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Part A", "date": "2022-10", "authors": "\u00d6zer Leyla, Aktuna Suleyman, Unsal Evrim, \u00dcnal Mehmet Altay, Sahin Guler, Baltaci Volkan", "reference": { "type": "PubMed", "id": "35934917", "url": "https://pubmed.ncbi.nlm.nih.gov/35934917" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q9NTN3-1", "protein_name": "Nucleotide sugar transporter SLC35D1", "gene_name": "SLC35D1", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q9NTN3", "url": "https://www.uniprot.org/uniprotkb/Q9NTN3" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.35934917", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 1 } ], "sort_fields": [ "uniprot_canonical_ac", 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"uniprot_canonical_ac": "Q9Y2W3-1", "protein_name": "Proton-associated sugar transporter A", "gene_name": "SLC45A1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8BIV7-1", "protein_name": "Proton-associated sugar transporter A", "gene_name": "Slc45a1", "tax_name": "Mouse" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q9Y2W3", "url": "https://www.uniprot.org/uniprotkb/Q9Y2W3" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "mutagenesis": [ { "start_pos": 740, "end_pos": 745, "sequence_org": "EHRPLL", "sequence_mut": "AHRPAA", "comment": "Decreased localization at the lysosome membrane, leading to accumulation at the plasma membrane.", "evidence": [ { "database": "UniProtKB", "id": "Q9Y2W3", "url": "https://www.uniprot.org/uniprotkb/Q9Y2W3" }, { "database": "PubMed", "id": "41576950", "url": "https://pubmed.ncbi.nlm.nih.gov/41576950" } ], "uniprot_canonical_ac": 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"total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "SHP2-interacting transmembrane adaptor protein (SIT), a novel disulfide-linked dimer regulating human T cell activation.", "journal": "The Journal of experimental medicine", "date": "1999", "authors": "Marie-Cardine A, Kirchgessner H, Bruyns E, Shevchenko A, Mann M, Autschbach F, Ratnofsky S, Meuer S, Schraven B", "reference": { "type": "PubMed", "id": "10209036", "url": "https://pubmed.ncbi.nlm.nih.gov/10209036" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q9Y3P8-1", "protein_name": "Signaling threshold-regulating transmembrane adapter 1", "gene_name": "SIT1", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q06124-2", "protein_name": "Tyrosine-protein phosphatase non-receptor type 11", "gene_name": "PTPN11", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q8C503-1", "protein_name": "Signaling threshold-regulating transmembrane adapter 1", "gene_name": "Sit1", "tax_name": "Mouse" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q9Y3P8", "url": "https://www.uniprot.org/uniprotkb/Q9Y3P8" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], 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"field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 1 }, { "field": "exact_n_linked_sites", "count": 1 }, { "field": "fuzzy_sites", "count": 0 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_pos", "start_aa", "end_pos", "end_aa", "residue", "site_lbl", "filter_code", "uniprot_canonical_ac" ] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 4 }, { "field": "total_sites", "count": 4 } ], "sort_fields": [ "start_pos", "end_pos", "kinase_uniprot_canonical_ac", "kinase_gene_name", "residue", "comment", "site_lbl", "uniprot_canonical_ac" ] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 1 }, { "field": "total_sites", "count": 1 }, { "field": "n_linked_sites", "count": 1 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 }, { "field": "exact_sites", "count": 1 }, { "field": "exact_n_linked_sites", "count": 1 }, { "field": "fuzzy_sites", "count": 0 } ], "sort_fields": [ "glytoucan_ac", "type", "subtype", "site_category", "site_seq", "relation", "comment", "start_pos", "start_aa", "end_pos", "end_aa", "residue", "site_lbl", "filter_code", "uniprot_canonical_ac" ] }, { "table_id": "glycosylation_reported_with_glycan", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Structural and functional dissection of the cytoplasmic domain of the transmembrane adaptor protein SIT (SHP2-interacting transmembrane adaptor protein).", "journal": "European journal of immunology", "date": "2001", "authors": "Pfrepper KI, Marie-Cardine A, Simeoni L, Kuramitsu Y, Leo A, Spicka J, Hilgert I, Scherer J, Schraven