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Inflammaging

Id Subject Object Predicate Lexical cue
T1 0-64 Sentence denotes From morphological to molecular diagnosis of soft tissue tumors.
T2 65-250 Sentence denotes Cytogenetic discoveries of balanced translocations in soft tissue tumors have opened the way to molecular genetic definition of these translocations as gene fusions from the late 1980s.
T3 251-539 Sentence denotes Many sarcomas are known to have such fusions, and the demonstration of the fusion transcripts in tumor tissue is of great value in specific diagnosis of synovial sarcoma (SYT-SSX), Ewing sarcoma (EWS-Fli1), clear cell sarcoma (EWS-ATF1), myxoid liposarcoma (FUS-CHOP), and other sarcomas.
T4 540-670 Sentence denotes These translocations are believed to be disease-specific and pathogenetic forces, despite occasional observations to the contrary.
T5 671-879 Sentence denotes Demonstration of SYT-SSX and EWS-ATF1 fusion assists in the diagnosis of synovial and clear cell sarcomas in unusual locations, such as the gastrointestinal tract, where these tumors occur with low frequency.
T6 880-1053 Sentence denotes Demonstration of sarcoma translocations and their fusion by different assays is well established; use of in situ hybridization is limited by availability of specific probes.
T7 1054-1332 Sentence denotes In two exceptional instances, the same translocation and gene fusion occurs in two unrelated diseases: ETV6-NTRK fusion in infantile fibrosarcoma and secretory carcinoma of the breast, and ALK-TPM3 fusion in inflammatory myofibroblastic tumor and large cell anaplastic lymphoma.
T8 1333-1432 Sentence denotes Thus, the target cell of the genetic change is an important factor to define the resulting disease.
T9 1433-1797 Sentence denotes Activating mutations in two related receptor tyrosine kinases (RTKs), KIT, and platelet-derived growth factor receptor alpha (PDGFRA) is central to the pathogenesis of gastrointestinal stromal tumors (GISTs), and countering the mutational activation by specific tyrosine kinase inhibitors, such as Imatinib mesylate, is now standard treatment for metastatic GISTs.
T10 1798-2025 Sentence denotes KIT exon 11 mutations (in frame deletions, point mutations, and duplications) occur in GISTs of all locations, whereas a characteristic exon 9 insertion-duplication AY502-503 is nearly specific for intestinal vs gastric tumors.
T11 2026-2140 Sentence denotes In contrast, PDGFRA mutations are nearly specific for gastric GISTs, especially those with epithelioid morphology.
T12 2141-2266 Sentence denotes Mutation type influences therapy responsiveness, but fortunately very few GISTs carry primarily Imatinib-resistant mutations.
T13 2267-2417 Sentence denotes Secondary drug resistance acquired during Imatinib treatment based on new, Imatinib-resistant mutations is a major problem limiting treatment success.
T14 2418-2602 Sentence denotes Loss of NF2 tumor suppressor gene in a biallelic fashion is believed to be central in the pathogenesis of neurofibromatosis 2 (NF2) associated and sporadic schwannomas and meningiomas.
T15 2603-2740 Sentence denotes The mechanism includes nonsense or missense mutation in NF2 gene, and loss of the other NF2 allele as a part of losses in chromosome 22q.
T16 2741-2874 Sentence denotes Schwannoma types may differ in their pathogenesis: gastrointestinal schwannomas lack NF2 changes suggesting a different pathogenesis.
T17 2875-3033 Sentence denotes Intraneural and sclerosing perineuriomas display similar NF2 gene alterations as seen in meningioma, indicating a similar pathogenesis and molecular homology.
T18 3034-3168 Sentence denotes Specific viral sequences of human herpesvirus 8 (HHV8) are diagnostic markers for Kaposi sarcoma (KS), and are absent in angiosarcoma.
T19 3169-3420 Sentence denotes Despite discovery on simian virus SV40 sequences in mesothelioma as a possible pathogenetic factor, recent studies suggest that the presence of these sequences may be artifactual and based on common presence of some SV40 sequences as PCR contaminants.
