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PubMed:17595233 JSONTXT

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LitCoin-sentences

Id Subject Object Predicate Lexical cue
T1 0-138 Sentence denotes Mutations in pattern recognition receptor genes modulate seroreactivity to microbial antigens in patients with inflammatory bowel disease.
T2 139-159 Sentence denotes BACKGROUND AND AIMS:
T3 160-269 Sentence denotes A number of antibodies against microbial epitopes or self-antigens have been associated with Crohn's disease.
T4 270-455 Sentence denotes The development of antibodies reflects a loss of tolerance to intestinal bacteria that underlies Crohn's disease, resulting in an exaggerated adaptive immune response to these bacteria.
T5 456-613 Sentence denotes It was hypothesised that the development of antimicrobial antibodies is influenced by the presence of genetic variants in pattern recognition receptor genes.
T6 614-992 Sentence denotes The aim of this study was therefore to investigate the influence of mutations in these innate immune receptor genes (nucleotide oligomerisation domain (NOD) 2/caspase recruitment domain (CARD) 15, NOD1/CARD4, TUCAN/CARDINAL/CARD8, Toll-like receptor (TLR) 4, TLR2, TLR1 and TLR6) on the development of antimicrobial and antiglycan antibodies in inflammatory bowel disease (IBD).
T7 993-1015 Sentence denotes MATERIALS AND METHODS:
T8 1016-1490 Sentence denotes A cohort of 1163 unrelated patients with IBD (874 Crohn's disease, 259 ulcerative colitis, 30 indeterminate colitis) and 312 controls were analysed for anti-Saccharomyces cerevisiae antibodies (gASCA) IgG, anti-laminaribioside antibodies (ALCA) IgG, anti-chitobioside antibodies (ACCA) IgA, anti-mannobioside antibodies (AMCA) IgG and outer membrane porin (Omp) IgA and were genotyped for variants in NOD2/CARD15, TUCAN/CARDINAL/CARD8, NOD1/CARD4, TLR4, TLR1, TLR2 and TLR6.
T9 1491-1499 Sentence denotes RESULTS:
T10 1500-1868 Sentence denotes When compared with Crohn's disease patients without CARD15 mutations, the presence of at least one CARD15 variant in Crohn's disease patients more frequently led to gASCA positivity (66.1% versus 51.5%, p < 0.0001) and ALCA positivity (43.3% versus 34.9%, p = 0.018) and higher gASCA titers (85.7 versus 51.8 ELISA units, p < 0.0001), independent of ileal involvement.
T11 1869-2030 Sentence denotes A gene dosage effect, with increasing gASCA and ALCA positivity for patients carrying none, one and two CARD15 variants, respectively, was seen for both markers.
T12 2031-2225 Sentence denotes Similarly, Crohn's disease patients carrying NOD1/CARD4 indel had a higher prevalence of gASCA antibodies than wild-type patients (63.8% versus 55.2%, p = 0.014), also with a gene dosage effect.
T13 2226-2440 Sentence denotes An opposite effect was observed for the TLR4 D299G and TLR2 P631H variants, with a lower prevalence of ACCA antibodies (23.4% versus 35%, p = 0.013) and Omp antibodies (20.5% versus 34.6%, p = 0.009), respectively.
T14 2441-2452 Sentence denotes CONCLUSION:
T15 2453-2564 Sentence denotes Variants in innate immune receptor genes were found to influence antibody formation against microbial epitopes.
T16 2565-2664 Sentence denotes In this respect, it is intriguing that an opposite effect of CARD15 and TLR4 variants was observed.
T17 2665-2770 Sentence denotes These findings may contribute to an understanding of the aetiology of the seroreactivity observed in IBD.

LitCoin-entities-OrganismTaxon-PD

Id Subject Object Predicate Lexical cue db_id
T1 343-351 OrganismTaxon denotes bacteria NCBItxid:2
T2 446-454 OrganismTaxon denotes bacteria NCBItxid:2
T3 1173-1197 OrganismTaxon denotes Saccharomyces cerevisiae NCBItxid:4932

