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PubMed:19889778 JSONTXT

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LitCoin-sentences

Id Subject Object Predicate Lexical cue
T1 0-165 Sentence denotes Differential impact of immune escape mutations G145R and P120T on the replication of lamivudine-resistant hepatitis B virus e antigen-positive and -negative strains.
T2 166-364 Sentence denotes Immune escape variants of the hepatitis B virus (HBV) represent an emerging clinical challenge, because they can be associated with vaccine escape, HBV reactivation, and failure of diagnostic tests.
T3 365-511 Sentence denotes Recent data suggest a preferential selection of immune escape mutants in distinct peripheral blood leukocyte compartments of infected individuals.
T4 512-815 Sentence denotes We therefore systematically analyzed the functional impact of the most prevalent immune escape variants, the sG145R and sP120T mutants, on the viral replication efficacy and antiviral drug susceptibility of common treatment-associated mutants with resistance to lamivudine (LAM) and/or HBeAg negativity.
T5 816-1045 Sentence denotes Replication-competent HBV strains with sG145R or sP120T and LAM resistance (rtM204I or rtL180M/rtM204V) were generated on an HBeAg-positive and an HBeAg-negative background with precore (PC) and basal core promoter (BCP) mutants.
T6 1046-1271 Sentence denotes The sG145R mutation strongly reduced HBsAg levels and was able to fully restore the impaired replication of LAM-resistant HBV mutants to the levels of wild-type HBV, and PC or BCP mutations further enhanced viral replication.
T7 1272-1395 Sentence denotes Although the sP120T substitution also impaired HBsAg secretion, it did not enhance the replication of LAM-resistant clones.
T8 1396-1559 Sentence denotes However, the concomitant occurrence of HBeAg negativity (PC/BCP), sP120T, and LAM resistance resulted in the restoration of replication to levels of wild-type HBV.
T9 1560-1741 Sentence denotes In all clones with combined immune escape and LAM resistance mutations, the nucleotide analogues adefovir and tenofovir remained effective in suppressing viral replication in vitro.
T10 1742-2009 Sentence denotes These findings reveal the differential impact of immune escape variants on the replication and drug susceptibility of complex HBV mutants, supporting the need of close surveillance and treatment adjustment in response to the selection of distinct mutational patterns.

LitCoin-entities-OrganismTaxon-PD

Id Subject Object Predicate Lexical cue db_id
T1 106-123 OrganismTaxon denotes hepatitis B virus NCBItxid:10407
T2 196-219 OrganismTaxon denotes hepatitis B virus (HBV) NCBItxid:10407
T3 314-317 OrganismTaxon denotes HBV NCBItxid:10407
T4 838-841 OrganismTaxon denotes HBV NCBItxid:10407
T5 1168-1171 OrganismTaxon denotes HBV NCBItxid:10407
T6 1207-1210 OrganismTaxon denotes HBV NCBItxid:10407
T7 1555-1558 OrganismTaxon denotes HBV NCBItxid:10407
T8 1868-1871 OrganismTaxon denotes HBV NCBItxid:10407