T1 0-64 Sentence denotes From morphological to molecular diagnosis of soft tissue tumors.
T2 65-250 Sentence denotes Cytogenetic discoveries of balanced translocations in soft tissue tumors have opened the way to molecular genetic definition of these translocations as gene fusions from the late 1980s.
T3 251-539 Sentence denotes Many sarcomas are known to have such fusions, and the demonstration of the fusion transcripts in tumor tissue is of great value in specific diagnosis of synovial sarcoma (SYT-SSX), Ewing sarcoma (EWS-Fli1), clear cell sarcoma (EWS-ATF1), myxoid liposarcoma (FUS-CHOP), and other sarcomas.
T4 540-670 Sentence denotes These translocations are believed to be disease-specific and pathogenetic forces, despite occasional observations to the contrary.
T5 671-879 Sentence denotes Demonstration of SYT-SSX and EWS-ATF1 fusion assists in the diagnosis of synovial and clear cell sarcomas in unusual locations, such as the gastrointestinal tract, where these tumors occur with low frequency.
T6 880-1053 Sentence denotes Demonstration of sarcoma translocations and their fusion by different assays is well established; use of in situ hybridization is limited by availability of specific probes.
T7 1054-1332 Sentence denotes In two exceptional instances, the same translocation and gene fusion occurs in two unrelated diseases: ETV6-NTRK fusion in infantile fibrosarcoma and secretory carcinoma of the breast, and ALK-TPM3 fusion in inflammatory myofibroblastic tumor and large cell anaplastic lymphoma.
T8 1333-1432 Sentence denotes Thus, the target cell of the genetic change is an important factor to define the resulting disease.
T9 1433-1797 Sentence denotes Activating mutations in two related receptor tyrosine kinases (RTKs), KIT, and platelet-derived growth factor receptor alpha (PDGFRA) is central to the pathogenesis of gastrointestinal stromal tumors (GISTs), and countering the mutational activation by specific tyrosine kinase inhibitors, such as Imatinib mesylate, is now standard treatment for metastatic GISTs.
T10 1798-2025 Sentence denotes KIT exon 11 mutations (in frame deletions, point mutations, and duplications) occur in GISTs of all locations, whereas a characteristic exon 9 insertion-duplication AY502-503 is nearly specific for intestinal vs gastric tumors.
T11 2026-2140 Sentence denotes In contrast, PDGFRA mutations are nearly specific for gastric GISTs, especially those with epithelioid morphology.
T12 2141-2266 Sentence denotes Mutation type influences therapy responsiveness, but fortunately very few GISTs carry primarily Imatinib-resistant mutations.
T13 2267-2417 Sentence denotes Secondary drug resistance acquired during Imatinib treatment based on new, Imatinib-resistant mutations is a major problem limiting treatment success.
T14 2418-2602 Sentence denotes Loss of NF2 tumor suppressor gene in a biallelic fashion is believed to be central in the pathogenesis of neurofibromatosis 2 (NF2) associated and sporadic schwannomas and meningiomas.
T15 2603-2740 Sentence denotes The mechanism includes nonsense or missense mutation in NF2 gene, and loss of the other NF2 allele as a part of losses in chromosome 22q.
T16 2741-2874 Sentence denotes Schwannoma types may differ in their pathogenesis: gastrointestinal schwannomas lack NF2 changes suggesting a different pathogenesis.
T17 2875-3033 Sentence denotes Intraneural and sclerosing perineuriomas display similar NF2 gene alterations as seen in meningioma, indicating a similar pathogenesis and molecular homology.
T18 3034-3168 Sentence denotes Specific viral sequences of human herpesvirus 8 (HHV8) are diagnostic markers for Kaposi sarcoma (KS), and are absent in angiosarcoma.
T19 3169-3420 Sentence denotes Despite discovery on simian virus SV40 sequences in mesothelioma as a possible pathogenetic factor, recent studies suggest that the presence of these sequences may be artifactual and based on common presence of some SV40 sequences as PCR contaminants.