B", "reference": { "type": "PubMed", "id": "11433379", "url": "https://pubmed.ncbi.nlm.nih.gov/11433379" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q9Y3P8-1", "protein_name": "Signaling threshold-regulating transmembrane adapter 1", "gene_name": "SIT1", "tax_name": "Human" }, { "uniprot_canonical_ac": "P41240-1", "protein_name": "Tyrosine-protein kinase CSK", "gene_name": "CSK", "tax_name": "Human" }, { "uniprot_canonical_ac": "Q06124-2", "protein_name": "Tyrosine-protein phosphatase non-receptor type 11", "gene_name": "PTPN11", "tax_name": "Human" }, { "uniprot_canonical_ac": "P62993-1", "protein_name": "Growth factor receptor-bound protein 2", "gene_name": "GRB2", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q9Y3P8", "url": "https://www.uniprot.org/uniprotkb/Q9Y3P8" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "mutagenesis": [ { "start_pos": 127, "end_pos": 127, "sequence_org": "Y", "sequence_mut": "F", "comment": "No effect on interaction with PTPN11 or GRB2.", "evidence": [ { "database": "UniProtKB", "id": "Q9Y3P8", "url": "https://www.uniprot.org/uniprotkb/Q9Y3P8" }, { "database": "PubMed", "id": "11433379", "url": "https://pubmed.ncbi.nlm.nih.gov/11433379" } ], "uniprot_canonical_ac": "Q9Y3P8-1" }, { "start_pos": 148, "end_pos": 148, "sequence_org": "Y", "sequence_mut": "F", "comment": "Reduces interaction with PTPN11, no effect on inhibition of NF-AT activation.", "evidence": [ { "database": "UniProtKB", "id": "Q9Y3P8", "url": "https://www.uniprot.org/uniprotkb/Q9Y3P8" }, { "database": "PubMed", "id": "10209036", "url": "https://pubmed.ncbi.nlm.nih.gov/10209036" }, { "database": "PubMed", "id": "11433379", "url": "https://pubmed.ncbi.nlm.nih.gov/11433379" } ], "uniprot_canonical_ac": "Q9Y3P8-1" }, { "start_pos": 169, "end_pos": 169, "sequence_org": "Y", "sequence_mut": "F", "comment": "Abolishes interaction with CSK and impairs inhibition of NF-AT activation.", "evidence": [ { "database": "UniProtKB", "id": "Q9Y3P8", "url": "https://www.uniprot.org/uniprotkb/Q9Y3P8" }, { "database": "PubMed", "id": "11433379", "url": "https://pubmed.ncbi.nlm.nih.gov/11433379" } ], "uniprot_canonical_ac": "Q9Y3P8-1" }, { "start_pos": 188, "end_pos": 188, "sequence_org": "Y", "sequence_mut": "F", "comment": "Reduces interaction with GRB2. 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Agn\u00e8s, Agolini Emanuele, Novelli Antonio, Digilio Maria Cristina, Rosenfeld Jill A, Murphy Jennifer L, Lupski James R, Vezina Gilbert, Macnamara Ellen F, Adams David R, Acosta Maria T, Tifft Cynthia J, Gahl William A, Malicdan May Christine V", "reference": { "type": "PubMed", "id": "36965478", "url": "https://pubmed.ncbi.nlm.nih.gov/36965478" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "Q5SXM2-1", "protein_name": "snRNA-activating protein complex subunit 4", "gene_name": "SNAPC4", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "Q5SXM2", "url": "https://www.uniprot.org/uniprotkb/Q5SXM2" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.36965478", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": 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"count": 0 } ], "sort_fields": [] } ] }, { "title": "Clinical value of MRI, serum SCCA, and CA125 levels in the diagnosis of lymph node metastasis and para-uterine infiltration in cervical cancer.", "journal": "World journal of surgical oncology", "date": "2021", "authors": "Ran C, Sun J, Qu Y, Long N", "reference": { "type": "PubMed", "id": "34886853", "url": "https://pubmed.ncbi.nlm.nih.gov/34886853" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "P29508-1", "protein_name": "Serpin B3", "gene_name": "SERPINB3", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "P29508", "url": "https://www.uniprot.org/uniprotkb/P29508" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.34886853", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { 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U.S.A.", "date": "1995", "authors": "Schneider S S, Schick C, Fish K E, Miller E, Pena J C, Treter S D, Hui S M, Silverman G A", "reference": { "type": "PubMed", "id": "7724531", "url": "https://pubmed.ncbi.nlm.nih.gov/7724531" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "P29508-1", "protein_name": "Serpin B3", "gene_name": "SERPINB3", "tax_name": "Human" }, { "uniprot_canonical_ac": "P48594-1", "protein_name": "Serpin B4", "gene_name": "SERPINB4", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "P29508", "url": "https://www.uniprot.org/uniprotkb/P29508" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.7724531", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": 