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PubMed:19233913 JSONTXT

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PMID_GLOBAL

Id Subject Object Predicate Lexical cue mondo_id
T1 49-57 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T2 122-130 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T3 227-232 DiseaseOrPhenotypicFeature denotes tumor 0005070
T4 273-281 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T5 551-559 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T6 618-626 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T7 720-728 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T8 903-911 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T9 1099-1107 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T10 1242-1250 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T11 1301-1304 DiseaseOrPhenotypicFeature denotes can 0012833
T12 1328-1336 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T13 1560-1568 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T14 1639-1647 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T15 1751-1759 DiseaseOrPhenotypicFeature denotes melanoma 0005105
T16 1776-1779 DiseaseOrPhenotypicFeature denotes can 0012833

sentences

Id Subject Object Predicate Lexical cue
TextSentencer_T1 0-185 Sentence denotes mRNA expression and BRAF mutation in circulating melanoma cells isolated from peripheral blood with high molecular weight melanoma-associated antigen-specific monoclonal antibody beads.
TextSentencer_T2 186-197 Sentence denotes BACKGROUND:
TextSentencer_T3 198-395 Sentence denotes The detection of circulating tumor cells (CTCs) in the peripheral blood of melanoma patients by quantitative real-time reverse-transcription PCR (qRT-PCR) analysis correlates with a poor prognosis.
TextSentencer_T4 396-566 Sentence denotes The assessment of CTCs from blood has been difficult because of lack of a good monoclonal antibody (mAb) directed against surface cell antigens to capture melanoma cells.
TextSentencer_T5 567-575 Sentence denotes METHODS:
TextSentencer_T6 576-697 Sentence denotes Blood was collected prospectively from 57 melanoma patients (43 test and 14 test-development cases) and 5 healthy donors.
TextSentencer_T7 698-870 Sentence denotes High molecular weight melanoma-associated antigen (HMW-MAA)-specific mAbs bound to immunomagnetic beads were used to isolate CTCs. mRNA and/or DNA were extracted from CTCs.
TextSentencer_T8 871-1114 Sentence denotes Testing for the expression of a melanoma-associated gene panel (MLANA, MAGEA3, and MITF) with qRT-PCR and for the presence of BRAFmt (a BRAF gene variant encoding the V600E mutant protein) verified the beads-isolated CTCs to be melanoma cells.
TextSentencer_T9 1115-1186 Sentence denotes A peptide nucleic acid-clamping PCR assay was used for BRAFmt analysis.
TextSentencer_T10 1187-1195 Sentence denotes RESULTS:
TextSentencer_T11 1196-1488 Sentence denotes Spiking of peripheral blood cells (PBCs) with melanoma cells showed that the beads-based detection assay can detect approximately 1 melanoma cell in 5 x 10(6) PBCs. qRT-PCR analysis detected MLANA, MAGEA3, and MITF expression in 19 (44%), 29 (67%), and 19 (44%) of the patients, respectively.
TextSentencer_T12 1489-1578 Sentence denotes At least one biomarker of the panel was positive in 40 (93%) of the 43 melanoma patients.
TextSentencer_T13 1579-1657 Sentence denotes BRAFmt was detected in 17 (81%) of the 21 assessed stage IV melanoma patients.
TextSentencer_T14 1658-1669 Sentence denotes CONCLUSION:
TextSentencer_T15 1670-1848 Sentence denotes The assay of bead capture coupled with the PCR has utility for assessing CTCs in melanoma patients, which can then be characterized for both genomic and transcriptome expression.
T1 0-185 Sentence denotes mRNA expression and BRAF mutation in circulating melanoma cells isolated from peripheral blood with high molecular weight melanoma-associated antigen-specific monoclonal antibody beads.
T2 186-197 Sentence denotes BACKGROUND:
T3 198-395 Sentence denotes The detection of circulating tumor cells (CTCs) in the peripheral blood of melanoma patients by quantitative real-time reverse-transcription PCR (qRT-PCR) analysis correlates with a poor prognosis.
T4 396-566 Sentence denotes The assessment of CTCs from blood has been difficult because of lack of a good monoclonal antibody (mAb) directed against surface cell antigens to capture melanoma cells.
T5 567-575 Sentence denotes METHODS:
T6 576-697 Sentence denotes Blood was collected prospectively from 57 melanoma patients (43 test and 14 test-development cases) and 5 healthy donors.
T7 698-870 Sentence denotes High molecular weight melanoma-associated antigen (HMW-MAA)-specific mAbs bound to immunomagnetic beads were used to isolate CTCs. mRNA and/or DNA were extracted from CTCs.
T8 871-1114 Sentence denotes Testing for the expression of a melanoma-associated gene panel (MLANA, MAGEA3, and MITF) with qRT-PCR and for the presence of BRAFmt (a BRAF gene variant encoding the V600E mutant protein) verified the beads-isolated CTCs to be melanoma cells.
T9 1115-1186 Sentence denotes A peptide nucleic acid-clamping PCR assay was used for BRAFmt analysis.
T10 1187-1195 Sentence denotes RESULTS:
T11 1196-1488 Sentence denotes Spiking of peripheral blood cells (PBCs) with melanoma cells showed that the beads-based detection assay can detect approximately 1 melanoma cell in 5 x 10(6) PBCs. qRT-PCR analysis detected MLANA, MAGEA3, and MITF expression in 19 (44%), 29 (67%), and 19 (44%) of the patients, respectively.
T12 1489-1578 Sentence denotes At least one biomarker of the panel was positive in 40 (93%) of the 43 melanoma patients.
T13 1579-1657 Sentence denotes BRAFmt was detected in 17 (81%) of the 21 assessed stage IV melanoma patients.
T14 1658-1669 Sentence denotes CONCLUSION:
T15 1670-1848 Sentence denotes The assay of bead capture coupled with the PCR has utility for assessing CTCs in melanoma patients, which can then be characterized for both genomic and transcriptome expression.