DisGeNET

Id Subject Object Predicate Lexical cue
T0 1247-1251 gene:7170 denotes TPM3
T1 1301-1331 disease:C0206180 denotes large cell anaplastic lymphoma
T2 1243-1246 gene:238 denotes ALK
T3 1301-1331 disease:C0206180 denotes large cell anaplastic lymphoma
T4 1157-1161 gene:2120 denotes ETV6
T5 1204-1237 disease:C0334371 denotes secretory carcinoma of the breast
T6 1559-1565 gene:5156 denotes PDGFRA
T7 1634-1639 disease:C0238198 denotes GISTs
T8 1512-1557 gene:5156 denotes platelet-derived growth factor receptor alpha
T9 1634-1639 disease:C0238198 denotes GISTs
T10 1512-1557 gene:5156 denotes platelet-derived growth factor receptor alpha
T11 1791-1796 disease:C0238198 denotes GISTs
T12 1559-1565 gene:5156 denotes PDGFRA
T13 1601-1632 disease:C0238198 denotes gastrointestinal stromal tumors
T14 1512-1557 gene:5156 denotes platelet-derived growth factor receptor alpha
T15 1601-1632 disease:C0238198 denotes gastrointestinal stromal tumors
T16 1559-1565 gene:5156 denotes PDGFRA
T17 1791-1796 disease:C0238198 denotes GISTs
T18 1503-1506 gene:3815 denotes KIT
T19 1791-1796 disease:C0238198 denotes GISTs
T20 1503-1506 gene:3815 denotes KIT
T21 1634-1639 disease:C0238198 denotes GISTs
T22 1503-1506 gene:3815 denotes KIT
T23 1601-1632 disease:C0238198 denotes gastrointestinal stromal tumors
T24 1798-1801 gene:3815 denotes KIT
T25 2010-2024 disease:C0038356 denotes gastric tumors
T26 1798-1801 gene:3815 denotes KIT
T27 1885-1890 disease:C0238198 denotes GISTs
R1 T0 T1 associated_with TPM3,large cell anaplastic lymphoma
R2 T2 T3 associated_with ALK,large cell anaplastic lymphoma
R3 T4 T5 associated_with ETV6,secretory carcinoma of the breast
R4 T6 T7 associated_with PDGFRA,GISTs
R5 T8 T9 associated_with platelet-derived growth factor receptor alpha,GISTs
R6 T10 T11 associated_with platelet-derived growth factor receptor alpha,GISTs
R7 T12 T13 associated_with PDGFRA,gastrointestinal stromal tumors
R8 T14 T15 associated_with platelet-derived growth factor receptor alpha,gastrointestinal stromal tumors
R9 T16 T17 associated_with PDGFRA,GISTs
R10 T18 T19 associated_with KIT,GISTs
R11 T20 T21 associated_with KIT,GISTs
R12 T22 T23 associated_with KIT,gastrointestinal stromal tumors
R13 T24 T25 associated_with KIT,gastric tumors
R14 T26 T27 associated_with KIT,GISTs

