{ "disease": { "organism": [ { "name": "Fruit fly", "id": 7227 }, { "name": "Human", "id": 9606 }, { "name": "Zebrafish", "id": 7955 }, { "name": "Mouse", "id": 10090 }, { "name": "Rat", "id": 10116 }, { "name": "Yeast", "id": 559292 }, { "name": "HCV-Japanese", "id": 11116 }, { "name": "HCV-H77", "id": 63746 }, { "name": "HCoV-SARS", "id": 694009 }, { "name": "Bovine", "id": 9913 }, { "name": "Chicken", "id": 9031 }, { "name": "Rattus", "id": 10114 }, { "name": "Hamster", "id": 10029 }, { "name": "Pig", "id": 9823 }, { "name": "SARS-CoV-2", "id": 2697049 }, { "name": "Arabidopsis", "id": 3702 }, { "name": "Yeast", "id": 4932 } ], "biomarker_types": [ "predictive", "diagnostic", "prognostic", "monitoring", "risk", "response" ], "simple_search_category": [ { "id": "any", "display": "Any" }, { "id": "organism", "display": "Organism" }, { "id": "protein", "display": "Protein" }, { "id": "glycan", "display": "Glycan" }, { "id": "biomarker", "display": "Biomarker" } ] }, "usecases": { "species_to_glycohydrolases": { "organism": { "3702": { "id": 3702, "name": "Arabidopsis" }, "9606": { "id": 9606, "name": "Human" }, "9913": { "id": 9913, "name": "Bovine" }, "559292": { "id": 559292, "name": "Yeast" }, "7227": { "id": 7227, "name": "Fruit fly" }, "44689": { "id": 44689, "name": "Cellular slime mold" }, "10090": { "id": 10090, "name": "Mouse" }, "9031": { "id": 9031, "name": "Chicken" }, "10116": { "id": 10116, "name": "Rat" }, "9823": { "id": 9823, "name": "Pig" }, "7955": { "id": 7955, "name": "Zebrafish" } } }, "species_to_glycosyltransferases": { "organism": { "9606": { "id": 9606, "name": "Human" }, "3702": { "id": 3702, "name": "Arabidopsis" }, "559292": { "id": 559292, "name": "Yeast" }, "7227": { "id": 7227, "name": "Fruit fly" }, "10116": { "id": 10116, "name": "Rat" }, "10090": { "id": 10090, "name": "Mouse" }, "44689": { "id": 44689, "name": "Cellular slime mold" }, "9913": { "id": 9913, "name": "Bovine" }, "9823": { "id": 9823, "name": "Pig" }, "10029": { "id": 10029, "name": "Hamster" }, "7955": { "id": 7955, "name": "Zebrafish" }, "9031": { "id": 9031, "name": "Chicken" } } }, "species_to_glycoproteins": { "organism": { "10090": { "id": 10090, "name": "Mouse", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_detected_by_literature_mining", "display": "Sites detected by literature mining" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" } ] }, "10116": { "id": 10116, "name": "Rat", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" }, { "id": "sites_detected_by_literature_mining", "display": "Sites detected by literature mining" } ] }, "9606": { "id": 9606, "name": "Human", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_detected_by_literature_mining", "display": "Sites detected by literature mining" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" } ] }, "9913": { "id": 9913, "name": "Bovine", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" } ] }, "3702": { "id": 3702, "name": "Arabidopsis", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" } ] }, "7955": { "id": 7955, "name": "Zebrafish", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" } ] }, "44689": { "id": 44689, "name": "Cellular slime mold", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" } ] }, "10029": { "id": 10029, "name": "Hamster", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "predicted_sites", "display": "Predicted sites" } ] }, "9031": { "id": 9031, "name": "Chicken", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "predicted_sites", 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"name": "Pig", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "sites_detected_by_literature_mining", "display": "Sites detected by literature