2. gene
2.1. Fields
| Path | Type | Description |
|---|---|---|
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List of accession IDs for alleles. |
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List of names for alleles. |
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List of alternative Mouse Phenotype (MP) IDs. |
|
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List of annotated higher level Mouse Anatomy (MA) term names. |
|
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List of annotated higher level Mouse Phenotype (MP) term names. |
|
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The assignment status. |
|
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List of Consensus CDS (CCDS) IDs. |
|
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List of child Mouse Anatomy (MA) IDs. |
|
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List of child Mouse Anatomy (MA) terms. |
|
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List of synonyms for child MA terms. |
|
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List of child Mouse Phenotype (MP) IDs. |
|
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List of child MP terms. |
|
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List of synonyms for child MP terms. |
|
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Chromosome end position. |
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Name of the chromosome. |
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Chromosome start position. |
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Chromosome strand. |
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List of clan accession numbers. |
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List of clan descriptions. |
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List of clan IDs. |
|
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Production status of the conditional allele. |
|
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Production status of the CRISPR allele. |
|
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The type of data. |
|
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Raw data from datasets. |
|
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List of alternative disease names. |
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List of disease classes. |
|
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Human phenotypes related to the disease. |
|
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List of disease IDs. |
|
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List of sources for disease data. |
|
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List of disease terms. |
|
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Indicates if DMDD image data is available. |
|
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Indicates if DMDD lethal data is available. |
|
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Name of the embryo analysis view. |
|
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URL for the embryo analysis view. |
|
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Indicates if embryo data is available. |
|
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List of modalities for embryo analysis. |
|
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List of Ensembl gene IDs. |
|
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Production status of the ES cell. |
|
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Evidence code rank. |
|
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List of experiment names. |
|
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Count of Gene Ontology (GO) terms associated. |
|
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List of GO term definitions. |
|
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List of domains for GO terms. |
|
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List of evidence for GO terms. |
|
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List of GO term IDs. |
|
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List of GO term names. |
|
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List of UniProt IDs associated with GO terms. |
|
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Indicates if quality control (QC) has been performed. |
|
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List of Human Phenotype Ontology (HPO) IDs. |
|
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List of HPO terms. |
|
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Indicates if the gene has been curated by human experts. |
|
