{ "bcoid": "GLY_000507", "title": "Human Cancer Mutation LOG and GOG effect", "description": "", "filename": "human_protein_mutation_cancer_glycoeffect.csv", "filetype": "csv", "categories": { "species": [ "Homo sapiens" ], "molecule": [ "Protein" ], "tag": [ "Somatic Cancer Mutations LOG-GOG" ], "file_type": [ "csv" ], "status": [ "Reviewed" ], "scope": [ "internal" ] }, "minitable": { "content": [ [ "Q8WXI7-1...", "12556..." ], [ "O75096-1...", "585..." ] ], "headers": [ "uniprotkb_ca...", "aa_pos..." ], "colwidth": [ "40%", "20%" ] }, "sampledata": { "type": "table", "data": [ [ { "type": "string", "label": "uniprotkb_canonical_ac" }, { "type": "string", "label": "aa_pos" }, { "type": "string", "label": "ref_aa" }, { "type": "string", "label": "alt_aa" }, { "type": "string", "label": "chr_id" }, { "type": "string", "label": "chr_start_pos" }, { "type": "string", "label": "chr_end_pos" }, { "type": "string", "label": "ref_nt" }, { "type": "string", "label": "alt_nt" }, { "type": "string", "label": "patients_positive" }, { "type": "string", "label": "patients_tested" }, { "type": "string", "label": "mut_freq" }, { "type": "string", "label": "data_source" }, { "type": "string", "label": "do_id" }, { "type": "string", "label": "do_name" }, { "type": "string", "label": "xref_key" }, { "type": "string", "label": "xref_id" }, { "type": "string", "label": "filter_flags" }, { "type": "string", "label": "mim_id" }, { "type": "string", "label": "somatic_status" }, { "type": "string", "label": "minor_allelic_frequency" }, { "type": "string", "label": "is_known_glycoprotein" }, { "type": "string", "label": "motif_start" }, { "type": "string", "label": "ref_motif" }, { "type": "string", "label": "alt_motif" }, { "type": "string", "label": "effect" } ], [ "Q8WXI7-1", "12556", "K", "T", "19", "8907831", "8907831", "T", "G", "0", "0", "0.0", "icgc", "9256", "DOID:9256 / colorectal cancer", "protein_xref_biomuta", "Q8WXI7", "Somatic mutation passed 1 out of 6 filters: 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"KYT", "NYT", "n-glyco-sequon-gain" ], [ "Q9HC56-1", "714", "K", "N", "13", "67226299", "67226299", "C", "A", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q9HC56", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KYT->NYT).", "", "1", "", "yes", "714", "K", "N", "o-glyco-site-loss" ], [ "A6NJZ7-1", "1273", "S", "G", "22", "21547160", "21547160", "T", "C", "0", "0", "0.0", "icgc", "11054", "DOID:11054 / urinary bladder cancer", "protein_xref_biomuta", "A6NJZ7", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "no", "1273", "S", "G", "o-glyco-site-loss" ], [ "P05787-1", "37", "S", "C", "12", "52904873", "52904873", "T", "A", "0", "0", "0.0", "icgc", "1781", "DOID:1781 / thyroid cancer", "protein_xref_biomuta", "P05787", "Somatic mutation passed 1 out of 6 filters: o-glyco-site-loss (S->C).", "", "1", "", "yes", "37", "S", "C", "o-glyco-site-loss" ], [ "Q8WXI7-1", "12100", "N", "I", "19", "8922962", 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cancer", "protein_xref_biomuta", "Q8N434", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "no", "426", "T", "M", "o-glyco-site-loss" ], [ "Q9UEF7-1", "919", "D", "N", "13", "33063902", "33063902", "G", "A", "0", "0", "0.0", "icgc", "9256", "DOID:9256 / colorectal cancer", "protein_xref_biomuta", "Q9UEF7", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DRT->NRT).", "", "1", "", "yes", "919", "DRT", "NRT", "n-glyco-sequon-gain" ], [ "Q9UQ72-1", "209", "K", "N", "19", "43018852", "43018852", "C", "A", "0", "0", "0.0", "icgc", "1115", "DOID:1115 / sarcoma", "protein_xref_biomuta", "Q9UQ72", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KYT->NYT).", "", "1", "", "yes", "209", "KYT", "NYT", "n-glyco-sequon-gain" ], [ "Q9UQ72-1", "209", "K", "N", "19", "43018852", "43018852", "C", "A", "0", "0", "0.0", "icgc", "1115", "DOID:1115 / sarcoma", "protein_xref_biomuta", "Q9UQ72", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KYT->NYT).", "", "1", "", "yes", "209", "K", "N", "o-glyco-site-loss" ], [ "Q9H115-1", "22", "K", "R", "20", "23421338", "23421338", "T", "C", "0", "0", "0.0", "icgc", "1612", "DOID:1612 / breast cancer", "protein_xref_biomuta", "Q9H115", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "no", "22", "K", "R", "o-glyco-site-loss" ], [ "Q9Y5H2-1", "268", "T", "M", "5", "141422030", "141422030", "C", "T", "0", "0", "0.0", "icgc", "10283", "DOID:10283 / prostate cancer", "protein_xref_biomuta", "Q9Y5H2", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NAT->NAM).", "", "1", "", "yes", "266", "NAT", "NAM", "n-glyco-sequon-loss" ], [ "Q9Y5H2-1", "268", "T", "M", "5", "141422030", "141422030", "C", "T", "0", "0", "0.0", "icgc", "10283", "DOID:10283 / prostate cancer", "protein_xref_biomuta", "Q9Y5H2", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NAT->NAM).", "", "1", "", "yes", "268", "T", "M", "o-glyco-site-loss" ], [ "Q9UPA5-1", "1987", "T", "I", "3", "49655516", "49655516", "C", "T", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "Q9UPA5", "Somatic mutation passed 1 out of 6 filters: o-glyco-site-loss (T->I).", "", "1", "", "yes", "1987", "T", "I", "o-glyco-site-loss" ], [ "O15455-1", "247", "N", "S", "4", "186082426", "186082426", "A", "G", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "O15455", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NTS->STS).", "", "1", "", "yes", "247", "NTS", "STS", "n-glyco-sequon-loss" ], [ "Q9NX18-1", "84", "I", "T", "11", "61437839", "61437839", "T", "C", "0", "0", "0.0", "icgc", "1612", "DOID:1612 / breast cancer", "protein_xref_biomuta", "Q9NX18", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NCI->NCT).", "", "1", "", "yes", "82", "NCI", "NCT", "n-glyco-sequon-gain" ], [ "Q9ULM3-1", "880", "S", "L", "3", "183777603", "183777603", "C", "T", "0", "0", "0.0", "icgc", "4159", "DOID:4159 / skin cancer", "protein_xref_biomuta", "Q9ULM3", "Somatic mutation passed 1 out of 6 filters: o-glyco-site-loss (S->L).", "", "1", "", "yes", "880", "S", "L", "o-glyco-site-loss" ], [ "P04637-1", "234", "Y", "C", "17", "7674262", "7674262", "T", "C", "0", "0", "0.0", "icgc", "1319", "DOID:1319 / brain cancer", "protein_xref_biomuta", "P04637", "Somatic mutation passed 1 out of 6 filters: num. of cancers (9). In dbSNP: rs587780073.", "", "1", "", "yes", "234", "Y", "C", "o-glyco-site-loss" ], [ "Q6S8J3-1", "173", "K", "N", "2", "131218921", "131218921", "G", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q6S8J3", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KRT->NRT).", "", "1", "", "yes", "173", "KRT", "NRT", "n-glyco-sequon-gain" ], [ "Q6S8J3-1", "173", "K", "N", "2", "131218921", "131218921", "G", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q6S8J3", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KRT->NRT).", "", "1", "", "yes", "173", "K", "N", "o-glyco-site-loss" ], [ "P13727-1", "23", "T", "N", "11", "57389308", "57389308", "G", "T", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "P13727", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (TST->NST); o-glyco-site-loss (T->N).", "", "1", "", "yes", "23", "TST", "NST", "n-glyco-sequon-gain" ], [ "P13727-1", "23", "T", "N", "11", "57389308", "57389308", "G", "T", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "P13727", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (TST->NST); o-glyco-site-loss (T->N).", "", "1", "", "yes", "23", "T", "N", "o-glyco-site-loss" ], [ "O95714-1", "2085", "D", "N", "15", "28214760", "28214760", "C", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "O95714", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DKT->NKT).", "", "1", "", "yes", "2085", "DKT", "NKT", "n-glyco-sequon-gain" ], [ "P09564-1", "214", "K", "N", "17", "82315402", "82315402", "C", "A", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "P09564", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KNS->NNS).", "", "1", "", "yes", "214", "KNS", "NNS", "n-glyco-sequon-gain" ], [ "P09564-1", "214", "K", "N", "17", "82315402", "82315402", "C", "A", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "P09564", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KNS->NNS).", "", "1", "", "yes", "214", "K", "N", "o-glyco-site-loss" ], [ "Q9UBN7-1", "708", "P", "S", "X", "48818347", "48818347", "C", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q9UBN7", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NGP->NGS).", "", "1", "", "yes", "706", "NGP", "NGS", "n-glyco-sequon-gain" ], [ "O75445-1", "1905", "S", "F", "1", "216073159", "216073159", "G", "A", "0", "0", "0.0", "icgc", "11054", "DOID:11054 / urinary bladder cancer", "protein_xref_biomuta", "O75445", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NDS->NDF).", "", "1", "", "yes", "1903", "NDS", "NDF", "n-glyco-sequon-loss" ], [ "O75445-1", "1905", "S", "F", "1", "216073159", "216073159", "G", "A", "0", "0", "0.0", "icgc", "11054", "DOID:11054 / urinary bladder cancer", "protein_xref_biomuta", "O75445", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NDS->NDF).", "", "1", "", "yes", "1905", "S", "F", "o-glyco-site-loss" ], [ "Q7RTW8-1", "289", "N", "K", "16", "21700914", "21700914", "C", "A", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q7RTW8", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NAT->KAT).", "", "1", "", "yes", "289", "NAT", "KAT", "n-glyco-sequon-loss" ], [ "Q68DN1-1", "1282", "K", "N", "2", "27580418", "27580418", "G", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q68DN1", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KTS->NTS).", "", "1", "", "yes", "1282", "KTS", "NTS", "n-glyco-sequon-gain" ], [ "Q68DN1-1", "1282", "K", "N", "2", "27580418", "27580418", "G", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q68DN1", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KTS->NTS).", "", "1", "", "yes", "1282", "K", "N", "o-glyco-site-loss" ], [ "O75628-1", "142", "D", "N", "20", "31482287", "31482287", "G", "A", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "O75628", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DKS->NKS).", "", "1", "", "yes", "142", "DKS", "NKS", "n-glyco-sequon-gain" ], [ "P0DPD6-4", "213", "S", "I", "3", "184277946", "184277946", "G", "T", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "P0DPD6", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NSS->NSI).", "", "1", "", "yes", "211", "NSS", "NSI", "n-glyco-sequon-loss" ], [ "P0DPD6-4", "213", "S", "I", "3", "184277946", "184277946", "G", "T", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "P0DPD6", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NSS->NSI).", "", "1", "", "yes", "213", "S", "I", "o-glyco-site-loss" ], [ "Q08289-1", "56", "D", "N", "10", "18150928", "18150928", "G", "A", "0", "0", "0.0", "icgc", "4362", "DOID:4362 / cervical cancer", "protein_xref_biomuta", "Q08289", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DGS->NGS).", "", "1", "", "yes", "56", "DGS", "NGS", "n-glyco-sequon-gain" ], [ "Q6Q759-1", "1274", "T", "M", "1", "118025326", "118025326", "G", "A", "0", "0", "0.0", "icgc", "2531", "DOID:2531 / hematologic