PubmedHPO

Id Subject Object Predicate Lexical cue
T1 131-137 HP_0002664 denotes tumors
T2 256-264 HP_0100242 denotes sarcomas
T3 348-353 HP_0002664 denotes tumor
T4 404-420 HP_0012570 denotes synovial sarcoma
T5 413-420 HP_0100242 denotes sarcoma
T6 432-445 HP_0012254 denotes Ewing sarcoma
T7 438-445 HP_0100242 denotes sarcoma
T8 469-476 HP_0100242 denotes sarcoma
T9 489-507 HP_0012268 denotes myxoid liposarcoma
T10 496-507 HP_0012034 denotes liposarcoma
T11 530-538 HP_0100242 denotes sarcomas
T12 768-776 HP_0100242 denotes sarcomas
T13 847-853 HP_0002664 denotes tumors
T14 897-904 HP_0100242 denotes sarcoma
T15 1187-1199 HP_0100244 denotes fibrosarcoma
T16 1214-1237 HP_0003002 denotes carcinoma of the breast
T17 1291-1296 HP_0002664 denotes tumor
T18 1301-1331 HP_0012193 denotes large cell anaplastic lymphoma
T19 1323-1331 HP_0002665 denotes lymphoma
T20 1601-1632 HP_0100723 denotes gastrointestinal stromal tumors
T21 1626-1632 HP_0002664 denotes tumors
T22 1634-1639 HP_0100723 denotes GISTs
T23 1791-1796 HP_0100723 denotes GISTs
T24 1862-1874 HP_0009609 denotes duplications
T25 1885-1890 HP_0100723 denotes GISTs
T26 1951-1962 HP_0009609 denotes duplication
T27 2010-2024 HP_0012126 denotes gastric tumors
T28 2018-2024 HP_0002664 denotes tumors
T29 2088-2093 HP_0100723 denotes GISTs
T30 2215-2220 HP_0100723 denotes GISTs
T31 2430-2435 HP_0002664 denotes tumor
T32 2524-2541 HP_0001067 denotes neurofibromatosis
T33 2574-2585 HP_0100008 denotes schwannomas
T34 2590-2601 HP_0002858 denotes meningiomas
T35 2741-2751 HP_0100008 denotes Schwannoma
T36 2809-2820 HP_0100008 denotes schwannomas
T37 2964-2974 HP_0002858 denotes meningioma
T38 3116-3130 HP_0100726 denotes Kaposi sarcoma
T39 3123-3130 HP_0100242 denotes sarcoma
T40 3155-3167 HP_0200058 denotes angiosarcoma
T1 131-137 HP_0002664 denotes tumors
T2 256-264 HP_0100242 denotes sarcomas
T3 348-353 HP_0002664 denotes tumor
T4 404-420 HP_0012570 denotes synovial sarcoma
T5 413-420 HP_0100242 denotes sarcoma
T6 432-445 HP_0012254 denotes Ewing sarcoma
T7 438-445 HP_0100242 denotes sarcoma
T8 469-476 HP_0100242 denotes sarcoma
T9 489-507 HP_0012268 denotes myxoid liposarcoma
T10 496-507 HP_0012034 denotes liposarcoma
T11 530-538 HP_0100242 denotes sarcomas
T12 768-776 HP_0100242 denotes sarcomas
T13 847-853 HP_0002664 denotes tumors
T14 897-904 HP_0100242 denotes sarcoma
T15 1187-1199 HP_0100244 denotes fibrosarcoma
T16 1214-1237 HP_0003002 denotes carcinoma of the breast
T17 1291-1296 HP_0002664 denotes tumor
T18 1301-1331 HP_0012193 denotes large cell anaplastic lymphoma
T19 1323-1331 HP_0002665 denotes lymphoma
T20 1601-1632 HP_0100723 denotes gastrointestinal stromal tumors
T21 1626-1632 HP_0002664 denotes tumors
T22 1634-1639 HP_0100723 denotes GISTs
T23 1791-1796 HP_0100723 denotes GISTs
T24 1862-1874 HP_0009609 denotes duplications
T25 1885-1890 HP_0100723 denotes GISTs
T26 1951-1962 HP_0009609 denotes duplication
T27 2010-2024 HP_0012126 denotes gastric tumors
T28 2018-2024 HP_0002664 denotes tumors
T29 2088-2093 HP_0100723 denotes GISTs
T30 2215-2220 HP_0100723 denotes GISTs
T31 2430-2435 HP_0002664 denotes tumor
T32 2524-2541 HP_0001067 denotes neurofibromatosis
T33 2574-2585 HP_0100008 denotes schwannomas
T34 2590-2601 HP_0002858 denotes meningiomas
T35 2741-2751 HP_0100008 denotes Schwannoma
T36 2809-2820 HP_0100008 denotes schwannomas
T37 2964-2974 HP_0002858 denotes meningioma
T38 3116-3130 HP_0100726 denotes Kaposi sarcoma
T39 3123-3130 HP_0100242 denotes sarcoma
T40 3155-3167 HP_0200058 denotes angiosarcoma