LitCoin-entities

Id Subject Object Predicate Lexical cue db_id
4145 97-105 OrganismTaxon denotes patients NCBITaxon:9606
4146 111-137 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease MESH:D015212
4147 253-268 DiseaseOrPhenotypicFeature denotes Crohn's disease MESH:D003424
4148 343-351 OrganismTaxon denotes bacteria NCBITaxon:2
4149 367-382 DiseaseOrPhenotypicFeature denotes Crohn's disease MESH:D003424
4150 446-454 OrganismTaxon denotes bacteria NCBITaxon:2
4151 701-723 GeneOrGeneProduct denotes innate immune receptor NCBIGene:10333|NCBIGene:10392|NCBIGene:22900|NCBIGene:64127|NCBIGene:7096|NCBIGene:7097|NCBIGene:7099
4152 731-772 GeneOrGeneProduct denotes nucleotide oligomerisation domain (NOD) 2 NCBIGene:64127
4153 773-809 GeneOrGeneProduct denotes caspase recruitment domain (CARD) 15 NCBIGene:64127
4154 811-815 GeneOrGeneProduct denotes NOD1 NCBIGene:10392
4155 816-821 GeneOrGeneProduct denotes CARD4 NCBIGene:10392
4156 823-828 GeneOrGeneProduct denotes TUCAN NCBIGene:22900
4157 829-837 GeneOrGeneProduct denotes CARDINAL NCBIGene:22900
4158 838-843 GeneOrGeneProduct denotes CARD8 NCBIGene:22900
4159 845-871 GeneOrGeneProduct denotes Toll-like receptor (TLR) 4 NCBIGene:7099
4160 873-877 GeneOrGeneProduct denotes TLR2 NCBIGene:7097
4161 879-883 GeneOrGeneProduct denotes TLR1 NCBIGene:7096
4162 888-892 GeneOrGeneProduct denotes TLR6 NCBIGene:10333
4163 959-985 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease MESH:D015212
4164 987-990 DiseaseOrPhenotypicFeature denotes IBD MESH:D015212
4165 1043-1051 OrganismTaxon denotes patients NCBITaxon:9606
4166 1057-1060 DiseaseOrPhenotypicFeature denotes IBD MESH:D015212
4167 1066-1081 DiseaseOrPhenotypicFeature denotes Crohn's disease MESH:D003424
4168 1087-1105 DiseaseOrPhenotypicFeature denotes ulcerative colitis MESH:D003093
4169 1124-1131 DiseaseOrPhenotypicFeature denotes colitis MESH:D003092
4170 1173-1197 OrganismTaxon denotes Saccharomyces cerevisiae NCBITaxon:4932
4171 1417-1421 GeneOrGeneProduct denotes NOD2 NCBIGene:64127
4172 1422-1428 GeneOrGeneProduct denotes CARD15 NCBIGene:64127
4173 1430-1435 GeneOrGeneProduct denotes TUCAN NCBIGene:22900
4174 1436-1444 GeneOrGeneProduct denotes CARDINAL NCBIGene:22900
4175 1445-1450 GeneOrGeneProduct denotes CARD8 NCBIGene:22900
4176 1452-1456 GeneOrGeneProduct denotes NOD1 NCBIGene:10392
4177 1457-1462 GeneOrGeneProduct denotes CARD4 NCBIGene:10392
4178 1464-1468 GeneOrGeneProduct denotes TLR4 NCBIGene:7099
4179 1470-1474 GeneOrGeneProduct denotes TLR1 NCBIGene:7096
4180 1476-1480 GeneOrGeneProduct denotes TLR2 NCBIGene:7097
4181 1485-1489 GeneOrGeneProduct denotes TLR6 NCBIGene:10333
4182 1519-1534 DiseaseOrPhenotypicFeature denotes Crohn's disease MESH:D003424
4183 1535-1543 OrganismTaxon denotes patients NCBITaxon:9606
4184 1552-1558 GeneOrGeneProduct denotes CARD15 NCBIGene:64127
4185 1599-1605 GeneOrGeneProduct denotes CARD15 NCBIGene:64127
4186 1617-1632 DiseaseOrPhenotypicFeature denotes Crohn's disease MESH:D003424
4187 1633-1641 OrganismTaxon denotes patients NCBITaxon:9606
4188 1937-1945 OrganismTaxon denotes patients NCBITaxon:9606
4189 1973-1979 GeneOrGeneProduct denotes CARD15 NCBIGene:64127
4190 2042-2057 DiseaseOrPhenotypicFeature denotes Crohn's disease MESH:D003424
4191 2058-2066 OrganismTaxon denotes patients NCBITaxon:9606
4192 2076-2080 GeneOrGeneProduct denotes NOD1 NCBIGene:10392
4193 2081-2086 GeneOrGeneProduct denotes CARD4 NCBIGene:10392
4194 2152-2160 OrganismTaxon denotes patients NCBITaxon:9606
4195 2266-2270 GeneOrGeneProduct denotes TLR4 NCBIGene:7099
4196 2271-2276 SequenceVariant denotes D299G DBSNP:rs4986790
4197 2281-2285 GeneOrGeneProduct denotes TLR2 NCBIGene:7097
4198 2286-2291 SequenceVariant denotes P631H p|SUB|P|631|H
4199 2465-2487 GeneOrGeneProduct denotes innate immune receptor NCBIGene:10333|NCBIGene:10392|NCBIGene:22900|NCBIGene:64127|NCBIGene:7096|NCBIGene:7097|NCBIGene:7099
4200 2626-2632 GeneOrGeneProduct denotes CARD15 NCBIGene:64127
4201 2637-2641 GeneOrGeneProduct denotes TLR4 NCBIGene:7099
4202 2766-2769 DiseaseOrPhenotypicFeature denotes IBD MESH:D015212

LitCoin_Mondo

Id Subject Object Predicate Lexical cue mondo_id
T1 111-137 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease 0005265
T2 253-268 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T3 367-382 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T4 959-985 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease 0005265
T5 1066-1081 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T6 1087-1105 DiseaseOrPhenotypicFeature denotes ulcerative colitis 0005101
T7 1098-1105 DiseaseOrPhenotypicFeature denotes colitis 0005292
T8 1110-1131 DiseaseOrPhenotypicFeature denotes indeterminate colitis 0006038
T9 1124-1131 DiseaseOrPhenotypicFeature denotes colitis 0005292
T10 1519-1534 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T11 1617-1632 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T12 2042-2057 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011

LitCoin-SeqVar

Id Subject Object Predicate Lexical cue
T1 2271-2276 SequenceVariant denotes D299G
T2 2286-2291 SequenceVariant denotes P631H

