{ "$schema": "http://json-schema.org/schema#", "required": [], "type": "object", "properties": { "glycoprotein": { "items": { "required": [], "type": "object", "properties": { "residue": { "type": "string", "description": "Amino acid residue of the glycosyltion position on the protein.", "title": "Glycoprotein (evidence database id)" }, "uniprot_canonical_ac": { "type": "string", "description": "UniProtKB canonical accessoin associated to the protein.", "title": "Glycoprotein (evidence database id)" }, "evidence": { "items": { "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated to the ID of the evidence (source) of glycosylation.", "title": "Glycoprotein (evidence URL)" }, "id": { "type": "string", "description": "ID of the evidence (source) of glycosylation.", "title": "Glycoprotein (evidence database id)" }, "database": { "type": "string", "description": "Source of the glycosylation.", "title": "Glycoprotein (evidence database name)" } } }, "type": "array", "description": "", "title": "" }, "protein_name": { "type": "string", "description": "Protein name of the glycoprotein.", "title": "Glycoprotein (evidence database id)" }, "position": { "type": "integer", "description": "Glycosylation position on the protein.", "title": "Glycoprotein (evidence database id)" } } }, "type": "array", "description": "", "title": "" }, "mass_pme": { "type": "number", "description": "Permethylated mass of the glycan", "title": "Glycan permethylated mass" }, "inchi_key": { "description": "", "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated to the InCHI key from PubChem database.", "title": "Glycan InCHI key URL" }, "key": { "type": "string", "description": "InCHI key associated to each glycan from PubChem database.", "title": "Glycan InCHI key" } }, "title": "" }, "classification": { "items": { "required": [], "type": "object", "properties": { "subtype": { "description": "", "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated to the subtype of the glycan.", "title": "Glycan classification subtype (URL)" }, "name": { "type": "string", "description": "Subtype of the glycan.", "title": "Glycan classification subtype (name)" } }, "title": "" }, "type": { "description": "", "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated to the type of the glycan.", "title": "Glycan classification type (URL)" }, "name": { "type": "string", "description": "Type of the glycan (e.g. N-linked).", "title": "Glycan classification type (name)" } }, "title": "" } } }, "type": "array", "description": "", "title": "" }, "names": { "items": { "required": [], "type": "object", "properties": { "domain": { "type": "string", "description": "Domain or type of glycan name", "title": "Glycan names (Domain)" }, "name": { "type": "string", "description": "Name of the glycan.", "title": "Glycan names" } } }, "type": "array", "description": "", "title": "" }, "keywords": { "items": { "type": "string" }, "type": "array", "description": "Keywords associated to the glycan.", "title": "Glycan keywords" }, "wurcs": { "type": "string", "description": "Glycan sequence in WURCS format.", "title": "Glycan sequence (Glycam format)" }, "species": { "items": { "required": [], "type": "object", "properties": { "name": { "type": "string", "description": "Species names from NCBI taxonomy associated to the glycan.", "title": "Glycan species name" }, "url": { "type": "string", "description": "URL associated to the taxonomy identifier of the species associated to the glycan.", "title": "Glycan species URL." }, "evidence": { "items": { "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated to the ID of the evidence or source of the species annotation to the glycan.", "title": "Glycan species evidence URL" }, "id": { "type": "string", "description": "ID associated to the evidence or source of the species annotation to the glycan.", "title": "Glycan species evidence id" }, "database": { "type": "string", "description": "Evidence or source of the species annotation to the glycan.", "title": "Glycan species evidence database name" } } }, "type": "array", "description": "", "title": "" }, "annotation_type": { "type": "string", "description": "Type of annotation (Direct/Subsumption) for species annotation.", "title": "Glycan species (annotation type)" }, "common_name": { "type": "string", "description": "Common name of the species associated to the glycan.", "title": "Glycan species (common name)" }, "tax_id": { "type": "integer", "description": "Taxonomy identifier of the species associated to the glycan.", "title": "Glycan species (Tax id)" } } }, "type": "array", "description": "", "title": "" }, "publication": { "items": { "required": [], "type": "object", "properties": { "reference": { "items": { "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated to the reference id of the publication.", "title": "Glycan publication reference id" }, "type": { "type": "string", "description": "Type of reference associated with the publication.", "title": "Glycan publication reference type" }, "id": { "type": "string", "description": "Reference id associated with the