DisGeNET5_gene_disease

Id Subject Object Predicate Lexical cue
17163160-16#57#60#gene4771 2932-2935 gene4771 denotes NF2
17163160-16#89#99#diseaseC0025286 2964-2974 diseaseC0025286 denotes meningioma
17163160-6#189#192#gene238 1243-1246 gene238 denotes ALK
17163160-6#193#197#gene7170 1247-1251 gene7170 denotes TPM3
17163160-6#208#242#diseaseC0334121 1262-1296 diseaseC0334121 denotes inflammatory myofibroblastic tumor
17163160-6#247#277#diseaseC0206180 1301-1331 diseaseC0206180 denotes large cell anaplastic lymphoma
17163160-6#208#242#diseaseC0334121 1262-1296 diseaseC0334121 denotes inflammatory myofibroblastic tumor
17163160-8#79#124#gene5156 1512-1557 gene5156 denotes platelet-derived growth factor receptor alpha
17163160-8#126#132#gene5156 1559-1565 gene5156 denotes PDGFRA
17163160-8#168#199#diseaseC0238198 1601-1632 diseaseC0238198 denotes gastrointestinal stromal tumors
17163160-8#201#205#diseaseC0238198 1634-1638 diseaseC0238198 denotes GIST
17163160-8#358#362#diseaseC0238198 1791-1795 diseaseC0238198 denotes GIST
17163160-8#168#199#diseaseC0238198 1601-1632 diseaseC0238198 denotes gastrointestinal stromal tumors
17163160-8#201#205#diseaseC0238198 1634-1638 diseaseC0238198 denotes GIST
17163160-8#358#362#diseaseC0238198 1791-1795 diseaseC0238198 denotes GIST
17163160-9#0#3#gene3815 1798-1801 gene3815 denotes KIT
17163160-9#87#91#diseaseC0238198 1885-1889 diseaseC0238198 denotes GIST
17163160-9#212#226#diseaseC0038356 2010-2024 diseaseC0038356 denotes gastric tumors
57#60#gene477189#99#diseaseC0025286 17163160-16#57#60#gene4771 17163160-16#89#99#diseaseC0025286 associated_with NF2,meningioma
189#192#gene238208#242#diseaseC0334121 17163160-6#189#192#gene238 17163160-6#208#242#diseaseC0334121 associated_with ALK,inflammatory myofibroblastic tumor
189#192#gene238247#277#diseaseC0206180 17163160-6#189#192#gene238 17163160-6#247#277#diseaseC0206180 associated_with ALK,large cell anaplastic lymphoma
189#192#gene238208#242#diseaseC0334121 17163160-6#189#192#gene238 17163160-6#208#242#diseaseC0334121 associated_with ALK,inflammatory myofibroblastic tumor
193#197#gene7170208#242#diseaseC0334121 17163160-6#193#197#gene7170 17163160-6#208#242#diseaseC0334121 associated_with TPM3,inflammatory myofibroblastic tumor
193#197#gene7170247#277#diseaseC0206180 17163160-6#193#197#gene7170 17163160-6#247#277#diseaseC0206180 associated_with TPM3,large cell anaplastic lymphoma
