> top > docs > PubMed:19082493 > annotations

PubMed:19082493 JSONTXT

Annnotations TAB JSON ListView MergeView

LitCoin-sentences

Id Subject Object Predicate Lexical cue
T1 0-168 Sentence denotes Combination of polymorphisms within 5' and 3' untranslated regions of thymidylate synthase gene modulates survival in 5 fluorouracil-treated colorectal cancer patients.
T2 169-359 Sentence denotes In the present study we explored the effect of three polymorphisms of the TS gene on overall and progression- free survival of colorectal cancer (CRC) patients subjected to 5FU chemotherapy.
T3 360-507 Sentence denotes A 28 bp variable number of tandem repeats (VNTR), a G/C single nucleotide polymorphism (SNP), and a deletion of 6 bp at position 1494 were studied.
T4 508-619 Sentence denotes The possible combined effect of these DNA polymorphisms on the clinical outcome of patients was also evaluated.
T5 620-732 Sentence denotes A retrospective study was carried out on paraffin-embedded sections from 113 patients diagnosed of advanced CRC.
T6 733-899 Sentence denotes TS genotyping methods were polymerase chain reaction (PCR) for VNTR and PCR, followed by restriction length fragment polymorphism (PCR-RFLP) for SNP and ins/del 6 bp.
T7 900-1109 Sentence denotes To study the combined effect of TS polymorphisms, four categories were defined accordingly to the level of expression attributed to SNP and ins/del 6 bp genotypes: C&allele 6-, C&6+/6+, G&allele6- and G&6+/6+.
T8 1110-1177 Sentence denotes VNTR and ins/del 6 bp genotypes varied with tumour anatomical site:
T9 1178-1347 Sentence denotes 2R/2R genotype was rare in left-sided tumours (7.0% vs. 26.3% of right-sided and 24.1% of rectal cancers; P<0.01), where the variant allele 6- was very frequent (69.0%).
T10 1348-1445 Sentence denotes Instead, most patients with right-sided tumours were wild-type homozygous 6+/6+ (63.9%) (P<0.01).
T11 1446-1566 Sentence denotes Heterozygous 6+/6- genotype was more frequent among tumours classified as C (50.0%) and D (76.5%) Dukes stages (P=0.05).
T12 1567-1659 Sentence denotes None of the studied polymorphisms alone affected overall or progression-free survival (PFS).
T13 1660-1937 Sentence denotes C&6+/6+ and G&6+/6+ combined genotypes were respectively associated to the best and worst PFS (P=0.03 when compared with each other), while combinations carrying the allele 6- determined an intermediate evolution that might be indicative of a variable response to chemotherapy.
T14 1938-2059 Sentence denotes The rate of Dukes B stage tumours was unexpectedly high (59.1%) among patients with the unfavourable G&6+/6+ combination.
T15 2060-2198 Sentence denotes In our study the combination of high TS expression genotypes G&6+/6+ identifies a group of high risk within CRC patients treated with 5FU.