LitCoin-GeneOrGeneProduct-v2

Id Subject Object Predicate Lexical cue
T1 33-41 GeneOrGeneProduct denotes receptor
T2 124-129 GeneOrGeneProduct denotes bowel
T3 332-342 GeneOrGeneProduct denotes intestinal
T4 598-606 GeneOrGeneProduct denotes receptor
T5 715-723 GeneOrGeneProduct denotes receptor
T6 773-780 GeneOrGeneProduct denotes caspase
T7 811-815 GeneOrGeneProduct denotes NOD1
T8 816-821 GeneOrGeneProduct denotes CARD4
T9 823-828 GeneOrGeneProduct denotes TUCAN
T10 829-837 GeneOrGeneProduct denotes CARDINAL
T11 838-843 GeneOrGeneProduct denotes CARD8
T12 845-863 GeneOrGeneProduct denotes Toll-like receptor
T13 873-877 GeneOrGeneProduct denotes TLR2
T14 879-883 GeneOrGeneProduct denotes TLR1
T15 888-892 GeneOrGeneProduct denotes TLR6
T16 972-977 GeneOrGeneProduct denotes bowel
T17 1137-1140 GeneOrGeneProduct denotes 312
T18 1296-1300 GeneOrGeneProduct denotes ACCA
T19 1351-1371 GeneOrGeneProduct denotes outer membrane porin
T20 1373-1376 GeneOrGeneProduct denotes Omp
T21 1417-1421 GeneOrGeneProduct denotes NOD2
T22 1422-1428 GeneOrGeneProduct denotes CARD15
T23 1430-1435 GeneOrGeneProduct denotes TUCAN
T24 1436-1444 GeneOrGeneProduct denotes CARDINAL
T25 1445-1450 GeneOrGeneProduct denotes CARD8
T26 1452-1456 GeneOrGeneProduct denotes NOD1
T27 1457-1462 GeneOrGeneProduct denotes CARD4
T28 1464-1468 GeneOrGeneProduct denotes TLR4
T29 1470-1474 GeneOrGeneProduct denotes TLR1
T30 1476-1480 GeneOrGeneProduct denotes TLR2
T31 1485-1489 GeneOrGeneProduct denotes TLR6
T32 1552-1558 GeneOrGeneProduct denotes CARD15
T33 1599-1605 GeneOrGeneProduct denotes CARD15
T34 1955-1959 GeneOrGeneProduct denotes none
T35 1973-1979 GeneOrGeneProduct denotes CARD15
T36 2076-2080 GeneOrGeneProduct denotes NOD1
T37 2081-2086 GeneOrGeneProduct denotes CARD4
T38 2266-2270 GeneOrGeneProduct denotes TLR4
T39 2281-2285 GeneOrGeneProduct denotes TLR2
T40 2329-2333 GeneOrGeneProduct denotes ACCA
T41 2379-2382 GeneOrGeneProduct denotes Omp
T42 2479-2487 GeneOrGeneProduct denotes receptor
T43 2626-2632 GeneOrGeneProduct denotes CARD15
T44 2637-2641 GeneOrGeneProduct denotes TLR4

LitCoin-GeneOrGeneProduct-v0

Id Subject Object Predicate Lexical cue
T1 0-9 GeneOrGeneProduct denotes Mutations
T2 33-41 GeneOrGeneProduct denotes receptor
T3 85-96 GeneOrGeneProduct denotes antigens in
T4 124-129 GeneOrGeneProduct denotes bowel
T5 218-226 GeneOrGeneProduct denotes antigens
T6 319-328 GeneOrGeneProduct denotes tolerance
T7 332-342 GeneOrGeneProduct denotes intestinal
T8 421-427 GeneOrGeneProduct denotes immune
T9 598-606 GeneOrGeneProduct denotes receptor
T10 679-691 GeneOrGeneProduct denotes of mutations
T11 708-714 GeneOrGeneProduct denotes immune
T12 715-723 GeneOrGeneProduct denotes receptor
T13 765-772 GeneOrGeneProduct denotes (NOD) 2
T14 773-780 GeneOrGeneProduct denotes caspase
T15 800-809 GeneOrGeneProduct denotes (CARD) 15
T16 811-815 GeneOrGeneProduct denotes NOD1
T17 816-821 GeneOrGeneProduct denotes CARD4
T18 823-828 GeneOrGeneProduct denotes TUCAN
T19 829-837 GeneOrGeneProduct denotes CARDINAL
T20 838-843 GeneOrGeneProduct denotes CARD8
T21 845-863 GeneOrGeneProduct denotes Toll-like receptor
T22 864-871 GeneOrGeneProduct denotes (TLR) 4
T23 873-877 GeneOrGeneProduct denotes TLR2
T24 879-883 GeneOrGeneProduct denotes TLR1
T25 888-892 GeneOrGeneProduct denotes TLR6
T26 972-977 GeneOrGeneProduct denotes bowel
T27 1003-1014 GeneOrGeneProduct denotes AND METHODS
T28 1137-1140 GeneOrGeneProduct denotes 312
T29 1255-1259 GeneOrGeneProduct denotes ALCA
T30 1296-1300 GeneOrGeneProduct denotes ACCA
T31 1351-1371 GeneOrGeneProduct denotes outer membrane porin
T32 1373-1376 GeneOrGeneProduct denotes Omp
T33 1417-1421 GeneOrGeneProduct denotes NOD2
T34 1422-1428 GeneOrGeneProduct denotes CARD15
T35 1430-1435 GeneOrGeneProduct denotes TUCAN
T36 1436-1444 GeneOrGeneProduct denotes CARDINAL
T37 1445-1450 GeneOrGeneProduct denotes CARD8
T38 1452-1456 GeneOrGeneProduct denotes NOD1
T39 1457-1462 GeneOrGeneProduct denotes CARD4
T40 1464-1468 GeneOrGeneProduct denotes TLR4
T41 1470-1474 GeneOrGeneProduct denotes TLR1
T42 1476-1480 GeneOrGeneProduct denotes TLR2
T43 1485-1489 GeneOrGeneProduct denotes TLR6
T44 1552-1558 GeneOrGeneProduct denotes CARD15
T45 1559-1568 GeneOrGeneProduct denotes mutations
T46 1599-1605 GeneOrGeneProduct denotes CARD15
T47 1719-1723 GeneOrGeneProduct denotes ALCA
T48 1917-1921 GeneOrGeneProduct denotes ALCA
T49 1955-1959 GeneOrGeneProduct denotes none
T50 1973-1979 GeneOrGeneProduct denotes CARD15
T51 2031-2040 GeneOrGeneProduct denotes Similarly
T52 2076-2080 GeneOrGeneProduct denotes NOD1
T53 2081-2086 GeneOrGeneProduct denotes CARD4
T54 2093-2098 GeneOrGeneProduct denotes had a
T55 2266-2270 GeneOrGeneProduct denotes TLR4
T56 2281-2285 GeneOrGeneProduct denotes TLR2
T57 2329-2333 GeneOrGeneProduct denotes ACCA
T58 2379-2382 GeneOrGeneProduct denotes Omp
T59 2472-2478 GeneOrGeneProduct denotes immune
T60 2479-2487 GeneOrGeneProduct denotes receptor
T61 2527-2536 GeneOrGeneProduct denotes formation
T62 2626-2632 GeneOrGeneProduct denotes CARD15
T63 2637-2641 GeneOrGeneProduct denotes TLR4
T64 2671-2679 GeneOrGeneProduct denotes findings