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List of human gene symbols associated with the gene. |
|
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List of human gene Synonym associated with the gene. |
|
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Indicates if novel IMPC predictions exist within the gene locus. |
|
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Indicates if there are IMPC predictions for the gene. |
|
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Specific locus for the IMPC predicted gene. |
|
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Indicates if known genes are predicted by IMPC within the locus. |
|
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List of inferred child Mouse Anatomy (MA) IDs. |
|
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List of inferred child MA terms. |
|
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List of synonyms for the inferred child MA terms. |
|
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List of inferred Mouse Anatomy (MA) IDs. |
|
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List of inferred MA terms. |
|
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List of synonyms for the inferred MA terms. |
|
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List of IDs for the inferred selected top-level MA terms. |
|
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List of inferred selected top-level MA terms. |
|
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List of synonyms for the inferred selected top-level MA terms. |
|
|
List of intermediate Mouse Phenotype (MP) IDs. |
|
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List of intermediate MP terms. |
|
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List of synonyms for the intermediate MP terms. |
|
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Indicates if the gene is part of the IDG (Illuminating the Druggable Genome) project. |
|
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Indicates if the gene is associated with the University of Massachusetts. |
|
|
List of Mouse Anatomy (MA) IDs. |
|
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List of MA terms. |
|
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List of definitions for the MA terms. |
|
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List of synonyms for the MA terms. |
|
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General name of the marker. |
|
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Symbol representing the marker. |
|
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List of synonyms for the marker. |
|
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Type of marker. |
|
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MGI (Mouse Genome Informatics) accession ID for the gene. |
|
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Indicates if novel MGI predictions exist within the gene locus. |
|
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Indicates if there are MGI predictions for the gene. |
|
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Specific locus for the MGI predicted gene. |
|
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Indicates if known genes are predicted by MGI within the locus. |
|
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Indicates if the gene has been curated by mouse experts. |
|
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The production status of the mouse model for the gene. |
|
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List of Mouse Phenotype (MP) IDs. |
|
|
List of MP terms. |
|
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List of definitions for the MP terms. |
|
|
List of synonyms for the MP terms. |
|
|
List of NCBI IDs associated with the gene. |
|
|
List of top-level MP terms not deemed significant. |
|
|
Production status for null alleles. |
|
|
List of p-values associated with statistical tests. |
|
|
List of names for parameters used in experiments. |
|
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List of stable IDs for the experimental parameters. |
|
|
List of Pfam A accession numbers. |
|
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GO categories associated with Pfam A entries. |
|
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GO IDs associated with Pfam A entries. |
|
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GO terms associated with Pfam A entries. |
|
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List of Pfam A IDs. |
|
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JSON data related to Pfam A entries. |
|