cancer", "protein_xref_biomuta", "Q6Q759", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "yes", "1274", "T", "M", "o-glyco-site-loss" ], [ "P10071-1", "312", "T", "M", "7", "42040131", "42040131", "G", "A", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "P10071", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "yes", "312", "T", "M", "o-glyco-site-loss" ], [ "P04637-1", "249", "R", "S", "17", "7674216", "7674216", "C", "A", "0", "0", "0.0", "icgc", "3571", "DOID:3571 / liver cancer", "protein_xref_biomuta", "P04637", "Somatic mutation passed 3 out of 6 filters: num. of cancers (7); Lit. mined (10); n-glyco-sequon-gain (NRR->NRS). In dbSNP: rs28934571.", "", "1", "", "yes", "247", "NRR", "NRS", "n-glyco-sequon-gain" ], [ "Q9UHY1-1", "521", "A", "T", "2", "27441765", "27441765", "G", "A", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q9UHY1", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NFA->NFT).", "", "1", "", "yes", "519", "NFA", "NFT", "n-glyco-sequon-gain" ], [ "P04637-1", "126", "Y", "C", "17", "7675235", "7675235", "T", "C", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "P04637", "Somatic mutation passed 1 out of 6 filters: num. of cancers (4).", "", "1", "", "yes", "126", "Y", "C", "o-glyco-site-loss" ], [ "Q9Y297-1", "237", "S", "Y", "10", "101526166", "101526166", "C", "A", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q9Y297", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "no", "237", "S", "Y", "o-glyco-site-loss" ], [ "Q9BQG0-1", "190", "K", "N", "17", "4552618", "4552618", "C", "A", "0", "0", "0.0", "icgc", "4159", "DOID:4159 / skin cancer", "protein_xref_biomuta", "Q9BQG0", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KAT->NAT).", "", "1", "", "yes", "190", "KAT", "NAT", "n-glyco-sequon-gain" ], [ "Q9BQG0-1", "190", "K", "N", "17", "4552618", "4552618", "C", "A", "0", "0", "0.0", "icgc", "4159", "DOID:4159 / skin cancer", "protein_xref_biomuta", "Q9BQG0", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KAT->NAT).", "", "1", "", "yes", "190", "K", "N", "o-glyco-site-loss" ], [ "P13569-1", "464", "K", "N", "7", "117548823", "117548823", "G", "T", "0", "0", "0.0", "icgc", "2531", "DOID:2531 / hematologic cancer", "protein_xref_biomuta", "P13569", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KTS->NTS).", "", "1", "", "yes", "464", "KTS", "NTS", "n-glyco-sequon-gain" ], [ "P13569-1", "464", "K", "N", "7", "117548823", "117548823", "G", "T", "0", "0", "0.0", "icgc", "2531", "DOID:2531 / hematologic cancer", "protein_xref_biomuta", "P13569", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KTS->NTS).", "", "1", "", "yes", "464", "K", "N", "o-glyco-site-loss" ], [ "Q5TH69-1", "935", "A", "T", "6", "138287091", "138287091", "G", "A", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q5TH69", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NCA->NCT).", "", "1", "", "yes", "933", "NCA", "NCT", "n-glyco-sequon-gain" ], [ "Q96E93-1", "139", "S", "C", "12", "9009033", "9009033", "C", "G", "0", "0", "0.0", "icgc", "263", "DOID:263 / kidney cancer", "protein_xref_biomuta", "Q96E93", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NNS->NNC).", "", "1", "", "yes", "137", "NNS", "NNC", "n-glyco-sequon-loss" ], [ "Q96E93-1", "139", "S", "C", "12", "9009033", "9009033", "C", "G", "0", "0", "0.0", "icgc", "263", "DOID:263 / kidney cancer", "protein_xref_biomuta", "Q96E93", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NNS->NNC).", "", "1", "", "yes", "139", "S", "C", "o-glyco-site-loss" ], [ "Q96KR1-1", "46", "S", "R", "5", "32420103", "32420103", "G", "T", "0", "0", "0.0", "icgc", "11934", "DOID:11934 / head and neck cancer", "protein_xref_biomuta", "Q96KR1", "Somatic mutation passed 1 out of 6 filters: o-glyco-site-loss (S->R).", "", "1", "", "yes", "46", "S", "R", "o-glyco-site-loss" ], [ "P38398-1", "1613", "S", "G", "17", "43071077", "43071077", "T", "C", "0", "0", "0.0", "icgc", "2531", "DOID:2531 / hematologic cancer", "protein_xref_biomuta", "P38398", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "yes", "1613", "S", "G", "o-glyco-site-loss" ], [ "Q9Y2C9-1", "214", "N", "S", "4", "38828833", "38828833", "T", "C", "0", "0", "0.0", "icgc", "4159", "DOID:4159 / skin cancer", "protein_xref_biomuta", "Q9Y2C9", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NIS->SIS).", "", "1", "", "yes", "214", "NIS", "SIS", "n-glyco-sequon-loss" ], [ "P11021-1", "231", "D", "N", "9", "125239246", "125239246", "C", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "P11021", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DVS->NVS).", "", "1", "", "yes", "231", "DVS", "NVS", "n-glyco-sequon-gain" ], [ "Q8IVF2-1", "2365", "D", "N", "14", "104948358", "104948358", "C", "T", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "Q8IVF2", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DLS->NLS).", "", "1", "", "yes", "2365", "DLS", "NLS", "n-glyco-sequon-gain" ], [ "O75159-1", "464", "S", "L", "2", "46759921", "46759921", "C", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "O75159", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "no", "464", "S", "L", "o-glyco-site-loss" ], [ "Q8WXI7-1", "10383", "D", "N", "19", "8945623", "8945623", "C", "T", "0", "0", "0.0", "icgc", "4159", "DOID:4159 / skin cancer", "protein_xref_biomuta", "Q8WXI7", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DTS->NTS).", "", "1", "", "yes", "10383", "DTS", "NTS", "n-glyco-sequon-gain" ], [ "Q12879-1", "541", "N", "S", "16", "9840676", "9840676", "T", "C", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q12879", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NGT->SGT).", "", "1", "", "yes", "541", "NGT", "SGT", "n-glyco-sequon-loss" ], [ "Q9NYM4-1", "39", "S", "W", "11", "94401132", "94401132", "G", "C", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "Q9NYM4", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NAS->NAW).", "", "1", "", "yes", "37", "NAS", "NAW", "n-glyco-sequon-loss" ], [ "Q9NYM4-1", "39", "S", "W", "11", "94401132", "94401132", "G", "C", "0", "0", "0.0", "icgc", "1324", "DOID:1324 / lung cancer", "protein_xref_biomuta", "Q9NYM4", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NAS->NAW).", "", "1", "", "yes", "39", "S", "W", "o-glyco-site-loss" ], [ "P42262-1", "501", "T", "N", "4", "157336405", "157336405", "C", "A", "0", "0", "0.0", "icgc", "5041", "DOID:5041 / esophageal cancer", "protein_xref_biomuta", "P42262", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (TIT->NIT).", "", "1", "", "yes", "501", "TIT", "NIT", "n-glyco-sequon-gain" ], [ "P42262-1", "501", "T", "N", "4", "157336405", "157336405", "C", "A", "0", "0", "0.0", "icgc", "5041", "DOID:5041 / esophageal cancer", "protein_xref_biomuta", "P42262", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (TIT->NIT).", "", "1", "", "yes", "501", "T", "N", "o-glyco-site-loss" ], [ "P27694-1", "31", "R", "S", "17", "1843926", "1843926", "C", "A", "0", "0", "0.0", "icgc", "4159", "DOID:4159 / skin cancer", "protein_xref_biomuta", "P27694", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NIR->NIS).", "", "1", "", "yes", "29", "NIR", "NIS", "n-glyco-sequon-gain" ], [ "P98073-1", "110", "R", "T", "21", "18397894", "18397894", "C", "G", "0", "0", "0.0", "icgc", "1612", "DOID:1612 / breast cancer", "protein_xref_biomuta", "P98073", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NSR->NST).", "", "1", "", "yes", "108", "NSR", "NST", "n-glyco-sequon-gain" ], [ "Q96RN5-1", "73", "K", "T", "22", "20553154", "20553154", "A", "C", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q96RN5", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NKK->NKT).", "", "1", "", "yes", "71", "NKK", "NKT", "n-glyco-sequon-gain" ], [ "Q12955-3", "1746", "S", "F", "10", "60075644", "60075644", "G", "A", "0", "0", "0.0", "icgc", "4362", "DOID:4362 / cervical cancer", "protein_xref_biomuta", "Q12955", "Somatic mutation passed 1 out of 6 filters: o-glyco-site-loss (S->F).", "", "1", "", "yes", "1746", "S", "F", "o-glyco-site-loss" ], [ "Q8TD26-1", "732", "P", "S", "20", "41484415", "41484415", "G", "A", "0", "0", "0.0", "icgc", "10534", "DOID:10534 / stomach cancer", "protein_xref_biomuta", "Q8TD26", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NMP->NMS).", "", "1", "", "yes", "730", "NMP", "NMS", "n-glyco-sequon-gain" ], [ "Q8WXI2-1", "103", "I", "T", "X", "21432691", "21432691", "T", "C", "1", "412", "0.2", "tcga", "11054", "DOID:11054 / urinary bladder cancer", "protein_xref_biomuta", "Q8WXI2", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NFI->NFT).", "", "1", "", "yes", "101", "NFI", "NFT", "n-glyco-sequon-gain" ], [ "Q96DY7-1", "873", "K", "N", "8", "120522662", "120522662", "A", "C", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q96DY7", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KTS->NTS).", "", "1", "", "yes", "873", "KTS", "NTS", "n-glyco-sequon-gain" ], [ "Q96DY7-1", "873", "K", "N", "8", "120522662", "120522662", "A", "C", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q96DY7", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KTS->NTS).", "", "1", "", "yes", "873", "K", "N", "o-glyco-site-loss" ], [ "Q86U10-1", "364", "S", "L", "14", "104105368", "104105368", "C", "T", "0", "0", "0.0", "icgc", "1612", "DOID:1612 / breast cancer", "protein_xref_biomuta", "Q86U10", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "no", "364", "S", "L", "o-glyco-site-loss" ], [ "P20742-1", "622", "D", "N", "12", "9169567", "9169567", "C", "T", "0", "0", "0.0", "icgc", "4159", "DOID:4159 / skin cancer", "protein_xref_biomuta", "P20742", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DLT->NLT).", "", "1", "", "yes", "622", "DLT", "NLT", "n-glyco-sequon-gain" ], [ "Q99963-1", "107", "D", "N", "15", "83568660", "83568660", "G", "A", "0", "0", "0.0", "icgc", "1319", "DOID:1319 / brain cancer", "protein_xref_biomuta", "Q99963", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DST->NST).", "", "1", "", "yes", "107", "DST", "NST", "n-glyco-sequon-gain" ], [ "P12872-1", "23", "T", "M", "6", "33801096", "33801096", "G", "A", "0", "0", "0.0", "icgc", "11934", "DOID:11934 / head and neck cancer", "protein_xref_biomuta", "P12872", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "no", "23", "T", "M", "o-glyco-site-loss" ], [ "Q14515-1", "62", "D", "N", "4", "87494998", "87494998", "C", "T", "0", "0", "0.0", "icgc", "4362", "DOID:4362 / cervical cancer", "protein_xref_biomuta", "Q14515", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (DDS->NDS).", "", "1", "", "yes", "62", "DDS", "NDS", "n-glyco-sequon-gain" ], [ "Q96RK0-1", "831", "T", "M", "19", "42291260", "42291260", "C", "T", "0", "0", "0.0", "icgc", "9256", "DOID:9256 / colorectal cancer", "protein_xref_biomuta", "Q96RK0", "Somatic mutation passed 1 out of 6 filters: o-glyco-site-loss (T->M).", "", "1", "", "yes", "831", "T", "M", "o-glyco-site-loss" ], [ "Q7L985-1", "40", "S", "Y", "9", "27950553", "27950553", "G", "T", "0", "0", "0.0", "icgc", "11934", "DOID:11934 / head and neck cancer", "protein_xref_biomuta", "Q7L985", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NKS->NKY).", "", "1", "", "yes", "38", "NKS", "NKY", "n-glyco-sequon-loss" ], [ "Q7L985-1", "40", "S", "Y", "9", "27950553", "27950553", "G", "T", "0", "0", "0.0", "icgc", "11934", "DOID:11934 / head and neck cancer", "protein_xref_biomuta", "Q7L985", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-loss (NKS->NKY).", "", "1", "", "yes", "40", "S", "Y", "o-glyco-site-loss" ], [ "Q13901-1", "127", "S", "P", "2", "68042936", "68042936", "A", "G", "0", "0", "0.0", "icgc", "2531", "DOID:2531 / hematologic cancer", "protein_xref_biomuta", "Q13901", "Somatic mutation passed 1 out of 6 filters: num. of cancers (3).", "", "1", "", "no", "127", "S", "P", "o-glyco-site-loss" ], [ "O15118-1", "1103", "G", "S", "18", "23535639", "23535639", "C", "T", "0", "0", "0.0", "icgc", "2531", "DOID:2531 / hematologic cancer", "protein_xref_biomuta", "O15118", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (NLG->NLS).", "", "1", "", "yes", "1101", "NLG", "NLS", "n-glyco-sequon-gain" ], [ "Q96K76-1", "474", "K", "N", "11", "11922867", "11922867", "G", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q96K76", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KIS->NIS).", "", "1", "", "yes", "474", "KIS", "NIS", "n-glyco-sequon-gain" ], [ "Q96K76-1", "474", "K", "N", "11", "11922867", "11922867", "G", "T", "0", "0", "0.0", "icgc", "363", "DOID:363 / uterine cancer", "protein_xref_biomuta", "Q96K76", "Somatic mutation passed 1 out of 6 filters: n-glyco-sequon-gain (KIS->NIS).", "", "1", "", "yes", "474", "K", "N", "o-glyco-site-loss" ] ] }, "readme": "Name\n - Human Cancer Mutation LOG and GOG effect\n\nVersion\n - v-2.4.1\n\nCreated on\n - 2020-06-25T13:28:50.371628\n\nModified on\n - 2022-09-26T09:08:12.504427\n\nCreated by\n - [jeetvora@gwu.edu], Karina Martinez [karinamartinez@gwu.edu], Luke Johnson [luke.johnson@email.gwu.edu], Urnisha Bhuiyan [sbhuiyan28@email.gwu.edu], Cyrus Au-Yeung [cyruschauyeung@gwu.edu], Jingyue Wu [jingyue.wu@email.gwu.edu]\n\nAuthors\n - \n\nChecksum\n - \n\nExecution Domain\n Scripts\n\n Software Prerequisites\n Name: Python\n Version: 2.7.5\n URI: https://www.python.org/download/releases/2.7.5/\n\nI/O Domain\n Input Subdomain\n Name: glycan_masterlist.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/glycan_masterlist.csv\n Name: human_protein_mutation_cancer.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_protein_mutation_cancer.csv\n Name: human_proteoform_glycosylation_sites_glyconnect.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_glyconnect.csv\n Name: human_proteoform_glycosylation_sites_gptwiki.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_gptwiki.csv\n Name: human_proteoform_glycosylation_sites_harvard.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_harvard.csv\n Name: human_proteoform_glycosylation_sites_literature.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_literature.csv\n Name: human_proteoform_glycosylation_sites_literature_mining.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_literature_mining.csv\n Name: human_proteoform_glycosylation_sites_literature_mining_manually_verified.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_literature_mining_manually_verified.csv\n Name: human_proteoform_glycosylation_sites_oglcnac_atlas.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_oglcnac_atlas.csv\n Name: human_proteoform_glycosylation_sites_oglcnac_mcw.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_oglcnac_mcw.csv\n Name: human_proteoform_glycosylation_sites_o_gluc.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_o_gluc.csv\n Name: human_proteoform_glycosylation_sites_pdb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_pdb.csv\n Name: human_proteoform_glycosylation_sites_tyr_o_linked.