publication.", "title": "Glycan publication reference id" } } }, "type": "array", "description": "", "title": "" }, "title": { "type": "string", "description": "Title of the publication.", "title": "Glycan publication evidence id" }, "journal": { "type": "string", "description": "Journal name of the publication.", "title": "Glycan publication journal name" }, "evidence": { "items": { "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated with the ID of the publication.", "title": "Glycan publication evidence URL" }, "id": { "type": "string", "description": "ID of the publication.", "title": "Glycan publication evidence id" }, "database": { "type": "string", "description": "Source of the publication.", "title": "Glycan publication evidence" } } }, "type": "array", "description": "", "title": "" }, "authors": { "type": "string", "description": "Name of the author associated to a publication id.", "title": "Glycan publication (Authors name)" }, "date": { "type": "string", "description": "Date of the publication.", "title": "Glycan publication date" } } }, "type": "array", "description": "", "title": "" }, "subsumption": { "items": { "required": [], "type": "object", "properties": { "type": { "type": "string", "description": "Type of subsumption.", "title": "Glycan subsumption type." }, "id": { "type": "string", "description": "GlyTouCan accession inreference to the subsumption information.", "title": "Glycan subsumption." }, "relationship": { "type": "string", "description": "Glycan to Glycan relationship.", "title": "Glycan subsumption relationship." } } }, "type": "array", "description": "", "title": "" }, "glytoucan": { "description": "", "required": [], "type": "object", "properties": { "glytoucan_ac": { "type": "string", "description": "Glycan accession from GlyTouCan database.", "title": "Glycan GlyTouCan ac" }, "glytoucan_url": { "type": "string", "description": "URL associated to the GlyTouCan accession.", "title": "Glycan GlyTouCan accession URL" } }, "title": "" }, "motifs": { "items": { "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated with the motif of the glycan.", "title": "Glycan motifs URL" }, "id": { "type": "string", "description": "Id of the glycan motif", "title": "Glycan motifs (Id)" }, "name": { "type": "string", "description": "Name of the motif associated with the glycan.", "title": "Glycan motifs name" } } }, "type": "array", "description": "", "title": "" }, "composition": { "items": { "required": [], "type": "object", "properties": { "residue": { "type": "string", "description": "Glycan monosaccharide residue", "title": "Glycan monosaccharide residue" }, "count": { "type": "integer", "description": "Count of the number of monosaccharides in a glycan.", "title": "Glycan monosaccharide count" }, "url": { "type": "string", "description": "Glycan monosaccharide url", "title": "Glycan monosaccharide url" }, "name": { "type": "string", "description": "Name of the monosaccharide given in the glycan composition.", "title": "Glycan monosaccharide name" }, "cid": { "type": "string", "description": "Monosaccharide composition of the glycan.", "title": "Glycan monosaccharide composition" } } }, "type": "array", "description": "", "title": "" }, "interactions": { "items": { "required": [], "type": "object", "properties": { "interactor_name": { "type": "string", "description": "Name of the interactor (protein) in reference to the protein-GAGs interaction data.", "title": "Glycan interactions (interactor name)" }, "interactor_type": { "type": "string", "description": "Type of interactor (protein).", "title": "Glycan interactions (interactor type)" }, "interactor_id": { "type": "string", "description": "ID associated to the protein in reference to the protein-GAGs interaction data.", "title": "Glycan interactions (interactor id)" }, "evidence": { "items": { "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated to the ID of the evidence (source) of interaction data.", "title": "Glycan interactions (evidence URL)" }, "id": { "type": "string", "description": "ID of the evidence (source) of interaction data.", "title": "Glycan interactions (evidence id)" }, "database": { "type": "string", "description": "Name of the source database for Protein-GAGs interaction database.", "title": "Glycan interactions (database name)" } } }, "type": "array", "description": "", "title": "" } } }, "type": "array", "description": "", "title": "" }, "glycam": { "type": "string", "description": "Glycan sequence in glycam format.", "title": "Glycan sequence (Glycam format)" }, "inchi": { "type": "string", "description": "Glycqan sequence in InCHI format from PubChem database.", "title": "Glycan sequence (InCHI format)" }, "crossref": { "items": { "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL of the x-ref associated with the glycan (GlyTouCan) from the source database.", "title": "Glycan xref (URL)" }, "id": { "type": "string", "description": "ID of the xref associated with the glycan (GlyTouCan ac) from the source database.", "title": "Glycan xref(id)" }, "database": { "type": "string", "description": "Name