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Status of the phenotyping effort for the gene. |
|
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List of centres where phenotyping has been conducted. |
|
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Indicates if phenotyping data is available for the gene. |
|
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List of names for pipelines used in data generation. |
|
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List of stable IDs for the pipelines. |
|
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List of names for procedure parameters. |
|
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List of stable IDs for the procedure parameters. |
|
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List of names for procedures. |
|
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List of stable IDs for the procedures. |
|
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List of centres responsible for producing the models. |
|
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List of IDs from the Sanger Cancer Database. |
|
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List of links to the Sanger Cancer Database. |
|
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List of selected top-level Mouse Anatomy (MA) IDs. |
|
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List of selected top-level MA terms. |
|
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ID of the selected top-level MA term. |
|
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List of synonyms for the selected top-level MA terms. |
|
|
End position on the sequence region. |
|
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ID of the sequence region. |
|
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Start position on the sequence region. |
|
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List of significant top-level MP terms. |
|
|
List of subtypes associated with the gene. |
|
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Definition of the top-level MP term. |
|
|
List of top-level MP IDs. |
|
|
List of top-level MP terms. |
|
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List of synonyms for the top-level MP terms. |
|
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The type of document or data. |
|
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List of VEGA IDs associated with the gene. |
|
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List of cross-references for the gene. |
2.2. Example Json
HTTP/1.1 200 OK
Content-Type: application/json
Content-Length: 6966
{
"allele_accession_id" : [ "MGI:123456" ],
"allele_name" : [ "Allele Name 1", "Allele Name 2" ],
"alt_mp_id" : [ "MP:0000001", "MP:0000002" ],
"annotated_higher_level_ma_term_name" : [ "Term 1", "Term 2" ],
"annotated_higher_level_mp_term_name" : [ "Term 3", "Term 4" ],
"assignment_status" : "Assigned",
"ccds_id" : [ "CCDS:1234", "CCDS:5678" ],
"child_ma_id" : [ "MA:0000001", "MA:0000002" ],
"child_ma_term" : [ "Child MA Term 1", "Child MA Term 2" ],
"child_ma_term_synonym" : [ "Synonym 1", "Synonym 2" ],
"child_mp_id" : [ "MP:0000003", "MP:0000004" ],
"child_mp_term" : [ "Child MP Term 1", "Child MP Term 2" ],
"child_mp_term_synonym" : [ "Child Synonym 1", "Child Synonym 2" ],
"chr_end" : 10000,
"chr_name" : "Chr1",
"chr_start" : 5000,
"chr_strand" : "+",
"clan_acc" : [ "Clan 1", "Clan 2" ],
"clan_desc" : [ "Clan Desc 1", "Clan Desc 2" ],
"clan_id" : [ "Clan ID 1", "Clan ID 2" ],
"conditional_allele_production_status" : "Complete",
"crispr_allele_production_status" : "Pending",
"data_type" : "Genomic",
"datasets_raw_data" : "RawData123",
"disease_alts" : [ "Disease Alt 1", "Disease Alt 2" ],
"disease_classes" : [ "Disease Class 1", "Disease Class 2" ],
"disease_human_phenotypes" : "None",
"disease_id" : [ "Disease ID 1", "Disease ID 2" ],
"disease_source" : [ "Source 1", "Source 2" ],
"disease_term" : [ "Disease Term 1", "Disease Term 2" ],
"dmdd_image_data_available" : true,
"dmdd_lethal_data_available" : false,
"embryo_analysis_view_name" : "EmbryoView1",
"embryo_analysis_view_url" : "http://example.com/embryo",
"embryo_data_available" : true,
"embryo_modalities" : [ "Modality 1", "Modality 2" ],
"ensembl_gene_id" : [ "ENSG00000123456", "ENSG00000123457" ],
"es_cell_production_status" : "In Progress",
"evid_code_rank" : 1,
"exp_name" : [ "Experiment 1", "Experiment 2" ],
"go_count" : 5,
"go_term_def" : [ "GO Definition 1", "GO Definition 2" ],
"go_term_domain" : [ "Domain 1", "Domain 2" ],
"go_term_evid" : [ "Evidence 1", "Evidence 2" ],
"go_term_id" : [ "GO:0000001", "GO:0000002" ],
"go_term_name" : [ "GO Name 1", "GO Name 2" ],