LitCoin-Disease-MeSH

Id Subject Object Predicate Lexical cue originalLabel
T1 111-137 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease D015212
T2 253-268 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T3 367-382 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T4 959-985 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease D015212
T5 987-990 DiseaseOrPhenotypicFeature denotes IBD D015212
T6 1057-1060 DiseaseOrPhenotypicFeature denotes IBD D015212
T7 1066-1081 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T8 1087-1105 DiseaseOrPhenotypicFeature denotes ulcerative colitis D003093
T9 1124-1131 DiseaseOrPhenotypicFeature denotes colitis D003092
T10 1519-1534 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T11 1617-1632 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T12 2042-2057 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T13 2766-2769 DiseaseOrPhenotypicFeature denotes IBD D015212

LitCoin-GeneOrGeneProduct-v3

Id Subject Object Predicate Lexical cue
T1 773-780 GeneOrGeneProduct denotes caspase
T2 811-815 GeneOrGeneProduct denotes NOD1
T3 816-821 GeneOrGeneProduct denotes CARD4
T4 823-828 GeneOrGeneProduct denotes TUCAN
T5 829-837 GeneOrGeneProduct denotes CARDINAL
T6 838-843 GeneOrGeneProduct denotes CARD8
T7 845-863 GeneOrGeneProduct denotes Toll-like receptor
T8 865-868 GeneOrGeneProduct denotes TLR
T9 873-877 GeneOrGeneProduct denotes TLR2
T10 879-883 GeneOrGeneProduct denotes TLR1
T11 888-892 GeneOrGeneProduct denotes TLR6
T12 1137-1140 GeneOrGeneProduct denotes 312
T13 1296-1300 GeneOrGeneProduct denotes ACCA
T14 1366-1371 GeneOrGeneProduct denotes porin
T15 1417-1421 GeneOrGeneProduct denotes NOD2
T16 1422-1428 GeneOrGeneProduct denotes CARD15
T17 1430-1435 GeneOrGeneProduct denotes TUCAN
T18 1436-1444 GeneOrGeneProduct denotes CARDINAL
T19 1445-1450 GeneOrGeneProduct denotes CARD8
T20 1452-1456 GeneOrGeneProduct denotes NOD1
T21 1457-1462 GeneOrGeneProduct denotes CARD4
T22 1464-1468 GeneOrGeneProduct denotes TLR4
T23 1470-1474 GeneOrGeneProduct denotes TLR1
T24 1476-1480 GeneOrGeneProduct denotes TLR2
T25 1485-1489 GeneOrGeneProduct denotes TLR6
T26 1552-1558 GeneOrGeneProduct denotes CARD15
T27 1599-1605 GeneOrGeneProduct denotes CARD15
T28 1973-1979 GeneOrGeneProduct denotes CARD15
T29 2076-2080 GeneOrGeneProduct denotes NOD1
T30 2081-2086 GeneOrGeneProduct denotes CARD4
T31 2266-2270 GeneOrGeneProduct denotes TLR4
T32 2281-2285 GeneOrGeneProduct denotes TLR2
T33 2329-2333 GeneOrGeneProduct denotes ACCA
T34 2626-2632 GeneOrGeneProduct denotes CARD15
T35 2637-2641 GeneOrGeneProduct denotes TLR4

