph annotator and get all entities from content

/nlp/annotate/entities

Annotate a given content using SciGraph annotator and get all entities from content

/ontol/identifier/

Fetches a map from CURIEs/IDs to labels

/ontol/identifier/

Fetches a map from CURIEs/IDs to labels

/ontol/information_content/{subject_category}/{object_category}/{subject_taxon}

Returns information content (IC) for a set of relevant ontology classes

/ontol/labeler/

Fetches a map from CURIEs/IDs to labels

/ontol/subgraph/{ontology}/{node}

Extract a subgraph from an ontology

/ontol/subgraph/{ontology}/{node}

Extract a subgraph from an ontology

/ontology/shared/{subject}/{object}

Returns the ancestor ontology terms shared by two ontology terms

/ontology/subset/{id}

Returns meta data of an ontology subset (slim)

/ontology/term/{id}

Returns meta data of an ontology term

/ontology/term/{id}/graph

Returns graph of an ontology term

/ontology/term/{id}/subgraph

Extract a subgraph from an ontology term

/ontology/term/{id}/subsets

Returns subsets (slims) associated to an ontology term

/owl/ontology/dlquery/{query}

Placeholder - use OWLery for now

/owl/ontology/sparql/{query}

Placeholder - use direct SPARQL endpoint for now

/pair/sim/jaccard/{id1}/{id2}

Get pairwise similarity

/search/entity/autocomplete/{term}

Returns list of matching concepts or entities using lexical search

/search/entity/hpo-pl/{term}

Returns list of matching concepts or entities using lexical search

/search/entity/{term}

Returns list of matching concepts or entities using lexical search

/sim/compare

Compare a reference profile vs one profiles

/sim/compare

Compare a reference profile vs one or more profiles

/sim/score

Get annotation score

/sim/score

Get annotation score

/sim/search

Search for phenotypically similar diseases or model genes