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"count": 0 } ], "sort_fields": [] } ] }, { "title": "SOX11 expression is restricted to EBV-negative Burkitt lymphoma and is associated with molecular genetic features.", "journal": "Blood", "date": "2024-07-11", "authors": "Sureda-G\u00f3mez Marta, Iaccarino Ingram, De Bol\u00f2s Anna, Meyer Mieke, Balsas Patricia, Richter Julia, Rodr\u00edguez Marta-Leonor, L\u00f3pez Cristina, Carreras-Caball\u00e9 Maria, Glaser Selina, Nadeu Ferran, Jares Pedro, Clot Guillem, Siciliano Maria Chiara, Bellan Cristiana, Tornamb\u00e8 Salvatore, Boccacci Roberto, Leoncini Lorenzo, Campo Elias, Siebert Reiner, Amador Virginia, Klapper Wolfram", "reference": { "type": "PubMed", "id": "38620074", "url": "https://pubmed.ncbi.nlm.nih.gov/38620074" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "P35716-1", "protein_name": "Transcription factor SOX-11", "gene_name": "SOX11", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { 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"count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_predicted", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Epigenetic activation of SOX11 is associated with recurrence and progression of ductal carcinoma in situ to invasive breast cancer.", "journal": "British journal of cancer", "date": "2024-07", "authors": "Treekitkarnmongkol Warapen, Shah Vandna, Kai Kazuharu, Katayama Hiroshi, Wong Justin, Ladha Farah A, Nguyen Tristian, Menegaz Brian, Lu Wei, Yang Fei, Mino Barbara, Tang Ximing, Gagea Mihai, Batra Harsh, Raso Maria Gabriela, Wistuba Ignacio I, Krishnamurthy Savitri, Pinder Sarah E, Sawyer Elinor J, Thompson Alastair M, Sen Subrata", "reference": { "type": "PubMed", "id": "38760444", "url": "https://pubmed.ncbi.nlm.nih.gov/38760444" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "P35716-1", "protein_name": "Transcription factor SOX-11", "gene_name": "SOX11", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "P35716", "url": "https://www.uniprot.org/uniprotkb/P35716" } ], "common_name": "Human", 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"table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_automatic_literature_mining", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] } ] }, { "title": "Partial cloning of SOX-11 and SOX-12, two new human SOX genes.", "journal": "Nucleic Acids Res.", "date": "1993", "authors": "Goze C, Poulat F, Berta P", "reference": { "type": "PubMed", "id": "8332506", "url": "https://pubmed.ncbi.nlm.nih.gov/8332506" }, "referenced_glycans": [], "referenced_proteins": [ { "uniprot_canonical_ac": "P35716-1", "protein_name": "Transcription factor SOX-11", "gene_name": "SOX11", "tax_name": "Human" }, { "uniprot_canonical_ac": "O60248-1", "protein_name": "Transcription factor SOX-15", "gene_name": "SOX15", "tax_name": "Human" } ], "species": [ { "name": "Homo sapiens", "taxid": 9606, "evidence": [ { "database": "UniProtKB", "id": "P35716", "url": "https://www.uniprot.org/uniprotkb/P35716" } ], "common_name": "Human", "glygen_name": "Human", "reference_species": "Homo sapiens [9606]" } ], "record_id": "pubmed.8332506", "abstract": "", "glycosylation": [], "mutagenesis": [], "snv": [], "phosphorylation": [], "glycation": [], "section_stats": [ { "table_id": "referenced_proteins", "table_stats": [ { "field": "total", "count": 2 } ], "sort_fields": [ "uniprot_canonical_ac", "protein_name", "gene_name", "tax_name" ] }, { "table_id": "referenced_glycans", "table_stats": [ { "field": "total", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": "o_linked_glycan_sites", "count": 0 }, { "field": "n_linked_glycans", "count": 0 }, { "field": "o_linked_glycans", "count": 0 } ], "sort_fields": [] }, { "table_id": "phosphorylation", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 } ], "sort_fields": [] }, { "table_id": "glycosylation_reported", "table_stats": [ { "field": "total", "count": 0 }, { "field": "total_sites", "count": 0 }, { "field": "n_linked_sites", "count": 0 }, { "field": "o_linked_sites", "count": 0 }, { "field": "n_linked_glycan_sites", "count": 0 }, { "field": 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of SMG8: Clinical observations reveal overlap with SMG9-associated disease trait.", "journal": "American journal of medical genetics. 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