LitCoin_Mondo_095

Id Subject Object Predicate Lexical cue mondo_id
T1 111-137 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease 0005265
T2 253-268 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T3 367-382 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T4 766-769 DiseaseOrPhenotypicFeature denotes NOD 0007435
T5 801-805 DiseaseOrPhenotypicFeature denotes CARD 0002145
T6 959-985 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease 0005265
T7 987-990 DiseaseOrPhenotypicFeature denotes IBD 0005265|0005052
T9 1057-1060 DiseaseOrPhenotypicFeature denotes IBD 0005265|0005052
T11 1066-1081 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T12 1087-1105 DiseaseOrPhenotypicFeature denotes ulcerative colitis 0009960|0005101
T14 1110-1131 DiseaseOrPhenotypicFeature denotes indeterminate colitis 0006038
T15 1519-1534 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T16 1617-1632 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T17 2042-2057 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T18 2766-2769 DiseaseOrPhenotypicFeature denotes IBD 0005265|0005052

LitCoin-MeSH-Disease-2

Id Subject Object Predicate Lexical cue ID:
T1 111-137 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease D015212
T2 253-268 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T3 367-382 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T4 959-985 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease D015212
T5 987-990 DiseaseOrPhenotypicFeature denotes IBD D015212
T6 1057-1060 DiseaseOrPhenotypicFeature denotes IBD D015212
T7 1066-1081 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T8 1087-1105 DiseaseOrPhenotypicFeature denotes ulcerative colitis D003093
T9 1124-1131 DiseaseOrPhenotypicFeature denotes colitis D003092
T10 1519-1534 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T11 1617-1632 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T12 2042-2057 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T13 2766-2769 DiseaseOrPhenotypicFeature denotes IBD D015212

LitCoin-MONDO_bioort2019

Id Subject Object Predicate Lexical cue #label
T1 111-137 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease D015212
T2 253-268 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T3 367-382 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T4 959-985 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease D015212
T5 987-990 DiseaseOrPhenotypicFeature denotes IBD D015212
T6 1057-1060 DiseaseOrPhenotypicFeature denotes IBD D015212
T7 1066-1081 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T8 1087-1105 DiseaseOrPhenotypicFeature denotes ulcerative colitis D003093
T9 1124-1131 DiseaseOrPhenotypicFeature denotes colitis D003092
T10 1519-1534 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T11 1617-1632 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T12 2042-2057 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T13 2766-2769 DiseaseOrPhenotypicFeature denotes IBD D015212

LitCoin-Chemical-MeSH-CHEBI

Id Subject Object Predicate Lexical cue ID:
T1 201-209 ChemicalEntity denotes epitopes D000939
T2 213-226 ChemicalEntity denotes self-antigens D001324
T3 1337-1341 ChemicalEntity denotes AMCA D014148
T4 2555-2563 ChemicalEntity denotes epitopes D000939

LitCoin-NCBITaxon-2

Id Subject Object Predicate Lexical cue
T1 97-105 OrganismTaxon denotes patients
T2 343-351 OrganismTaxon denotes bacteria
T3 446-454 OrganismTaxon denotes bacteria
T4 829-837 OrganismTaxon denotes CARDINAL
T5 1043-1051 OrganismTaxon denotes patients
T6 1173-1197 OrganismTaxon denotes Saccharomyces cerevisiae
T7 1255-1259 OrganismTaxon denotes ALCA
T8 1296-1300 OrganismTaxon denotes ACCA
T9 1436-1444 OrganismTaxon denotes CARDINAL
T10 1535-1543 OrganismTaxon denotes patients
T11 1633-1641 OrganismTaxon denotes patients
T12 1719-1723 OrganismTaxon denotes ALCA
T13 1917-1921 OrganismTaxon denotes ALCA
T14 1937-1945 OrganismTaxon denotes patients
T15 2058-2066 OrganismTaxon denotes patients
T16 2152-2160 OrganismTaxon denotes patients
T17 2329-2333 OrganismTaxon denotes ACCA