LitCoin-entities

Id Subject Object Predicate Lexical cue db_id
5618 70-90 GeneOrGeneProduct denotes thymidylate synthase NCBIGene:7298
5619 118-132 ChemicalEntity denotes 5 fluorouracil MESH:D005472
5620 141-158 DiseaseOrPhenotypicFeature denotes colorectal cancer MESH:D015179
5621 159-167 OrganismTaxon denotes patients NCBITaxon:9606
5622 243-245 GeneOrGeneProduct denotes TS NCBIGene:7298
5623 296-313 DiseaseOrPhenotypicFeature denotes colorectal cancer MESH:D015179
5624 315-318 DiseaseOrPhenotypicFeature denotes CRC MESH:D015179
5625 320-328 OrganismTaxon denotes patients NCBITaxon:9606
5626 342-345 ChemicalEntity denotes 5FU MESH:D005472
5627 362-401 SequenceVariant denotes 28 bp variable number of tandem repeats c|DUP||28
5628 412-415 SequenceVariant denotes G/C c|SUB|G||C
5629 460-493 SequenceVariant denotes deletion of 6 bp at position 1494 c|DEL|194|6
5630 591-599 OrganismTaxon denotes patients NCBITaxon:9606
5631 661-669 ChemicalEntity denotes paraffin MESH:D010232
5632 697-705 OrganismTaxon denotes patients NCBITaxon:9606
5633 728-731 DiseaseOrPhenotypicFeature denotes CRC MESH:D015179
5634 733-735 GeneOrGeneProduct denotes TS NCBIGene:7298
5635 886-898 SequenceVariant denotes ins/del 6 bp c|INDEL||6
5636 932-934 GeneOrGeneProduct denotes TS NCBIGene:7298
5637 1040-1052 SequenceVariant denotes ins/del 6 bp c|INDEL||6
5638 1119-1131 SequenceVariant denotes ins/del 6 bp c|INDEL||6
5639 1154-1160 DiseaseOrPhenotypicFeature denotes tumour MESH:D009369
5640 1216-1223 DiseaseOrPhenotypicFeature denotes tumours MESH:D009369
5641 1268-1282 DiseaseOrPhenotypicFeature denotes rectal cancers MESH:D012004
5642 1362-1370 OrganismTaxon denotes patients NCBITaxon:9606
5643 1388-1395 DiseaseOrPhenotypicFeature denotes tumours MESH:D009369
5644 1498-1505 DiseaseOrPhenotypicFeature denotes tumours MESH:D009369
5645 1964-1971 DiseaseOrPhenotypicFeature denotes tumours MESH:D009369
5646 2008-2016 OrganismTaxon denotes patients NCBITaxon:9606
5647 2097-2099 GeneOrGeneProduct denotes TS NCBIGene:7298
5648 2168-2171 DiseaseOrPhenotypicFeature denotes CRC MESH:D015179
5649 2172-2180 OrganismTaxon denotes patients NCBITaxon:9606
5650 2194-2197 ChemicalEntity denotes 5FU MESH:D005472

LitCoin_Mondo

Id Subject Object Predicate Lexical cue mondo_id
T1 141-158 DiseaseOrPhenotypicFeature denotes colorectal cancer 0005575
T2 152-158 DiseaseOrPhenotypicFeature denotes cancer 0004992
T3 296-313 DiseaseOrPhenotypicFeature denotes colorectal cancer 0005575
T4 307-313 DiseaseOrPhenotypicFeature denotes cancer 0004992
T5 1197-1201 DiseaseOrPhenotypicFeature denotes rare 0021136
T6 1268-1282 DiseaseOrPhenotypicFeature denotes rectal cancers 0006519

LitCoin-GeneOrGeneProduct-v0

Id Subject Object Predicate Lexical cue
T1 39-44 GeneOrGeneProduct denotes and 3
T2 70-90 GeneOrGeneProduct denotes thymidylate synthase
T3 115-119 GeneOrGeneProduct denotes in 5
T4 315-318 GeneOrGeneProduct denotes CRC
T5 412-415 GeneOrGeneProduct denotes G/C
T6 447-459 GeneOrGeneProduct denotes (SNP), and a
T7 654-657 GeneOrGeneProduct denotes out
T8 728-731 GeneOrGeneProduct denotes CRC
T9 747-754 GeneOrGeneProduct denotes methods
T10 760-770 GeneOrGeneProduct denotes polymerase
T11 771-776 GeneOrGeneProduct denotes chain
T12 868-872 GeneOrGeneProduct denotes RFLP
T13 890-895 GeneOrGeneProduct denotes del 6
T14 1044-1049 GeneOrGeneProduct denotes del 6
T15 1123-1128 GeneOrGeneProduct denotes del 6
T16 1142-1148 GeneOrGeneProduct denotes varied
T17 1197-1201 GeneOrGeneProduct denotes rare
T18 1210-1215 GeneOrGeneProduct denotes sided
T19 1243-1248 GeneOrGeneProduct denotes right
T20 1249-1254 GeneOrGeneProduct denotes sided
T21 1376-1381 GeneOrGeneProduct denotes right
T22 1382-1387 GeneOrGeneProduct denotes sided
T23 1567-1571 GeneOrGeneProduct denotes None
T24 1735-1739 GeneOrGeneProduct denotes best
T25 1786-1791 GeneOrGeneProduct denotes other
T26 1836-1846 GeneOrGeneProduct denotes determined
T27 1989-1993 GeneOrGeneProduct denotes high
T28 2092-2096 GeneOrGeneProduct denotes high
T29 2151-2155 GeneOrGeneProduct denotes high
T30 2168-2171 GeneOrGeneProduct denotes CRC