193#197#gene7170208#242#diseaseC0334121 17163160-6#193#197#gene7170 17163160-6#208#242#diseaseC0334121 associated_with TPM3,inflammatory myofibroblastic tumor
79#124#gene5156168#199#diseaseC0238198 17163160-8#79#124#gene5156 17163160-8#168#199#diseaseC0238198 associated_with platelet-derived growth factor receptor alpha,gastrointestinal stromal tumors
79#124#gene5156201#205#diseaseC0238198 17163160-8#79#124#gene5156 17163160-8#201#205#diseaseC0238198 associated_with platelet-derived growth factor receptor alpha,GIST
79#124#gene5156358#362#diseaseC0238198 17163160-8#79#124#gene5156 17163160-8#358#362#diseaseC0238198 associated_with platelet-derived growth factor receptor alpha,GIST
79#124#gene5156168#199#diseaseC0238198 17163160-8#79#124#gene5156 17163160-8#168#199#diseaseC0238198 associated_with platelet-derived growth factor receptor alpha,gastrointestinal stromal tumors
79#124#gene5156201#205#diseaseC0238198 17163160-8#79#124#gene5156 17163160-8#201#205#diseaseC0238198 associated_with platelet-derived growth factor receptor alpha,GIST
79#124#gene5156358#362#diseaseC0238198 17163160-8#79#124#gene5156 17163160-8#358#362#diseaseC0238198 associated_with platelet-derived growth factor receptor alpha,GIST
126#132#gene5156168#199#diseaseC0238198 17163160-8#126#132#gene5156 17163160-8#168#199#diseaseC0238198 associated_with PDGFRA,gastrointestinal stromal tumors
126#132#gene5156201#205#diseaseC0238198 17163160-8#126#132#gene5156 17163160-8#201#205#diseaseC0238198 associated_with PDGFRA,GIST
126#132#gene5156358#362#diseaseC0238198 17163160-8#126#132#gene5156 17163160-8#358#362#diseaseC0238198 associated_with PDGFRA,GIST
126#132#gene5156168#199#diseaseC0238198 17163160-8#126#132#gene5156 17163160-8#168#199#diseaseC0238198 associated_with PDGFRA,gastrointestinal stromal tumors
126#132#gene5156201#205#diseaseC0238198 17163160-8#126#132#gene5156 17163160-8#201#205#diseaseC0238198 associated_with PDGFRA,GIST
126#132#gene5156358#362#diseaseC0238198 17163160-8#126#132#gene5156 17163160-8#358#362#diseaseC0238198 associated_with PDGFRA,GIST
0#3#gene381587#91#diseaseC0238198 17163160-9#0#3#gene3815 17163160-9#87#91#diseaseC0238198 associated_with KIT,GIST
0#3#gene3815212#226#diseaseC0038356 17163160-9#0#3#gene3815 17163160-9#212#226#diseaseC0038356 associated_with KIT,gastric tumors