LitCoin-training-merged

Id Subject Object Predicate Lexical cue #label ID:
T4 2555-2563 ChemicalEntity denotes epitopes D000939
T3 1337-1341 ChemicalEntity denotes AMCA D014148
T2 213-226 ChemicalEntity denotes self-antigens D001324
T1 201-209 ChemicalEntity denotes epitopes D000939
T35 2637-2641 GeneOrGeneProduct denotes TLR4
T34 2626-2632 GeneOrGeneProduct denotes CARD15
T33 2329-2333 GeneOrGeneProduct denotes ACCA
T32 2281-2285 GeneOrGeneProduct denotes TLR2
T31 2266-2270 GeneOrGeneProduct denotes TLR4
T30 2081-2086 GeneOrGeneProduct denotes CARD4
T29 2076-2080 GeneOrGeneProduct denotes NOD1
T28 1973-1979 GeneOrGeneProduct denotes CARD15
T27 1599-1605 GeneOrGeneProduct denotes CARD15
T26 1552-1558 GeneOrGeneProduct denotes CARD15
T25 1485-1489 GeneOrGeneProduct denotes TLR6
T24 1476-1480 GeneOrGeneProduct denotes TLR2
T23 1470-1474 GeneOrGeneProduct denotes TLR1
T22 1464-1468 GeneOrGeneProduct denotes TLR4
T21 1457-1462 GeneOrGeneProduct denotes CARD4
T20 1452-1456 GeneOrGeneProduct denotes NOD1
T19 1445-1450 GeneOrGeneProduct denotes CARD8
T18 1436-1444 GeneOrGeneProduct denotes CARDINAL
T17 1430-1435 GeneOrGeneProduct denotes TUCAN
T16 1422-1428 GeneOrGeneProduct denotes CARD15
T15 1417-1421 GeneOrGeneProduct denotes NOD2
T14 1366-1371 GeneOrGeneProduct denotes porin
T13 1296-1300 GeneOrGeneProduct denotes ACCA
T12 1137-1140 GeneOrGeneProduct denotes 312
T11 888-892 GeneOrGeneProduct denotes TLR6
T10 879-883 GeneOrGeneProduct denotes TLR1
T9 873-877 GeneOrGeneProduct denotes TLR2
T8 865-868 GeneOrGeneProduct denotes TLR
T7 845-863 GeneOrGeneProduct denotes Toll-like receptor
T6 838-843 GeneOrGeneProduct denotes CARD8
T5 829-837 GeneOrGeneProduct denotes CARDINAL
T40401 823-828 GeneOrGeneProduct denotes TUCAN
T31050 816-821 GeneOrGeneProduct denotes CARD4
T32896 811-815 GeneOrGeneProduct denotes NOD1
T49518 773-780 GeneOrGeneProduct denotes caspase
T80816 2766-2769 DiseaseOrPhenotypicFeature denotes IBD D015212
T8654 2042-2057 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T90038 1617-1632 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T86822 1519-1534 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T27171 1124-1131 DiseaseOrPhenotypicFeature denotes colitis D003092
T5075 1087-1105 DiseaseOrPhenotypicFeature denotes ulcerative colitis D003093
T72782 1066-1081 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T31290 1057-1060 DiseaseOrPhenotypicFeature denotes IBD D015212
T85430 987-990 DiseaseOrPhenotypicFeature denotes IBD D015212
T26637 959-985 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease D015212
T65600 367-382 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T62275 253-268 DiseaseOrPhenotypicFeature denotes Crohn's disease D003424
T81958 111-137 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease D015212
T30168 2329-2333 OrganismTaxon denotes ACCA
T59786 2152-2160 OrganismTaxon denotes patients
T75572 2058-2066 OrganismTaxon denotes patients
T94984 1937-1945 OrganismTaxon denotes patients
T20460 1917-1921 OrganismTaxon denotes ALCA
T17520 1719-1723 OrganismTaxon denotes ALCA
T2031 1633-1641 OrganismTaxon denotes patients
T12909 1535-1543 OrganismTaxon denotes patients
T18358 1436-1444 OrganismTaxon denotes CARDINAL
T35896 1296-1300 OrganismTaxon denotes ACCA
T53134 1255-1259 OrganismTaxon denotes ALCA
T94749 1173-1197 OrganismTaxon denotes Saccharomyces cerevisiae
T15595 1043-1051 OrganismTaxon denotes patients
T9161 829-837 OrganismTaxon denotes CARDINAL
T12518 446-454 OrganismTaxon denotes bacteria
T26854 343-351 OrganismTaxon denotes bacteria
T96830 97-105 OrganismTaxon denotes patients
T26716 2286-2291 SequenceVariant denotes P631H
T15862 2271-2276 SequenceVariant denotes D299G

PMID_GLOBAL

Id Subject Object Predicate Lexical cue mondo_id
T1 111-137 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease 0005265
T2 253-268 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T3 367-382 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T4 766-769 DiseaseOrPhenotypicFeature denotes NOD 0007435
T5 801-805 DiseaseOrPhenotypicFeature denotes CARD 0002145
T6 959-985 DiseaseOrPhenotypicFeature denotes inflammatory bowel disease 0005265
T7 987-990 DiseaseOrPhenotypicFeature denotes IBD 0005052|0005265
T9 1057-1060 DiseaseOrPhenotypicFeature denotes IBD 0005052|0005265
T11 1066-1081 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T12 1087-1105 DiseaseOrPhenotypicFeature denotes ulcerative colitis 0005101|0009960
T14 1110-1131 DiseaseOrPhenotypicFeature denotes indeterminate colitis 0006038
T15 1519-1534 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T16 1617-1632 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T17 2042-2057 DiseaseOrPhenotypicFeature denotes Crohn's disease 0005011
T18 2766-2769 DiseaseOrPhenotypicFeature denotes IBD 0005052|0005265