"go_uniprot" : [ "UniProt 1", "UniProt 2" ],
"has_qc" : 1,
"hp_id" : [ "HP:0000001", "HP:0000002" ],
"hp_term" : [ "HP Term 1", "HP Term 2" ],
"human_curated" : [ true, false ],
"human_gene_symbol" : [ "Gene Symbol 1", "Gene Symbol 2" ],
"human_symbol_synonym" : [ "Synonym1", "Synonym2" ],
"impc_novel_predicted_in_locus" : [ true, false ],
"impc_predicted" : [ true, true ],
"impc_predicted_in_locus" : "Locus1",
"impc_predicted_known_gene" : [ true, false ],
"inferred_child_ma_id" : [ "MA:0000003", "MA:0000004" ],
"inferred_child_ma_term" : [ "Inferred Child MA Term 1", "Inferred Child MA Term 2" ],
"inferred_child_ma_term_synonym" : [ "Inferred Synonym 1", "Inferred Synonym 2" ],
"inferred_ma_id" : [ "MA:0000005", "MA:0000006" ],
"inferred_ma_term" : [ "Inferred MA Term 1", "Inferred MA Term 2" ],
"inferred_ma_term_synonym" : [ "Inferred Term Synonym 1", "Inferred Term Synonym 2" ],
"inferred_selected_top_level_ma_id" : [ "MA:0000007", "MA:0000008" ],
"inferred_selected_top_level_ma_term" : [ "Selected MA Term 1", "Selected MA Term 2" ],
"inferred_selected_top_level_ma_term_synonym" : [ "Selected Term Synonym 1", "Selected Term Synonym 2" ],
"intermediate_mp_id" : [ "MP:0000005", "MP:0000006" ],
"intermediate_mp_term" : [ "Intermediate MP Term 1", "Intermediate MP Term 2" ],
"intermediate_mp_term_synonym" : [ "Intermediate MP Synonym 1", "Intermediate MP Synonym 2" ],
"is_idg_gene" : true,
"is_umass_gene" : false,
"ma_id" : [ "MA:0000009", "MA:0000010" ],
"ma_term" : [ "MA Term 1", "MA Term 2" ],
"ma_term_definition" : [ "MA Definition 1", "MA Definition 2" ],
"ma_term_synonym" : [ "MA Synonym 1", "MA Synonym 2" ],
"marker_name" : "Marker Name Example",
"marker_symbol" : "MkSym",
"marker_synonym" : [ "Marker Synonym 1", "Marker Synonym 2" ],
"marker_type" : "Marker Type Example",
"mgi_accession_id" : "MGI:0000001",
"mgi_novel_predicted_in_locus" : [ true, false ],
"mgi_predicted" : [ false, true ],
"mgi_predicted_in_locus" : "In Locus Example",
"mgi_predicted_known_gene" : [ true, true ],
"mouse_curated" : [ true, false ],
"mouse_production_status" : "Production Status Example",
"mp_id" : [ "MP:0000007", "MP:0000008" ],
"mp_term" : [ "MP Term 1", "MP Term 2" ],
"mp_term_definition" : [ "MP Definition 1", "MP Definition 2" ],
"mp_term_synonym" : [ "MP Synonym 1", "MP Synonym 2" ],
"ncbi_id" : [ "NCBI:0000001", "NCBI:0000002" ],
"not_significant_top_level_mp_terms" : [ "Not Significant MP Term 1", "Not Significant MP Term 2" ],
"null_allele_production_status" : "Null Production Status Example",
"p_value" : [ 0.01, 0.05 ],
"parameter_name" : [ "Parameter Name 1", "Parameter Name 2" ],
"parameter_stable_id" : [ "Stable ID 1", "Stable ID 2" ],
"pfama_acc" : [ "Pfam Acc 1", "Pfam Acc 2" ],
"pfama_go_cat" : [ "GO Category 1", "GO Category 2" ],
"pfama_go_id" : [ "GO:0000003", "GO:0000004" ],
"pfama_go_term" : [ "GO Term 1", "GO Term 2" ],
"pfama_id" : [ "Pfam ID 1", "Pfam ID 2" ],
"pfama_json" : [ "{\"key\": \"value\"}", "{\"key\": \"value2\"}" ],
"phenotype_status" : "Phenotype Status Example",
"phenotyping_centre" : [ "Centre 1", "Centre 2" ],
"phenotyping_data_available" : true,
"pipeline_name" : [ "Pipeline Name 1", "Pipeline Name 2" ],
"pipeline_stable_id" : [ "Pipeline Stable ID 1", "Pipeline Stable ID 2" ],
"proc_param_name" : [ "Param Name 1", "Param Name 2" ],
"proc_param_stable_id" : [ "Param Stable ID 1", "Param Stable ID 2" ],
"procedure_name" : [ "Procedure Name 1", "Procedure Name 2" ],
"procedure_stable_id" : [ "Procedure Stable ID 1", "Procedure Stable ID 2" ],
"production_centre" : [ "Production Centre 1", "Production Centre 2" ],
"scdb_id" : [ "SCDB ID 1", "SCDB ID 2" ],
"scdb_link" : [ "http://example.com/scdb1", "http://example.com/scdb2" ],
"selected_top_level_ma_id" : [ "Selected MA ID 1", "Selected MA ID 2" ],
"selected_top_level_ma_term" : [ "Selected MA Term 1", "Selected MA Term 2" ],
"selected_top_level_ma_term_id" : "Selected MA Term ID Example",
"selected_top_level_ma_term_synonym" : [ "Selected MA Term Synonym 1", "Selected MA Term Synonym 2" ],
"seq_region_end" : 123456789,
"seq_region_id" : "Region ID Example",
"seq_region_start" : 987654321,
"significant_top_level_mp_terms" : [ "Significant MP Term 1", "Significant MP Term 2" ],
"subtype" : [ "Subtype 1", "Subtype 2" ],
"top_level_mp_definition" : "Top Level MP Definition Example",
"top_level_mp_id" : [ "Top MP ID 1", "Top MP ID 2" ],
"top_level_mp_term" : [ "Top MP Term 1", "Top MP Term 2" ],
"top_level_mp_term_synonym" : [ "Top MP Term Synonym 1", "Top MP Term Synonym 2" ],
"type" : "Type Example",
"vega_id" : [ "Vega ID 1", "Vega ID 2" ],
"xref" : [ "Xref 1", "Xref 2" ]
}
3. Latest updates
-
2024-04-15: Documentation Added