of the database corresponding to x-ref associated with the glycan(GlyTOuCan ac).", "title": "Glycan xref (database)" } } }, "type": "array", "description": "", "title": "" }, "tool_support": { "description": "", "required": [], "type": "object", "properties": { "sandbox": { "type": "string", "description": "Glycan (GlyTouCan accession) with a flag (Yes/No) for SandBox tool support.", "title": "Glycan tool support (SandBox)" }, "gnome": { "type": "string", "description": "Glycan (GlyTouCan accession) with a flag (Yes/No) for GNOme support.", "title": "Glycan tool support (GNOme)" } }, "title": "" }, "enzymes": { "items": { "required": [], "type": "object", "properties": { "uniprot_canonical_ac": { "type": "string", "description": "UniProtKB canonical accessin associated to the protein (enzyme) synthesizing the glycan.", "title": "Glycan enzyme (UniProtKB canonical Ac)" }, "gene_link": { "type": "string", "description": "Glycan enzyme (Gene link)", "title": "Glycan enzyme (Gene link)" }, "protein_name": { "type": "string", "description": "Protein name of the enzyme synthesizing the associated glycan.", "title": "Glycan enzyme (Protein name)" }, "tax_name": { "type": "string", "description": "Species names from NCBI taxonomy associated to the protein (enzyme) synthesizing the glycan.", "title": "Glycan enzyme (Tax name)" }, "tax_common_name": { "type": "string", "description": "Common name of the species associated to the protein (enzyme) synthesizing the glycan.", "title": "Glycan enzyme (Taxonomy-Common name)" }, "gene": { "type": "string", "description": "Gene name of the enzyme synthesizing the associated glycan.", "title": "Glycan enzyme (Gene name)" }, "tax_id": { "type": "integer", "description": "Taxonomy identifier of the species associated to the protein (enzyme) synthesizing the glycan.", "title": "Glycan enzyme (Tax id)" } } }, "type": "array", "description": "", "title": "" }, "glycoct": { "type": "string", "description": "Glycan sequence in GlycoCT format.", "title": "Glycan sequence (GlycoCT format)" }, "iupac": { "type": "string", "description": "Glycan sequence in a IUPAC format.", "title": "Glycan sequence (IUPAC format)" }, "smiles_isomeric": { "type": "string", "description": "Glycan sequences in SMILES-Isomeric format from PubChem database.", "title": "Glycan sequence (SMILES isomeric)" }, "mass": { "type": "number", "description": "Monoisotopic mass of glycan.", "title": "Glycan mass" }, "expression": { "items": { "required": [], "type": "object", "properties": { "residue": { "type": "string", "description": "Amino acid residue of the glycosyltion position on the protein in reference to the expression tissue.", "title": "Glycan expression (glycosylation amino acid residue)" }, "uniprot_canonical_ac": { "type": "string", "description": "UniProtKB canonical accessoin associated to the protein in reference to the expression information.", "title": "Glycan expression (UniProtKB canonical accession)" }, "evidence": { "items": { "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated to the id of the evidence(source) for tissue/cell-line expression information for protein/glycan.", "title": "Glycan expression (evidence URL)" }, "id": { "type": "string", "description": "Id associated to the evidence(source) for tissue/cell-line expression information for protein/glycan.", "title": "Glycan expression (evidence id)" }, "database": { "type": "string", "description": "Source database for tissue/cell-line expression information associated to the protein/glycan.", "title": "Glycan expression (evidence database)" } } }, "type": "array", "description": "", "title": "" }, "tissue": { "description": "", "required": [], "type": "object", "properties": { "uberon_id": { "type": "string", "description": "Tissue ID from the UBERON from which the protein/glycan was expressed.", "title": "Glycan expression (uberon id)" }, "url": { "type": "string", "description": "URL associated to the uberon id from the UBERON.", "title": "Glycan expression (tissue url)" }, "name": { "type": "string", "description": "Name of the tissue from UBERON from which the protein/glycan was expressed.", "title": "Glycan expression (Tissue name)" } }, "title": "" }, "cell_line": { "description": "", "required": [], "type": "object", "properties": { "url": { "type": "string", "description": "URL associated to the cellosaurus id from the cellosaurus database.", "title": "Glycan expressio (Cell-line URL)" }, "cellosaurus_id": { "type": "string", "description": "Cell line ID from the cellosaurus database from which the protein/glycan was expressed.", "title": "Glycan expression (Cellosaurus id)" }, "name": { "type": "string", "description": "Name of the cell line from cellosaurus database from which the protein/glycan was expressed.", "title": "Glycan expression (Cell-line name)" } }, "title": "" }, "position": { "type": "integer", "description": "Glycosylation position on the protein in reference to the expression information.", "title": "Glycan expression (glycosylation position)" } } }, "type": "array", "description": "", "title": "" } } }