Inflammaging

Id Subject Object Predicate Lexical cue
T1 0-138 Sentence denotes Mutations in pattern recognition receptor genes modulate seroreactivity to microbial antigens in patients with inflammatory bowel disease.
T2 139-159 Sentence denotes BACKGROUND AND AIMS:
T3 160-269 Sentence denotes A number of antibodies against microbial epitopes or self-antigens have been associated with Crohn's disease.
T4 270-455 Sentence denotes The development of antibodies reflects a loss of tolerance to intestinal bacteria that underlies Crohn's disease, resulting in an exaggerated adaptive immune response to these bacteria.
T5 456-613 Sentence denotes It was hypothesised that the development of antimicrobial antibodies is influenced by the presence of genetic variants in pattern recognition receptor genes.
T6 614-992 Sentence denotes The aim of this study was therefore to investigate the influence of mutations in these innate immune receptor genes (nucleotide oligomerisation domain (NOD) 2/caspase recruitment domain (CARD) 15, NOD1/CARD4, TUCAN/CARDINAL/CARD8, Toll-like receptor (TLR) 4, TLR2, TLR1 and TLR6) on the development of antimicrobial and antiglycan antibodies in inflammatory bowel disease (IBD).
T7 993-1015 Sentence denotes MATERIALS AND METHODS:
T8 1016-1490 Sentence denotes A cohort of 1163 unrelated patients with IBD (874 Crohn's disease, 259 ulcerative colitis, 30 indeterminate colitis) and 312 controls were analysed for anti-Saccharomyces cerevisiae antibodies (gASCA) IgG, anti-laminaribioside antibodies (ALCA) IgG, anti-chitobioside antibodies (ACCA) IgA, anti-mannobioside antibodies (AMCA) IgG and outer membrane porin (Omp) IgA and were genotyped for variants in NOD2/CARD15, TUCAN/CARDINAL/CARD8, NOD1/CARD4, TLR4, TLR1, TLR2 and TLR6.
T9 1491-1499 Sentence denotes RESULTS:
T10 1500-1868 Sentence denotes When compared with Crohn's disease patients without CARD15 mutations, the presence of at least one CARD15 variant in Crohn's disease patients more frequently led to gASCA positivity (66.1% versus 51.5%, p < 0.0001) and ALCA positivity (43.3% versus 34.9%, p = 0.018) and higher gASCA titers (85.7 versus 51.8 ELISA units, p < 0.0001), independent of ileal involvement.
T11 1869-2030 Sentence denotes A gene dosage effect, with increasing gASCA and ALCA positivity for patients carrying none, one and two CARD15 variants, respectively, was seen for both markers.
T12 2031-2225 Sentence denotes Similarly, Crohn's disease patients carrying NOD1/CARD4 indel had a higher prevalence of gASCA antibodies than wild-type patients (63.8% versus 55.2%, p = 0.014), also with a gene dosage effect.
T13 2226-2440 Sentence denotes An opposite effect was observed for the TLR4 D299G and TLR2 P631H variants, with a lower prevalence of ACCA antibodies (23.4% versus 35%, p = 0.013) and Omp antibodies (20.5% versus 34.6%, p = 0.009), respectively.
T14 2441-2452 Sentence denotes CONCLUSION:
T15 2453-2564 Sentence denotes Variants in innate immune receptor genes were found to influence antibody formation against microbial epitopes.
T16 2565-2664 Sentence denotes In this respect, it is intriguing that an opposite effect of CARD15 and TLR4 variants was observed.
T17 2665-2770 Sentence denotes These findings may contribute to an understanding of the aetiology of the seroreactivity observed in IBD.
T1 0-138 Sentence denotes Mutations in pattern recognition receptor genes modulate seroreactivity to microbial antigens in patients with inflammatory bowel disease.
T2 139-159 Sentence denotes BACKGROUND AND AIMS:
T3 160-269 Sentence denotes A number of antibodies against microbial epitopes or self-antigens have been associated with Crohn's disease.
T4 270-455 Sentence denotes The development of antibodies reflects a loss of tolerance to intestinal bacteria that underlies Crohn's disease, resulting in an exaggerated adaptive immune response to these bacteria.
T5 456-613 Sentence denotes It was hypothesised that the development of antimicrobial antibodies is influenced by the presence of genetic variants in pattern recognition receptor genes.
T6 614-992 Sentence denotes The aim of this study was therefore to investigate the influence of mutations in these innate immune receptor genes (nucleotide oligomerisation domain (NOD) 2/caspase recruitment domain (CARD) 15, NOD1/CARD4, TUCAN/CARDINAL/CARD8, Toll-like receptor (TLR) 4, TLR2, TLR1 and TLR6) on the development of antimicrobial and antiglycan antibodies in inflammatory bowel disease (IBD).
T7 993-1015 Sentence denotes MATERIALS AND METHODS:
T8 1016-1490 Sentence denotes A cohort of 1163 unrelated patients with IBD (874 Crohn's disease, 259 ulcerative colitis, 30 indeterminate colitis) and 312 controls were analysed for anti-Saccharomyces cerevisiae antibodies (gASCA) IgG, anti-laminaribioside antibodies (ALCA) IgG, anti-chitobioside antibodies (ACCA) IgA, anti-mannobioside antibodies (AMCA) IgG and outer membrane porin (Omp) IgA and were genotyped for variants in NOD2/CARD15, TUCAN/CARDINAL/CARD8, NOD1/CARD4, TLR4, TLR1, TLR2 and TLR6.
T9 1491-1499 Sentence denotes RESULTS:
T10 1500-1868 Sentence denotes When compared with Crohn's disease patients without CARD15 mutations, the presence of at least one CARD15 variant in Crohn's disease patients more frequently led to gASCA positivity (66.1% versus 51.5%, p < 0.0001) and ALCA positivity (43.3% versus 34.9%, p = 0.018) and higher gASCA titers (85.7 versus 51.8 ELISA units, p < 0.0001), independent of ileal involvement.
T11 1869-2030 Sentence denotes A gene dosage effect, with increasing gASCA and ALCA positivity for patients carrying none, one and two CARD15 variants, respectively, was seen for both markers.
T12 2031-2225 Sentence denotes Similarly, Crohn's disease patients carrying NOD1/CARD4 indel had a higher prevalence of gASCA antibodies than wild-type patients (63.8% versus 55.2%, p = 0.014), also with a gene dosage effect.
T13 2226-2440 Sentence denotes An opposite effect was observed for the TLR4 D299G and TLR2 P631H variants, with a lower prevalence of ACCA antibodies (23.4% versus 35%, p = 0.013) and Omp antibodies (20.5% versus 34.6%, p = 0.009), respectively.
T14 2441-2452 Sentence denotes CONCLUSION:
T15 2453-2564 Sentence denotes Variants in innate immune receptor genes were found to influence antibody formation against microbial epitopes.
T16 2565-2664 Sentence denotes In this respect, it is intriguing that an opposite effect of CARD15 and TLR4 variants was observed.
T17 2665-2770 Sentence denotes These findings may contribute to an understanding of the aetiology of the seroreactivity observed in IBD.

