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PubMed:16120104 JSONTXT

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LitCoin-sentences

Id Subject Object Predicate Lexical cue
T1 0-119 Sentence denotes A single-nucleotide polymorphism in the 5'-untranslated region of the hPER2 gene is associated with diurnal preference.
T2 120-234 Sentence denotes The PERIOD2 (PER2) gene is a key component of the molecular mechanism that generates circadian rhythms in mammals.
T3 235-345 Sentence denotes A missense mutation in the human PER2 gene has previously been linked to advanced sleep phase syndrome (ASPS).
T4 346-654 Sentence denotes We have investigated three other single-nucleotide polymorphisms in the hPER2 gene, one downstream of the transcription start site (C-1228T), one in exon 2 in the 5'-untranslated region (5'-UTR) (C111G), and one missense mutation (G3853A) causing a glycine to glutamine substitution in the predicted protein.
T5 655-858 Sentence denotes Subjects selected from a group of 484 volunteers for extreme morning or evening preference, or intermediate diurnal preference were genotyped with regard to the three polymorphisms (n=35 for each group).
T6 859-1196 Sentence denotes Whereas allele frequencies for the other two polymorphisms did not differ significantly between any of the groups, the 111G allele frequency was significantly higher in subjects with extreme morning preference (0.14) than in subjects with extreme evening preference (0.03) (Fisher's exact test, two-sided P value=0.031, odds ratio=5.67).
T7 1197-1342 Sentence denotes No significant difference in 111G allele frequency was observed between either of these groups and subjects with intermediate diurnal preference.
T8 1343-1521 Sentence denotes Computer prediction indicated that the C111G polymorphism, which occurs 12 bases upstream from the translation start codon, might alter the secondary structure of the transcript.
T9 1522-1623 Sentence denotes The PER2 111G allele associates with morning preference and is a potential candidate allele for ASPS.

LitCoin-entities-OrganismTaxon-PD

Id Subject Object Predicate Lexical cue db_id
T1 226-233 OrganismTaxon denotes mammals NCBItxid:40674
T2 262-267 OrganismTaxon denotes human NCBItxid:9606
T3 1460-1465 OrganismTaxon denotes codon NCBItxid:79338

LitCoin-entities

Id Subject Object Predicate Lexical cue db_id
2208 70-75 GeneOrGeneProduct denotes hPER2 NCBIGene:8864
2209 124-131 GeneOrGeneProduct denotes PERIOD2 NCBIGene:8864
2210 133-137 GeneOrGeneProduct denotes PER2 NCBIGene:8864
2211 262-267 OrganismTaxon denotes human NCBITaxon:9606
2212 268-272 GeneOrGeneProduct denotes PER2 NCBIGene:8864
2213 308-337 DiseaseOrPhenotypicFeature denotes advanced sleep phase syndrome MESH:C565789
2214 339-343 DiseaseOrPhenotypicFeature denotes ASPS MESH:C565789
2215 418-423 GeneOrGeneProduct denotes hPER2 NCBIGene:8864
2216 478-485 SequenceVariant denotes C-1228T c|SUB|C|-1228|T
2217 542-547 SequenceVariant denotes C111G c|SUB|C|111|G
2218 577-583 SequenceVariant denotes G3853A c|SUB|G|3853|A
2219 595-615 SequenceVariant denotes glycine to glutamine p|SUB|G||Q
2220 978-982 SequenceVariant denotes 111G c|Allele|G|111
2221 1226-1230 SequenceVariant denotes 111G c|Allele|G|111
2222 1382-1387 SequenceVariant denotes C111G c|SUB|C|111|G
2223 1526-1530 GeneOrGeneProduct denotes PER2 NCBIGene:8864
2224 1531-1535 SequenceVariant denotes 111G c|Allele|G|111
2225 1618-1622 DiseaseOrPhenotypicFeature denotes ASPS MESH:C565789

LitCoin_Mondo

Id Subject Object Predicate Lexical cue mondo_id
T1 308-337 DiseaseOrPhenotypicFeature denotes advanced sleep phase syndrome 0015609

LitCoin-SeqVar

Id Subject Object Predicate Lexical cue
T1 478-485 SequenceVariant denotes C-1228T
T2 542-547 SequenceVariant denotes C111G
T3 577-583 SequenceVariant denotes G3853A
T4 978-982 SequenceVariant denotes 111G
T5 1226-1230 SequenceVariant denotes 111G
T6 1382-1387 SequenceVariant denotes C111G
T7 1531-1535 SequenceVariant denotes 111G

LitCoin-Chemical-MeSH-CHEBI

Id Subject Object Predicate Lexical cue ID:
T1 595-602 ChemicalEntity denotes glycine http://purl.obolibrary.org/obo/CHEBI_57305|http://purl.obolibrary.org/obo/CHEBI_29947|http://purl.obolibrary.org/obo/CHEBI_15428
T4 606-615 ChemicalEntity denotes glutamine http://purl.obolibrary.org/obo/CHEBI_28300