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_tyr_o_linked.csv\n Name: human_proteoform_glycosylation_sites_unicarbkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_unicarbkb.csv\n Name: human_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_unicarbkb_glycomics_study.csv\n Name: human_proteoform_glycosylation_sites_uniprotkb.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_proteoform_glycosylation_sites_uniprotkb.csv\n Name: aadict.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/misc/aadict.csv\n Output Subdomain\n Name: human_protein_mutation_cancer_glycoeffect.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_protein_mutation_cancer_glycoeffect.csv\n Name: human_protein_mutation_cancer_glycoeffect.stat.csv\n URI: https:/data.glygen.org/ln2releases/data/v-2.4.1/reviewed/human_protein_mutation_cancer_glycoeffect.stat.csv\n\nFields\n Name: \"uniprotkb_canonical_ac\"\n Description: \"\"\n Unique Values: \"6052\"\n Name: \"aa_pos\"\n Description: \"Position of the amino acid in canonical sequence of protein in the UniProtKB database\"\n Unique Values: \"2975\"\n Name: \"ref_aa\"\n Description: \"Reference amino acid residue\"\n Unique Values: \"18\"\n Name: \"alt_aa\"\n Description: \"Altered amino acid residue\"\n Unique Values: \"20\"\n Name: \"chr_id\"\n Description: \"\"\n Unique Values: \"25\"\n Name: \"chr_start_pos\"\n Description: \"\"\n Unique Values: \"18643\"\n Name: \"chr_end_pos\"\n Description: \"\"\n Unique Values: \"18643\"\n Name: \"ref_nt\"\n Description: \"Reference nucleotide\"\n Unique Values: \"4\"\n Name: \"alt_nt\"\n Description: \"Alternative nucleotide\"\n Unique Values: \"4\"\n Name: \"patients_positive\"\n Description: \"The number of the patients having the cancer mutation\"\n Unique Values: \"3\"\n Name: \"patients_tested\"\n Description: \"The total number of patients tested for the given cancer mutation\"\n Unique Values: \"27\"\n Name: \"mut_freq\"\n Description: \"Frequency count of mutations across datasets\"\n Unique Values: \"15\"\n Name: \"data_source\"\n Description: \"The source database for the data\"\n Unique Values: \"3\"\n Name: \"do_id\"\n Description: \"Disease Ontology identifier\"\n Unique Values: \"23\"\n Name: \"do_name\"\n Description: \"Disease Ontology term or name for the disease assigned to the Disease Ontology identifier\"\n Unique Values: \"23\"\n Name: \"xref_key\"\n Description: \"Source key associated to the xref_id\"\n Unique Values: \"1\"\n Name: \"xref_id\"\n Description: \"ID of the X-ref\"\n Unique Values: \"6052\"\n Name: \"filter_flags\"\n Description: \"Filter tags/flags assigned to the mutation entries that have passed the mutation filter criteria\"\n Unique Values: \"1534\"\n Name: \"mim_id\"\n Description: \"Disease ID from the OMIM database\"\n Unique Values: \"1\"\n Name: \"somatic_status\"\n Description: \"The status of the variant whether it is germline (somatic status =0) or somatic (somatic status =1) variant\"\n Unique Values: \"1\"\n Name: \"minor_allelic_frequency\"\n Description: \"\"\n Unique Values: \"1\"\n Name: \"is_known_glycoprotein\"\n Description: \"Yes or no flag to denote if a protein is experimentally proven glycoprotein\"\n Unique Values: \"2\"\n Name: \"motif_start\"\n Description: \"\"\n Unique Values: \"3036\"\n Name: \"ref_motif\"\n Description: \"Reference motif\"\n Unique Values: \"531\"\n Name: \"alt_motif\"\n Description: \"Altered motif\"\n Unique Values: \"535\"\n Name: \"effect\"\n Description: \"The effect on glycosylation or N-sequon due to variation at site of glycosylated amino acid.\"\n Unique Values: \"3\"", "downloadurl": "/ln2data/releases/data/v-2.4.1/reviewed/human_protein_mutation_cancer_glycoeffect.csv" }