DisGeNET

Id Subject Object Predicate Lexical cue
T0 942-948 gene:4102 denotes MAGEA3
T1 903-911 disease:C0025202 denotes melanoma
T2 954-958 gene:4286 denotes MITF
T3 903-911 disease:C0025202 denotes melanoma
T4 954-958 gene:4286 denotes MITF
T5 1099-1107 disease:C0025202 denotes melanoma
T6 1007-1011 gene:673 denotes BRAF
T7 1099-1107 disease:C0025202 denotes melanoma
R1 T0 T1 associated_with MAGEA3,melanoma
R2 T2 T3 associated_with MITF,melanoma
R3 T4 T5 associated_with MITF,melanoma
R4 T6 T7 associated_with BRAF,melanoma

DisGeNET5_variant_disease

Id Subject Object Predicate Lexical cue
19233913-5#167#172#geners113488022 1038-1043 geners113488022 denotes V600E
19233913-5#32#40#diseaseC0025202 903-911 diseaseC0025202 denotes melanoma
19233913-5#228#236#diseaseC0025202 1099-1107 diseaseC0025202 denotes melanoma
167#172#geners11348802232#40#diseaseC0025202 19233913-5#167#172#geners113488022 19233913-5#32#40#diseaseC0025202 associated_with V600E,melanoma
167#172#geners113488022228#236#diseaseC0025202 19233913-5#167#172#geners113488022 19233913-5#228#236#diseaseC0025202 associated_with V600E,melanoma

DisGeNET5_gene_disease

Id Subject Object Predicate Lexical cue
19233913-0#122#149#gene57730 122-149 gene57730 denotes melanoma-associated antigen
19233913-0#122#149#gene55279 122-149 gene55279 denotes melanoma-associated antigen
19233913-0#20#24#gene673 20-24 gene673 denotes BRAF
19233913-0#49#57#diseaseC0025202 49-57 diseaseC0025202 denotes melanoma
19233913-7#198#204#gene4102 1394-1400 gene4102 denotes MAGEA3
19233913-7#210#214#gene4286 1406-1410 gene4286 denotes MITF
19233913-7#46#54#diseaseC0025202 1242-1250 diseaseC0025202 denotes melanoma
19233913-7#132#140#diseaseC0025202 1328-1336 diseaseC0025202 denotes melanoma
19233913-7#46#54#diseaseC0025202 1242-1250 diseaseC0025202 denotes melanoma
19233913-7#132#140#diseaseC0025202 1328-1336 diseaseC0025202 denotes melanoma
122#149#gene5773049#57#diseaseC0025202 19233913-0#122#149#gene57730 19233913-0#49#57#diseaseC0025202 associated_with melanoma-associated antigen,melanoma
122#149#gene5527949#57#diseaseC0025202 19233913-0#122#149#gene55279 19233913-0#49#57#diseaseC0025202 associated_with melanoma-associated antigen,melanoma
20#24#gene67349#57#diseaseC0025202 19233913-0#20#24#gene673 19233913-0#49#57#diseaseC0025202 associated_with BRAF,melanoma
198#204#gene410246#54#diseaseC0025202 19233913-7#198#204#gene4102 19233913-7#46#54#diseaseC0025202 associated_with MAGEA3,melanoma
198#204#gene4102132#140#diseaseC0025202 19233913-7#198#204#gene4102 19233913-7#132#140#diseaseC0025202 associated_with MAGEA3,melanoma
198#204#gene410246#54#diseaseC0025202 19233913-7#198#204#gene4102 19233913-7#46#54#diseaseC0025202 associated_with MAGEA3,melanoma
198#204#gene4102132#140#diseaseC0025202 19233913-7#198#204#gene4102 19233913-7#132#140#diseaseC0025202 associated_with MAGEA3,melanoma
210#214#gene428646#54#diseaseC0025202 19233913-7#210#214#gene4286 19233913-7#46#54#diseaseC0025202 associated_with MITF,melanoma
210#214#gene4286132#140#diseaseC0025202 19233913-7#210#214#gene4286 19233913-7#132#140#diseaseC0025202 associated_with MITF,melanoma
210#214#gene428646#54#diseaseC0025202 19233913-7#210#214#gene4286 19233913-7#46#54#diseaseC0025202 associated_with MITF,melanoma
210#214#gene4286132#140#diseaseC0025202 19233913-7#210#214#gene4286 19233913-7#132#140#diseaseC0025202 associated_with MITF,melanoma

DisGeNet-2017-sample

Id Subject Object Predicate Lexical cue
T1454 122-149 gene:57730 denotes melanoma-associated antigen
T1455 49-57 disease:C0025202 denotes melanoma
R1 T1454 T1455 associated_with melanoma-associated antigen,melanoma
R2 T1454 T1455 associated_with melanoma-associated antigen,melanoma

UBERON-AE

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 89-94 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
PD-UBERON-AE-B_T2 264-269 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
PD-UBERON-AE-B_T3 424-429 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
PD-UBERON-AE-B_T4 1218-1223 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood

performance-test

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 89-94 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
PD-UBERON-AE-B_T2 264-269 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
PD-UBERON-AE-B_T3 424-429 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood
PD-UBERON-AE-B_T4 576-581 http://purl.obolibrary.org/obo/UBERON_0000178 denotes Blood
PD-UBERON-AE-B_T5 1218-1223 http://purl.obolibrary.org/obo/UBERON_0000178 denotes blood