LitCoin-GeneOrGeneProduct-v2

Id Subject Object Predicate Lexical cue
T1 70-90 GeneOrGeneProduct denotes thymidylate synthase
T2 760-770 GeneOrGeneProduct denotes polymerase
T3 771-776 GeneOrGeneProduct denotes chain
T4 890-895 GeneOrGeneProduct denotes del 6
T5 1044-1049 GeneOrGeneProduct denotes del 6
T6 1123-1128 GeneOrGeneProduct denotes del 6
T7 1197-1201 GeneOrGeneProduct denotes rare
T8 1735-1739 GeneOrGeneProduct denotes best
T9 1786-1791 GeneOrGeneProduct denotes other
T10 1989-1993 GeneOrGeneProduct denotes high
T11 2092-2096 GeneOrGeneProduct denotes high
T12 2151-2155 GeneOrGeneProduct denotes high

LitCoin-Disease-MeSH

Id Subject Object Predicate Lexical cue originalLabel
T1 141-158 DiseaseOrPhenotypicFeature denotes colorectal cancer D015179
T2 296-313 DiseaseOrPhenotypicFeature denotes colorectal cancer D015179
T3 315-318 DiseaseOrPhenotypicFeature denotes CRC D015179
T4 728-731 DiseaseOrPhenotypicFeature denotes CRC D015179
T5 1154-1160 DiseaseOrPhenotypicFeature denotes tumour DISEASE
T6 1216-1223 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T7 1268-1282 DiseaseOrPhenotypicFeature denotes rectal cancers D012004
T8 1388-1395 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T9 1498-1505 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T10 1964-1971 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T11 2168-2171 DiseaseOrPhenotypicFeature denotes CRC D015179

LitCoin-GeneOrGeneProduct-v3

Id Subject Object Predicate Lexical cue
T1 70-90 GeneOrGeneProduct denotes thymidylate synthase

LitCoin_Mondo_095

Id Subject Object Predicate Lexical cue mondo_id
T1 141-158 DiseaseOrPhenotypicFeature denotes colorectal cancer 0024331|0005575
T3 243-245 DiseaseOrPhenotypicFeature denotes TS 0016455|0010979
T5 296-313 DiseaseOrPhenotypicFeature denotes colorectal cancer 0024331|0005575
T7 315-318 DiseaseOrPhenotypicFeature denotes CRC 0024331|0005575
T9 728-731 DiseaseOrPhenotypicFeature denotes CRC 0024331|0005575
T11 733-735 DiseaseOrPhenotypicFeature denotes TS 0016455|0010979
T13 932-934 DiseaseOrPhenotypicFeature denotes TS 0016455|0010979
T15 2097-2099 DiseaseOrPhenotypicFeature denotes TS 0016455|0010979
T17 2168-2171 DiseaseOrPhenotypicFeature denotes CRC 0024331|0005575

LitCoin-MeSH-Disease-2

Id Subject Object Predicate Lexical cue ID:
T1 141-158 DiseaseOrPhenotypicFeature denotes colorectal cancer D015179
T2 296-313 DiseaseOrPhenotypicFeature denotes colorectal cancer D015179
T3 315-318 DiseaseOrPhenotypicFeature denotes CRC DISEASE|D015179
T5 728-731 DiseaseOrPhenotypicFeature denotes CRC DISEASE|D015179
T7 1154-1160 DiseaseOrPhenotypicFeature denotes tumour DISEASE
T8 1216-1223 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T9 1268-1282 DiseaseOrPhenotypicFeature denotes rectal cancers D012004
T10 1388-1395 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T11 1498-1505 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T12 1964-1971 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T13 2168-2171 DiseaseOrPhenotypicFeature denotes CRC DISEASE|D015179

LitCoin-MONDO_bioort2019

Id Subject Object Predicate Lexical cue #label
T1 141-158 DiseaseOrPhenotypicFeature denotes colorectal cancer D015179
T2 296-313 DiseaseOrPhenotypicFeature denotes colorectal cancer D015179
T3 315-318 DiseaseOrPhenotypicFeature denotes CRC DISEASE|D015179
T5 728-731 DiseaseOrPhenotypicFeature denotes CRC DISEASE|D015179
T7 1154-1160 DiseaseOrPhenotypicFeature denotes tumour DISEASE
T8 1216-1223 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T9 1268-1282 DiseaseOrPhenotypicFeature denotes rectal cancers D012004
T10 1388-1395 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T11 1498-1505 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T12 1964-1971 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T13 2168-2171 DiseaseOrPhenotypicFeature denotes CRC DISEASE|D015179