DisGeNet-2017-sample

Id Subject Object Predicate Lexical cue
T2693 2932-2935 gene:4771 denotes NF2
T2694 2964-2974 disease:C0025286 denotes meningioma
R1 T2693 T2694 associated_with NF2,meningioma

sentences

Id Subject Object Predicate Lexical cue
TextSentencer_T1 0-64 Sentence denotes From morphological to molecular diagnosis of soft tissue tumors.
TextSentencer_T2 65-250 Sentence denotes Cytogenetic discoveries of balanced translocations in soft tissue tumors have opened the way to molecular genetic definition of these translocations as gene fusions from the late 1980s.
TextSentencer_T3 251-539 Sentence denotes Many sarcomas are known to have such fusions, and the demonstration of the fusion transcripts in tumor tissue is of great value in specific diagnosis of synovial sarcoma (SYT-SSX), Ewing sarcoma (EWS-Fli1), clear cell sarcoma (EWS-ATF1), myxoid liposarcoma (FUS-CHOP), and other sarcomas.
TextSentencer_T4 540-670 Sentence denotes These translocations are believed to be disease-specific and pathogenetic forces, despite occasional observations to the contrary.
TextSentencer_T5 671-879 Sentence denotes Demonstration of SYT-SSX and EWS-ATF1 fusion assists in the diagnosis of synovial and clear cell sarcomas in unusual locations, such as the gastrointestinal tract, where these tumors occur with low frequency.
TextSentencer_T6 880-1053 Sentence denotes Demonstration of sarcoma translocations and their fusion by different assays is well established; use of in situ hybridization is limited by availability of specific probes.
TextSentencer_T7 1054-1332 Sentence denotes In two exceptional instances, the same translocation and gene fusion occurs in two unrelated diseases: ETV6-NTRK fusion in infantile fibrosarcoma and secretory carcinoma of the breast, and ALK-TPM3 fusion in inflammatory myofibroblastic tumor and large cell anaplastic lymphoma.
TextSentencer_T8 1333-1432 Sentence denotes Thus, the target cell of the genetic change is an important factor to define the resulting disease.
TextSentencer_T9 1433-1797 Sentence denotes Activating mutations in two related receptor tyrosine kinases (RTKs), KIT, and platelet-derived growth factor receptor alpha (PDGFRA) is central to the pathogenesis of gastrointestinal stromal tumors (GISTs), and countering the mutational activation by specific tyrosine kinase inhibitors, such as Imatinib mesylate, is now standard treatment for metastatic GISTs.
TextSentencer_T10 1798-2025 Sentence denotes KIT exon 11 mutations (in frame deletions, point mutations, and duplications) occur in GISTs of all locations, whereas a characteristic exon 9 insertion-duplication AY502-503 is nearly specific for intestinal vs gastric tumors.
TextSentencer_T11 2026-2140 Sentence denotes In contrast, PDGFRA mutations are nearly specific for gastric GISTs, especially those with epithelioid morphology.
TextSentencer_T12 2141-2266 Sentence denotes Mutation type influences therapy responsiveness, but fortunately very few GISTs carry primarily Imatinib-resistant mutations.
TextSentencer_T13 2267-2417 Sentence denotes Secondary drug resistance acquired during Imatinib treatment based on new, Imatinib-resistant mutations is a major problem limiting treatment success.
TextSentencer_T14 2418-2602 Sentence denotes Loss of NF2 tumor suppressor gene in a biallelic fashion is believed to be central in the pathogenesis of neurofibromatosis 2 (NF2) associated and sporadic schwannomas and meningiomas.
TextSentencer_T15 2603-2740 Sentence denotes The mechanism includes nonsense or missense mutation in NF2 gene, and loss of the other NF2 allele as a part of losses in chromosome 22q.
TextSentencer_T16 2741-2874 Sentence denotes Schwannoma types may differ in their pathogenesis: gastrointestinal schwannomas lack NF2 changes suggesting a different pathogenesis.
TextSentencer_T17 2875-3033 Sentence denotes Intraneural and sclerosing perineuriomas display similar NF2 gene alterations as seen in meningioma, indicating a similar pathogenesis and molecular homology.
TextSentencer_T18 3034-3168 Sentence denotes Specific viral sequences of human herpesvirus 8 (HHV8) are diagnostic markers for Kaposi sarcoma (KS), and are absent in angiosarcoma.
TextSentencer_T19 3169-3420 Sentence denotes Despite discovery on simian virus SV40 sequences in mesothelioma as a possible pathogenetic factor, recent studies suggest that the presence of these sequences may be artifactual and based on common presence of some SV40 sequences as PCR contaminants.
T1 0-64 Sentence denotes From morphological to molecular diagnosis of soft tissue tumors.
T2 65-250 Sentence denotes Cytogenetic discoveries of balanced translocations in soft tissue tumors have opened the way to molecular genetic definition of these translocations as gene fusions from the late 1980s.