LitCoin-GeneOrGeneProduct-v0

Id Subject Object Predicate Lexical cue
T1 70-75 GeneOrGeneProduct denotes hPER2
T2 124-131 GeneOrGeneProduct denotes PERIOD2
T3 133-137 GeneOrGeneProduct denotes PER2
T4 139-148 GeneOrGeneProduct denotes gene is a
T5 205-222 GeneOrGeneProduct denotes circadian rhythms
T6 237-245 GeneOrGeneProduct denotes missense
T7 246-254 GeneOrGeneProduct denotes mutation
T8 268-272 GeneOrGeneProduct denotes PER2
T9 298-304 GeneOrGeneProduct denotes linked
T10 329-337 GeneOrGeneProduct denotes syndrome
T11 339-343 GeneOrGeneProduct denotes ASPS
T12 373-378 GeneOrGeneProduct denotes other
T13 418-423 GeneOrGeneProduct denotes hPER2
T14 452-465 GeneOrGeneProduct denotes transcription
T15 466-471 GeneOrGeneProduct denotes start
T16 533-539 GeneOrGeneProduct denotes 5'-UTR
T17 558-566 GeneOrGeneProduct denotes missense
T18 567-575 GeneOrGeneProduct denotes mutation
T19 606-615 GeneOrGeneProduct denotes glutamine
T20 646-653 GeneOrGeneProduct denotes protein
T21 716-723 GeneOrGeneProduct denotes morning
T22 727-734 GeneOrGeneProduct denotes evening
T23 837-841 GeneOrGeneProduct denotes n=35
T24 874-885 GeneOrGeneProduct denotes frequencies
T25 894-899 GeneOrGeneProduct denotes other
T26 990-999 GeneOrGeneProduct denotes frequency
T27 1050-1057 GeneOrGeneProduct denotes morning
T28 1106-1113 GeneOrGeneProduct denotes evening
T29 1148-1152 GeneOrGeneProduct denotes test
T30 1158-1163 GeneOrGeneProduct denotes sided
T31 1166-1171 GeneOrGeneProduct denotes value
T32 1238-1247 GeneOrGeneProduct denotes frequency
T33 1352-1362 GeneOrGeneProduct denotes prediction
T34 1418-1423 GeneOrGeneProduct denotes bases
T35 1454-1459 GeneOrGeneProduct denotes start
T36 1510-1520 GeneOrGeneProduct denotes transcript
T37 1526-1530 GeneOrGeneProduct denotes PER2
T38 1559-1566 GeneOrGeneProduct denotes morning
T39 1618-1622 GeneOrGeneProduct denotes ASPS

LitCoin-GeneOrGeneProduct-v2

Id Subject Object Predicate Lexical cue
T1 70-75 GeneOrGeneProduct denotes hPER2
T2 124-131 GeneOrGeneProduct denotes PERIOD2
T3 133-137 GeneOrGeneProduct denotes PER2
T4 205-222 GeneOrGeneProduct denotes circadian rhythms
T5 268-272 GeneOrGeneProduct denotes PER2
T6 329-337 GeneOrGeneProduct denotes syndrome
T7 339-343 GeneOrGeneProduct denotes ASPS
T8 373-378 GeneOrGeneProduct denotes other
T9 418-423 GeneOrGeneProduct denotes hPER2
T10 452-465 GeneOrGeneProduct denotes transcription
T11 466-471 GeneOrGeneProduct denotes start
T12 533-539 GeneOrGeneProduct denotes 5'-UTR
T13 606-615 GeneOrGeneProduct denotes glutamine
T14 646-653 GeneOrGeneProduct denotes protein
T15 894-899 GeneOrGeneProduct denotes other
T16 990-999 GeneOrGeneProduct denotes frequency
T17 1238-1247 GeneOrGeneProduct denotes frequency
T18 1454-1459 GeneOrGeneProduct denotes start
T19 1510-1520 GeneOrGeneProduct denotes transcript
T20 1526-1530 GeneOrGeneProduct denotes PER2
T21 1618-1622 GeneOrGeneProduct denotes ASPS

LitCoin-Disease-MeSH

Id Subject Object Predicate Lexical cue originalLabel
T1 308-337 DiseaseOrPhenotypicFeature denotes advanced sleep phase syndrome D020178
T2 339-343 DiseaseOrPhenotypicFeature denotes ASPS D020178
T3 1618-1622 DiseaseOrPhenotypicFeature denotes ASPS D020178

LitCoin-GeneOrGeneProduct-v3

Id Subject Object Predicate Lexical cue
T1 70-75 GeneOrGeneProduct denotes hPER2
T2 124-131 GeneOrGeneProduct denotes PERIOD2
T3 133-137 GeneOrGeneProduct denotes PER2
T4 205-222 GeneOrGeneProduct denotes circadian rhythms
T5 268-272 GeneOrGeneProduct denotes PER2
T6 418-423 GeneOrGeneProduct denotes hPER2
T7 636-653 GeneOrGeneProduct denotes predicted protein
T8 1526-1530 GeneOrGeneProduct denotes PER2