mining" } ] }, "7227": { "id": 7227, "name": "Fruit fly", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" }, { "id": "sites_detected_by_literature_mining", "display": "Sites detected by literature mining" } ] }, "694009": { "id": 694009, "name": "HCoV-SARS", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" } ] }, "2697049": { "id": 2697049, "name": "SARS-CoV-2", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "sites_detected_by_literature_mining", "display": "Sites detected by literature mining" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" } ] }, "11116": { "id": 11116, "name": "HCV-Japanese", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" } ] }, "63746": { "id": 63746, "name": "HCV-H77", "evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" } ] } } } }, "biomarker": { "best_biomarker_role": [ "diagnostic", "risk", "prognostic", "predictive", "monitoring", "response" ], 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"PR_Q6IMP4", "PR_P43589", "PR_P02767", "PR_Q14CS0", "PR_Q8BYM8" ] }, { "source": "Rhea", "targetlist": [ "AGR", "AlphaFoldDB", "Bgee", "GeneID", "GlyConnect", "InterPro", "KEGG Pathway", "MGI", "O-GlcNAc Atlas", "OMA", "OrthoDB", "PANTHER", "Pfam", "PRO", "Reactome", "RefSeq", "UniProtKB", "CDD", "IEDB", "BRENDA", "IntAct", "ChEMBL", "ZFIN", "BioMuta", "CAZy", "GeneCards", "HGNC", "HPO", "iCn3D", "MIM", "PDB", "PHAROS", "GlycoProtDB", "FlyBase", "dictyBase", "Araport", "TAIR", "RGD", "UniCarbKB", "BiomarkerKB", "PRIDE" ], "example_id_list": [ "17989", "46608", "13065", "19669", "29463" ] }, { "source": "iCn3D", "targetlist": [ "AGR", "AlphaFoldDB", "CDD", "GeneID", "IntAct", "InterPro", "KEGG Pathway", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PRO", "RefSeq", "SGD", "UniProtKB", "Bgee", "ChEMBL", "Reactome", "RGD", "GeneCards", "HGNC", "IEDB", "MIM", "PHAROS", "BioMuta", "BRENDA", "CAZy", "HPO", "Rhea", "Araport", "TAIR", "MGI", "O-GlcNAc Atlas", "GlyConnect", "UniCarbKB", "GlycoProtDB", "FlyBase", "PRIDE", "ZFIN", "BiomarkerKB", "dictyBase", "Viral Glycome", "euHCVdb", "HepatitisCOnline", "ViPR" ], "example_id_list": [ "8J07", "9G8M", "8ANY", "6ZME", "8OIR" ] }, { "source": "IntAct", "targetlist": [ "AGR", "AlphaFoldDB", "CDD", "GeneID", "iCn3D", "InterPro", "KEGG Pathway", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PRO", "RefSeq", "SGD", "UniProtKB", "Bgee", "ChEMBL", "Reactome", "RGD", "GeneCards", "HGNC", "IEDB", "MIM", "PHAROS", "O-GlcNAc Atlas", "MGI", "Rhea", "BioMuta", "BRENDA", "CAZy", "HPO", "GlycoProtDB", "FlyBase", "Araport", "TAIR", "GlyConnect", "UniCarbKB", "dictyBase", "PRIDE", "BiomarkerKB", "ZFIN", "euHCVdb", "HepatitisCOnline", "ViPR" ], "example_id_list": [ "P43589", "P02767", "Q14CS0", "Q5VUR7", "A3KGF7" ] }, { "source": "PDB", "targetlist": [ "AGR", "AlphaFoldDB", "CDD", "GeneID", "iCn3D", "IntAct", "InterPro", "KEGG Pathway", "OMA", "OrthoDB", "PANTHER", "Pfam", "PRO", "RefSeq", "SGD", "UniProtKB", "Bgee", "ChEMBL", "Reactome", "RGD", "GeneCards", "HGNC", "IEDB", "MIM", "PHAROS", "BioMuta", "BRENDA", "CAZy", "HPO", "Rhea", "Araport", "TAIR", "MGI", "O-GlcNAc Atlas", "GlyConnect", "UniCarbKB", "GlycoProtDB", "FlyBase", "PRIDE", "ZFIN", "BiomarkerKB", "dictyBase", "Viral Glycome", "euHCVdb", "HepatitisCOnline", "ViPR" ], "example_id_list": [ "8J07", "9G8M", "8ANY", "6ZME", "8OIR" ] }, { "source": "SGD", "targetlist": [ "AGR", "AlphaFoldDB", "CDD", "GeneID", "iCn3D", "IntAct", "InterPro", "KEGG Pathway", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PRO", "RefSeq", "UniProtKB", "Reactome", "BRENDA", "CAZy", "ChEMBL", "O-GlcNAc Atlas", "PRIDE", "IEDB", "GlyConnect" ], "example_id_list": [ "S000001901", "S000000297", "S000003418", "S000000300", "S000003270" ] }, { "source": "ChEMBL", "targetlist": [ "AGR", "AlphaFoldDB", "Bgee", "CDD", "GeneID", "iCn3D", "IntAct", "InterPro", "KEGG Pathway", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PRO", "Reactome", "RefSeq", "RGD", "UniProtKB", "Rhea", "ZFIN", "BioMuta", 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"CAZy", "ChEMBL", "HPO", "Reactome", "Rhea", "UniCarbKB", "GlyConnect", "PRIDE", "BiomarkerKB" ], "example_id_list": [ "LOC124905564", "UBXN2B", "ANKRD20A3P", "POMGNT1", "MBD1" ] }, { "source": "HGNC", "targetlist": [ "AGR", "AlphaFoldDB", "Bgee", "CDD", "GeneCards", "GeneID", "iCn3D", "IEDB", "IntAct", "InterPro", "KEGG Pathway", "MIM", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PHAROS", "PRO", "RefSeq", "UniProtKB", "O-GlcNAc Atlas", "BioMuta", "BRENDA", "CAZy", "ChEMBL", "HPO", "Reactome", "Rhea", "UniCarbKB", "GlyConnect", "PRIDE", "BiomarkerKB" ], "example_id_list": [ "2440", "28268", "30004", "37233", "18876" ] }, { "source": "IEDB", "targetlist": [ "AGR", "AlphaFoldDB", "Bgee", "CDD", "GeneCards", "GeneID", "HGNC", "iCn3D", "IntAct", "InterPro", "KEGG Pathway", "MIM", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PHAROS", "PRO", "RefSeq", "UniProtKB", "O-GlcNAc Atlas", "MGI", "Rhea", "Reactome", "BioMuta", "BRENDA", "CAZy", "ChEMBL", "HPO", "GlycoProtDB", "GlyConnect", "RGD", "UniCarbKB", "PRIDE", "BiomarkerKB", "FlyBase", "Viral Glycome", "Araport", "TAIR", "SGD", "ZFIN", "euHCVdb", "HepatitisCOnline", "ViPR" ], "example_id_list": [ "446236", "146163", "235748", "196338", "194168" ] }, { "source": "MIM", "targetlist": [ "AGR", "AlphaFoldDB", "Bgee", "CDD", "GeneCards", "GeneID", "HGNC", "iCn3D", "IEDB", "IntAct", "InterPro", "KEGG Pathway", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PHAROS", "PRO", "RefSeq", "UniProtKB", "BioMuta", "BRENDA", "CAZy", "ChEMBL", "HPO", "Reactome", "Rhea", "O-GlcNAc Atlas", "UniCarbKB", "GlyConnect", "PRIDE", "BiomarkerKB" ], "example_id_list": [ "125853", "604968", "114500", "604967", "604966" ] }, { "source": "PHAROS", "targetlist": [ "AGR", "AlphaFoldDB", "Bgee", "CDD", "GeneCards", "GeneID", "HGNC", "iCn3D", "IEDB", "IntAct", "InterPro", "KEGG Pathway", "MIM", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PRO", "RefSeq", "UniProtKB", "O-GlcNAc Atlas", "BioMuta", "BRENDA", "CAZy", "ChEMBL", "HPO", "Reactome", "Rhea", "UniCarbKB", "GlyConnect", "PRIDE", "BiomarkerKB" ], "example_id_list": [ "Q14CS0", "Q5VUR7", "Q8WZA1", "Q9UIS9", "P00846" ] }, { "source": "Araport", "targetlist": [ "AlphaFoldDB", "GeneID", "InterPro", "KEGG Pathway", "OMA", "OrthoDB", "PANTHER", "Pfam", "RefSeq", "TAIR", "UniProtKB", "CDD", "iCn3D", "PDB", "PRO", "IntAct", "O-GlcNAc Atlas", "CAZy", "Rhea", "BRENDA", "PRIDE", "ChEMBL", "IEDB", "GlyConnect" ], "example_id_list": [ "AT5G61550", "AT4G20530", "AT1G48610", "AT2G03670", "AT3G16440" ] }, { "source": "TAIR", "targetlist": [ "AlphaFoldDB", "Araport", "GeneID", "InterPro", "KEGG Pathway", "OMA", "OrthoDB", "PANTHER", "Pfam", "RefSeq", "UniProtKB", "CDD", "iCn3D", "PDB", "PRO", "IntAct", "O-GlcNAc Atlas", "CAZy", "Rhea", "BRENDA", "PRIDE", "ChEMBL", "IEDB", "GlyConnect" ], "example_id_list": [ "AT5G61550", "AT4G20530", "AT1G48610", "AT4G04030", "AT2G03670" ] }, { "source": "BRENDA", "targetlist": [ "AlphaFoldDB", "GeneID", "InterPro", "KEGG Pathway", "OrthoDB", "PANTHER", 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Pathway", "OMA", "OrthoDB", "PANTHER", "Pfam", "PRO", "Reactome", "RefSeq", "Rhea", "UniProtKB", "BRENDA", "iCn3D", "PDB", "CAZy", "IntAct", "IEDB" ], "example_id_list": [ "ZDB-GENE-041001-112", "ZDB-GENE-010130-1", "ZDB-GENE-170623-2", "ZDB-GENE-040426-783", "ZDB-GENE-161017-133" ] }, { "source": "BioMuta", "targetlist": [ "AGR", "AlphaFoldDB", "Bgee", "BRENDA", "CAZy", "CDD", "ChEMBL", "GeneCards", "GeneID", "HGNC", "HPO", "iCn3D", "IEDB", "IntAct", "InterPro", "KEGG Pathway", "MIM", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PHAROS", "PRO", "Reactome", "RefSeq", "Rhea", "UniProtKB", "O-GlcNAc Atlas", "UniCarbKB", "GlyConnect", "PRIDE", "BiomarkerKB" ], "example_id_list": [ "Q8WZA1", "Q9UIS9", "Q9UBC5", "Q9ULD6", "P43246" ] }, { "source": "CAZy", "targetlist": [ "AGR", "AlphaFoldDB", "Bgee", "BioMuta", "BRENDA", "CDD", "ChEMBL", "GeneCards", "GeneID", "HGNC", "HPO", "iCn3D", "IEDB", "IntAct", "InterPro", "KEGG Pathway", "MIM", "OMA", "OrthoDB", "PANTHER", "PDB", "Pfam", "PHAROS", 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"E", "label": "Glutamic acid - Glu - E" }, { "id": "F", "label": "Phenylalanine - Phe - F" }, { "id": "Q", "label": "Glutamine - Gln - Q" }, { "id": "W", "label": "Tryptophan - Trp - W" }, { "id": "Y", "label": "Tyrosine - Tyr - Y" }, { "id": "C", "label": "Cysteine - Cys - C" }, { "id": "G", "label": "Glycine - Gly - G" }, { "id": "M", "label": "Methionine - Met - M" }, { "id": "L", "label": "Leucine - Leu - L" }, { "id": "U", "label": "Selenocysteine - Sec - U" } ], "annotation_type_list": [ { "id": "snv_flag", "label": "SNV" }, { "id": "glycosylation_flag", "label": "Glycosylation" }, { "id": "mutagenesis_flag", "label": "Mutagenesis" }, { "id": "phosphorylation_flag", "label": "Phosphorylation" }, { "id": "glycation_flag", "label": "Glycation" } ] }, "supersearch": { "species": 15, "site": 14491, "gene": 4874, "disease": 8463, "glycan": 1176, "enzyme": 850, "protein": 4874, "motif": 4 }, "fieldlimits": { "glycansearch": { "Glycan ID": 21, "Glycosylated Protein": 12, "Glycan Motif": 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11116 }, { "name": "HCV-H77", "id": 63746 } ], "glycosylation_types": { "O-linked": [ "O-GlcNAcylation", "O-GalNAcylation", "O-Fucosylation", "O-Mannosylation", "O-Glucosylation", "O-Galactosylation", "other" ], "N-linked": [ "Complex", "High mannose", "Hybrid" ], "C-linked": [ "C-Mannosylation" ], "S-linked": [], "Undefined type": [] }, "id_namespace": [ "AlphaFoldDB", "dictyBase", "GeneID", "KEGG Pathway", "RefSeq", "UniProtKB", "Bgee", "CDD", "InterPro", "OrthoDB", "PANTHER", "Pfam", "Reactome", "AGR", "GlyConnect", "MGI", "O-GlcNAc Atlas", "OMA", "PRO", "Rhea", "iCn3D", "IntAct", "PDB", "SGD", "ChEMBL", "RGD", "GeneCards", "HGNC", "IEDB", "MIM", "PHAROS", "Araport", "TAIR", "BRENDA", "FlyBase", "ZFIN", "BioMuta", "CAZy", "HPO", "GlycoProtDB", "UniCarbKB", "PRIDE", "BiomarkerKB", "Viral Glycome", "euHCVdb", "HepatitisCOnline", "ViPR" ], "biomarker_types": [ "diagnostic", "prognostic", "monitoring", "predictive", "risk", "response" ], "simple_search_category": [ { "id": "any", 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"name": "Threonine - Thr - T", "key": "T" }, { "name": "Asparagine - Asn - N", "key": "N" }, { "name": "Tyrosine - Tyr - Y", "key": "Y" }, { "name": "Lysine - Lys - K", "key": "K" }, { "name": "Tryptophan - Trp - W", "key": "W" }, { "name": "Aspartic acid - Asp - D", "key": "D" }, { "name": "Cysteine - Cys - C", "key": "C" }, { "name": "Glutamic acid - Glu - E", "key": "E" }, { "name": "Arginine - Arg - R", "key": "R" } ], "glycosylation_evidence_type": [ { "id": "all_sites", "display": "All sites" }, { "id": "all_reported_sites_with_without_glycans", "display": "All reported sites (with or without Glycans)" }, { "id": "sites_reported_with_glycans", "display": "Sites reported with Glycans" }, { "id": "sites_reported_without_glycans", "display": "Sites reported without Glycans" }, { "id": "predicted_sites", "display": "Predicted sites" }, { "id": "sites_detected_by_literature_mining", "display": "Sites detected by literature mining" } ] } }