T3 251-539 Sentence denotes Many sarcomas are known to have such fusions, and the demonstration of the fusion transcripts in tumor tissue is of great value in specific diagnosis of synovial sarcoma (SYT-SSX), Ewing sarcoma (EWS-Fli1), clear cell sarcoma (EWS-ATF1), myxoid liposarcoma (FUS-CHOP), and other sarcomas.
T4 540-670 Sentence denotes These translocations are believed to be disease-specific and pathogenetic forces, despite occasional observations to the contrary.
T5 671-879 Sentence denotes Demonstration of SYT-SSX and EWS-ATF1 fusion assists in the diagnosis of synovial and clear cell sarcomas in unusual locations, such as the gastrointestinal tract, where these tumors occur with low frequency.
T6 880-1053 Sentence denotes Demonstration of sarcoma translocations and their fusion by different assays is well established; use of in situ hybridization is limited by availability of specific probes.
T7 1054-1332 Sentence denotes In two exceptional instances, the same translocation and gene fusion occurs in two unrelated diseases: ETV6-NTRK fusion in infantile fibrosarcoma and secretory carcinoma of the breast, and ALK-TPM3 fusion in inflammatory myofibroblastic tumor and large cell anaplastic lymphoma.
T8 1333-1432 Sentence denotes Thus, the target cell of the genetic change is an important factor to define the resulting disease.
T9 1433-1797 Sentence denotes Activating mutations in two related receptor tyrosine kinases (RTKs), KIT, and platelet-derived growth factor receptor alpha (PDGFRA) is central to the pathogenesis of gastrointestinal stromal tumors (GISTs), and countering the mutational activation by specific tyrosine kinase inhibitors, such as Imatinib mesylate, is now standard treatment for metastatic GISTs.
T10 1798-2025 Sentence denotes KIT exon 11 mutations (in frame deletions, point mutations, and duplications) occur in GISTs of all locations, whereas a characteristic exon 9 insertion-duplication AY502-503 is nearly specific for intestinal vs gastric tumors.
T11 2026-2140 Sentence denotes In contrast, PDGFRA mutations are nearly specific for gastric GISTs, especially those with epithelioid morphology.
T12 2141-2266 Sentence denotes Mutation type influences therapy responsiveness, but fortunately very few GISTs carry primarily Imatinib-resistant mutations.
T13 2267-2417 Sentence denotes Secondary drug resistance acquired during Imatinib treatment based on new, Imatinib-resistant mutations is a major problem limiting treatment success.
T14 2418-2602 Sentence denotes Loss of NF2 tumor suppressor gene in a biallelic fashion is believed to be central in the pathogenesis of neurofibromatosis 2 (NF2) associated and sporadic schwannomas and meningiomas.
T15 2603-2740 Sentence denotes The mechanism includes nonsense or missense mutation in NF2 gene, and loss of the other NF2 allele as a part of losses in chromosome 22q.
T16 2741-2874 Sentence denotes Schwannoma types may differ in their pathogenesis: gastrointestinal schwannomas lack NF2 changes suggesting a different pathogenesis.
T17 2875-3033 Sentence denotes Intraneural and sclerosing perineuriomas display similar NF2 gene alterations as seen in meningioma, indicating a similar pathogenesis and molecular homology.
T18 3034-3168 Sentence denotes Specific viral sequences of human herpesvirus 8 (HHV8) are diagnostic markers for Kaposi sarcoma (KS), and are absent in angiosarcoma.
T19 3169-3420 Sentence denotes Despite discovery on simian virus SV40 sequences in mesothelioma as a possible pathogenetic factor, recent studies suggest that the presence of these sequences may be artifactual and based on common presence of some SV40 sequences as PCR contaminants.

UBERON-AE

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 50-56 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T2 124-130 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T3 354-360 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T4 1231-1237 http://purl.obolibrary.org/obo/UBERON_0000310 denotes breast
PD-UBERON-AE-B_T5 1570-1577 http://purl.obolibrary.org/obo/UBERON_0012131 denotes central
PD-UBERON-AE-B_T6 2493-2500 http://purl.obolibrary.org/obo/UBERON_0012131 denotes central
PD-UBERON-AE-B_T7 1996-2006 http://purl.obolibrary.org/obo/UBERON_0000160 denotes intestinal

performance-test

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 50-56 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T2 124-130 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T3 354-360 http://purl.obolibrary.org/obo/UBERON_0000479 denotes tissue
PD-UBERON-AE-B_T4 1231-1237 http://purl.obolibrary.org/obo/UBERON_0000310 denotes breast
PD-UBERON-AE-B_T5 1996-2006 http://purl.obolibrary.org/obo/UBERON_0000160 denotes intestinal
PD-UBERON-AE-B_T6 1570-1577 http://purl.obolibrary.org/obo/UBERON_0012131 denotes central
PD-UBERON-AE-B_T7 2493-2500 http://purl.obolibrary.org/obo/UBERON_0012131 denotes central