DisGeNET

Id Subject Object Predicate Lexical cue
T0 838-843 gene:22900 denotes CARD8
T1 959-985 disease:C0021390 denotes inflammatory bowel disease
T2 873-877 gene:7097 denotes TLR2
T3 959-985 disease:C0021390 denotes inflammatory bowel disease
T4 879-883 gene:7096 denotes TLR1
T5 959-985 disease:C0021390 denotes inflammatory bowel disease
T6 879-883 gene:7096 denotes TLR1
T7 987-990 disease:C0021390 denotes IBD
T8 888-892 gene:10333 denotes TLR6
T9 959-985 disease:C0021390 denotes inflammatory bowel disease
T10 888-892 gene:10333 denotes TLR6
T11 987-990 disease:C0021390 denotes IBD
T12 1485-1489 gene:10333 denotes TLR6
T13 1057-1060 disease:C0021390 denotes IBD
T14 1445-1450 gene:22900 denotes CARD8
T15 1057-1060 disease:C0021390 denotes IBD
T16 1457-1462 gene:10392 denotes CARD4
T17 1057-1060 disease:C0021390 denotes IBD
T18 1476-1480 gene:7097 denotes TLR2
T19 1057-1060 disease:C0021390 denotes IBD
T20 1422-1428 gene:64127 denotes CARD15
T21 1057-1060 disease:C0021390 denotes IBD
T22 1552-1558 gene:64127 denotes CARD15
T23 1519-1524 disease:C0010346 denotes Crohn
T24 1599-1605 gene:64127 denotes CARD15
T25 1617-1622 disease:C0010346 denotes Crohn
R1 T0 T1 associated_with CARD8,inflammatory bowel disease
R2 T2 T3 associated_with TLR2,inflammatory bowel disease
R3 T4 T5 associated_with TLR1,inflammatory bowel disease
R4 T6 T7 associated_with TLR1,IBD
R5 T8 T9 associated_with TLR6,inflammatory bowel disease
R6 T10 T11 associated_with TLR6,IBD
R7 T12 T13 associated_with TLR6,IBD
R8 T14 T15 associated_with CARD8,IBD
R9 T16 T17 associated_with CARD4,IBD
R10 T18 T19 associated_with TLR2,IBD
R11 T20 T21 associated_with CARD15,IBD
R12 T22 T23 associated_with CARD15,Crohn
R13 T24 T25 associated_with CARD15,Crohn

PubmedHPO

Id Subject Object Predicate Lexical cue
T1 253-268 HP_0100280 denotes Crohn's disease
T2 367-382 HP_0100280 denotes Crohn's disease

DisGeNET5_gene_disease

Id Subject Object Predicate Lexical cue
17595233-4#224#229#gene22900 838-843 gene22900 denotes CARD8
17595233-4#259#263#gene7097 873-877 gene7097 denotes TLR2
17595233-4#265#269#gene7096 879-883 gene7096 denotes TLR1
17595233-4#274#278#gene10333 888-892 gene10333 denotes TLR6
17595233-4#345#371#diseaseC0021390 959-985 diseaseC0021390 denotes inflammatory bowel disease
17595233-4#373#376#diseaseC0021390 987-990 diseaseC0021390 denotes IBD
17595233-6#99#105#gene64127 1599-1605 gene64127 denotes CARD15
17595233-6#117#132#diseaseC0010346 1617-1632 diseaseC0010346 denotes Crohn's disease
224#229#gene22900345#371#diseaseC0021390 17595233-4#224#229#gene22900 17595233-4#345#371#diseaseC0021390 associated_with CARD8,inflammatory bowel disease
224#229#gene22900373#376#diseaseC0021390 17595233-4#224#229#gene22900 17595233-4#373#376#diseaseC0021390 associated_with CARD8,IBD
259#263#gene7097345#371#diseaseC0021390 17595233-4#259#263#gene7097 17595233-4#345#371#diseaseC0021390 associated_with TLR2,inflammatory bowel disease
259#263#gene7097373#376#diseaseC0021390 17595233-4#259#263#gene7097 17595233-4#373#376#diseaseC0021390 associated_with TLR2,IBD
265#269#gene7096345#371#diseaseC0021390 17595233-4#265#269#gene7096 17595233-4#345#371#diseaseC0021390 associated_with TLR1,inflammatory bowel disease
265#269#gene7096373#376#diseaseC0021390 17595233-4#265#269#gene7096 17595233-4#373#376#diseaseC0021390 associated_with TLR1,IBD
274#278#gene10333345#371#diseaseC0021390 17595233-4#274#278#gene10333 17595233-4#345#371#diseaseC0021390 associated_with TLR6,inflammatory bowel disease
274#278#gene10333373#376#diseaseC0021390 17595233-4#274#278#gene10333 17595233-4#373#376#diseaseC0021390 associated_with TLR6,IBD
99#105#gene64127117#132#diseaseC0010346 17595233-6#99#105#gene64127 17595233-6#117#132#diseaseC0010346 associated_with CARD15,Crohn's disease

tmVarCorpus

Id Subject Object Predicate Lexical cue
T1 2271-2276 ProteinMutation:p|SUB|D|299|G denotes D299G
T2 2286-2291 ProteinMutation:p|SUB|P|631|H denotes P631H