LitCoin-Chemical-MeSH-CHEBI

Id Subject Object Predicate Lexical cue ID:
T1 70-90 ChemicalEntity denotes thymidylate synthase D013940
T2 118-132 ChemicalEntity denotes 5 fluorouracil D005472
T3 342-345 ChemicalEntity denotes 5FU D005472|ChemicalEntity
T5 661-669 ChemicalEntity denotes paraffin D010232|ChemicalEntity
T7 2194-2197 ChemicalEntity denotes 5FU D005472|ChemicalEntity

LitCoin-NCBITaxon-2

Id Subject Object Predicate Lexical cue
T1 159-167 OrganismTaxon denotes patients
T2 320-328 OrganismTaxon denotes patients
T3 591-599 OrganismTaxon denotes patients
T4 697-705 OrganismTaxon denotes patients
T5 1362-1370 OrganismTaxon denotes patients
T6 2008-2016 OrganismTaxon denotes patients
T7 2172-2180 OrganismTaxon denotes patients

LitCoin-training-merged

Id Subject Object Predicate Lexical cue #label ID:
T7 2194-2197 ChemicalEntity denotes 5FU ChemicalEntity|D005472
T5 661-669 ChemicalEntity denotes paraffin ChemicalEntity|D010232
T3 342-345 ChemicalEntity denotes 5FU ChemicalEntity|D005472
T2 118-132 ChemicalEntity denotes 5 fluorouracil D005472
T1 70-90 ChemicalEntity denotes thymidylate synthase D013940
T2244 70-90 GeneOrGeneProduct denotes thymidylate synthase
T13 2168-2171 DiseaseOrPhenotypicFeature denotes CRC D015179|DISEASE
T12 1964-1971 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T11 1498-1505 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T10 1388-1395 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T9 1268-1282 DiseaseOrPhenotypicFeature denotes rectal cancers D012004
T8 1216-1223 DiseaseOrPhenotypicFeature denotes tumours DISEASE
T19220 1154-1160 DiseaseOrPhenotypicFeature denotes tumour DISEASE
T28017 728-731 DiseaseOrPhenotypicFeature denotes CRC D015179|DISEASE
T21946 315-318 DiseaseOrPhenotypicFeature denotes CRC D015179|DISEASE
T84477 296-313 DiseaseOrPhenotypicFeature denotes colorectal cancer D015179
T2296 141-158 DiseaseOrPhenotypicFeature denotes colorectal cancer D015179
T29473 2172-2180 OrganismTaxon denotes patients
T6 2008-2016 OrganismTaxon denotes patients
T65180 1362-1370 OrganismTaxon denotes patients
T4 697-705 OrganismTaxon denotes patients
T60913 591-599 OrganismTaxon denotes patients
T50114 320-328 OrganismTaxon denotes patients
T86836 159-167 OrganismTaxon denotes patients

DisGeNET5_gene_disease

Id Subject Object Predicate Lexical cue
19082493-0#70#90#gene7298 70-90 gene7298 denotes thymidylate synthase
19082493-0#141#158#diseaseC0009402 141-158 diseaseC0009402 denotes colorectal cancer
19082493-0#141#158#diseaseC1527249 141-158 diseaseC1527249 denotes colorectal cancer
70#90#gene7298141#158#diseaseC0009402 19082493-0#70#90#gene7298 19082493-0#141#158#diseaseC0009402 associated_with thymidylate synthase,colorectal cancer
70#90#gene7298141#158#diseaseC1527249 19082493-0#70#90#gene7298 19082493-0#141#158#diseaseC1527249 associated_with thymidylate synthase,colorectal cancer

tmVarCorpus

Id Subject Object Predicate Lexical cue
T1 412-415 DNAMutation:|SUB|G||C denotes G/C
T2 886-898 DNAMutation:|INDEL||6 denotes ins/del 6 bp
T3 1040-1052 DNAMutation:|INDEL||6 denotes ins/del 6 bp
T4 1119-1131 DNAMutation:|INDEL||6 denotes ins/del 6 bp