LitCoin_Mondo_095

Id Subject Object Predicate Lexical cue mondo_id
T1 308-337 DiseaseOrPhenotypicFeature denotes advanced sleep phase syndrome 0024378|0015609
T3 339-343 DiseaseOrPhenotypicFeature denotes ASPS 0024378|0011655
T5 1618-1622 DiseaseOrPhenotypicFeature denotes ASPS 0024378|0011655

LitCoin-MeSH-Disease-2

Id Subject Object Predicate Lexical cue ID:
T1 308-337 DiseaseOrPhenotypicFeature denotes advanced sleep phase syndrome D020178
T2 339-343 DiseaseOrPhenotypicFeature denotes ASPS D020178
T3 1618-1622 DiseaseOrPhenotypicFeature denotes ASPS D020178

LitCoin-MONDO_bioort2019

Id Subject Object Predicate Lexical cue #label
T1 308-337 DiseaseOrPhenotypicFeature denotes advanced sleep phase syndrome D020178
T2 339-343 DiseaseOrPhenotypicFeature denotes ASPS D020178
T3 1618-1622 DiseaseOrPhenotypicFeature denotes ASPS D020178

LitCoin-NCBITaxon-2

Id Subject Object Predicate Lexical cue
T1 226-233 OrganismTaxon denotes mammals
T2 262-267 OrganismTaxon denotes human

LitCoin-training-merged

Id Subject Object Predicate Lexical cue #label ID:
T4 606-615 ChemicalEntity denotes glutamine http://purl.obolibrary.org/obo/CHEBI_28300
T1 595-602 ChemicalEntity denotes glycine http://purl.obolibrary.org/obo/CHEBI_15428|http://purl.obolibrary.org/obo/CHEBI_29947|http://purl.obolibrary.org/obo/CHEBI_57305
T8 1526-1530 GeneOrGeneProduct denotes PER2
T7 636-653 GeneOrGeneProduct denotes predicted protein
T6 418-423 GeneOrGeneProduct denotes hPER2
T5 268-272 GeneOrGeneProduct denotes PER2
T25698 205-222 GeneOrGeneProduct denotes circadian rhythms
T3 133-137 GeneOrGeneProduct denotes PER2
T2 124-131 GeneOrGeneProduct denotes PERIOD2
T86221 70-75 GeneOrGeneProduct denotes hPER2
T78707 1618-1622 DiseaseOrPhenotypicFeature denotes ASPS D020178
T14274 339-343 DiseaseOrPhenotypicFeature denotes ASPS D020178
T79345 308-337 DiseaseOrPhenotypicFeature denotes advanced sleep phase syndrome D020178
T59788 262-267 OrganismTaxon denotes human
T34722 226-233 OrganismTaxon denotes mammals
T70738 1531-1535 SequenceVariant denotes 111G
T43119 1382-1387 SequenceVariant denotes C111G
T6110 1226-1230 SequenceVariant denotes 111G
T26409 978-982 SequenceVariant denotes 111G
T65119 577-583 SequenceVariant denotes G3853A
T88801 542-547 SequenceVariant denotes C111G
T68292 478-485 SequenceVariant denotes C-1228T

DisGeNET5_gene_disease

Id Subject Object Predicate Lexical cue
16120104-2#33#37#gene8864 268-272 gene8864 denotes PER2
16120104-2#73#102#diseaseC0751758 308-337 diseaseC0751758 denotes advanced sleep phase syndrome
16120104-8#4#8#gene8864 1526-1530 gene8864 denotes PER2
16120104-8#96#100#diseaseC0206657 1618-1622 diseaseC0206657 denotes ASPS
33#37#gene886473#102#diseaseC0751758 16120104-2#33#37#gene8864 16120104-2#73#102#diseaseC0751758 associated_with PER2,advanced sleep phase syndrome
4#8#gene886496#100#diseaseC0206657 16120104-8#4#8#gene8864 16120104-8#96#100#diseaseC0206657 associated_with PER2,ASPS

tmVarCorpus

Id Subject Object Predicate Lexical cue
T1 478-485 DNAMutation:c|SUB|C|-1228|T denotes C-1228T
T2 542-547 DNAMutation:c|SUB|C|111|G denotes C111G
T3 577-583 DNAMutation:c|SUB|G|3853|A denotes G3853A
T4 1382-1387 DNAMutation:c|SUB|C|111|G denotes C111G

DisGeNET

Id Subject Object Predicate Lexical cue
T0 268-272 gene:8864 denotes PER2
T1 308-337 disease:C0751758 denotes advanced sleep phase syndrome
T2 268-272 gene:8864 denotes PER2
T3 339-343 disease:C0751758 denotes ASPS
R1 T0 T1 associated_with PER2,advanced sleep phase syndrome
R2 T2 T3 associated_with PER2,ASPS