LitCoin-entities

Id Subject Object Predicate Lexical cue db_id
6732 47-52 SequenceVariant denotes G145R p|SUB|G|145|R
6733 57-62 SequenceVariant denotes P120T c|SUB|P|120|T
6734 85-95 ChemicalEntity denotes lamivudine MESH:D019259
6735 106-133 ChemicalEntity denotes hepatitis B virus e antigen MESH:D006513
6736 196-213 OrganismTaxon denotes hepatitis B virus NCBITaxon:10407
6737 215-218 OrganismTaxon denotes HBV NCBITaxon:10407
6738 314-317 OrganismTaxon denotes HBV NCBITaxon:10407
6739 622-627 SequenceVariant denotes G145R p|SUB|G|145|R
6740 633-638 SequenceVariant denotes P120T c|SUB|P|120|T
6741 774-784 ChemicalEntity denotes lamivudine MESH:D019259
6742 786-789 ChemicalEntity denotes LAM MESH:D019259
6743 798-803 ChemicalEntity denotes HBeAg MESH:D006513
6744 838-841 OrganismTaxon denotes HBV NCBITaxon:10407
6745 856-861 SequenceVariant denotes G145R p|SUB|G|145|R
6746 866-871 SequenceVariant denotes P120T c|SUB|P|120|T
6747 876-879 ChemicalEntity denotes LAM MESH:D019259
6748 894-899 SequenceVariant denotes M204I p|SUB|M|204|I
6749 905-910 SequenceVariant denotes L180M p|SUB|L|180|M
6750 913-918 SequenceVariant denotes M204V p|SUB|M|204|V
6751 941-946 ChemicalEntity denotes HBeAg MESH:D006513
6752 963-968 ChemicalEntity denotes HBeAg MESH:D006513
6753 994-1001 GeneOrGeneProduct denotes precore NCBIGene:944568
6754 1003-1005 GeneOrGeneProduct denotes PC NCBIGene:944568
6755 1051-1056 SequenceVariant denotes G145R p|SUB|G|145|R
6756 1083-1088 ChemicalEntity denotes HBsAg MESH:D006514
6757 1154-1157 ChemicalEntity denotes LAM MESH:D019259
6758 1168-1171 OrganismTaxon denotes HBV NCBITaxon:10407
6759 1207-1210 OrganismTaxon denotes HBV NCBITaxon:10407
6760 1216-1218 GeneOrGeneProduct denotes PC NCBIGene:944568
6761 1286-1291 SequenceVariant denotes P120T c|SUB|P|120|T
6762 1319-1324 ChemicalEntity denotes HBsAg MESH:D006514
6763 1374-1377 ChemicalEntity denotes LAM MESH:D019259
6764 1435-1440 ChemicalEntity denotes HBeAg MESH:D006513
6765 1453-1455 GeneOrGeneProduct denotes PC NCBIGene:944568
6766 1463-1468 SequenceVariant denotes P120T c|SUB|P|120|T
6767 1474-1477 ChemicalEntity denotes LAM MESH:D019259
6768 1555-1558 OrganismTaxon denotes HBV NCBITaxon:10407
6769 1606-1609 ChemicalEntity denotes LAM MESH:D019259
6770 1657-1665 ChemicalEntity denotes adefovir MESH:C053001
6771 1670-1679 ChemicalEntity denotes tenofovir MESH:D000068698
6772 1868-1871 OrganismTaxon denotes HBV NCBITaxon:10407

LitCoin_Mondo

Id Subject Object Predicate Lexical cue mondo_id
T1 106-115 DiseaseOrPhenotypicFeature denotes hepatitis 0002251
T2 196-205 DiseaseOrPhenotypicFeature denotes hepatitis 0002251

LitCoin-SeqVar

Id Subject Object Predicate Lexical cue
T1 47-52 SequenceVariant denotes G145R
T2 57-62 SequenceVariant denotes P120T

LitCoin-GeneOrGeneProduct-v0

Id Subject Object Predicate Lexical cue
T1 13-19 GeneOrGeneProduct denotes impact
T2 23-29 GeneOrGeneProduct denotes immune
T3 37-46 GeneOrGeneProduct denotes mutations
T4 126-133 GeneOrGeneProduct denotes antigen
T5 166-172 GeneOrGeneProduct denotes Immune
T6 358-363 GeneOrGeneProduct denotes tests
T7 413-419 GeneOrGeneProduct denotes immune
T8 427-434 GeneOrGeneProduct denotes mutants
T9 564-570 GeneOrGeneProduct denotes impact
T10 593-599 GeneOrGeneProduct denotes immune
T11 639-646 GeneOrGeneProduct denotes mutants
T12 747-754 GeneOrGeneProduct denotes mutants
T13 786-789 GeneOrGeneProduct denotes LAM
T14 876-879 GeneOrGeneProduct denotes LAM
T15 1017-1021 GeneOrGeneProduct denotes core
T16 1037-1044 GeneOrGeneProduct denotes mutants
T17 1057-1065 GeneOrGeneProduct denotes mutation
T18 1075-1082 GeneOrGeneProduct denotes reduced
T19 1154-1157 GeneOrGeneProduct denotes LAM
T20 1172-1179 GeneOrGeneProduct denotes mutants
T21 1216-1221 GeneOrGeneProduct denotes PC or
T22 1226-1235 GeneOrGeneProduct denotes mutations
T23 1325-1338 GeneOrGeneProduct denotes secretion, it
T24 1374-1377 GeneOrGeneProduct denotes LAM
T25 1388-1394 GeneOrGeneProduct denotes clones
T26 1474-1477 GeneOrGeneProduct denotes LAM
T27 1563-1566 GeneOrGeneProduct denotes all
T28 1567-1573 GeneOrGeneProduct denotes clones
T29 1588-1594 GeneOrGeneProduct denotes immune
T30 1606-1609 GeneOrGeneProduct denotes LAM
T31 1621-1630 GeneOrGeneProduct denotes mutations
T32 1748-1756 GeneOrGeneProduct denotes findings
T33 1781-1787 GeneOrGeneProduct denotes impact
T34 1791-1797 GeneOrGeneProduct denotes immune
T35 1872-1879 GeneOrGeneProduct denotes mutants
T36 1989-1999 GeneOrGeneProduct denotes mutational

LitCoin-GeneOrGeneProduct-v2

Id Subject Object Predicate Lexical cue
T1 13-19 GeneOrGeneProduct denotes impact
T2 126-133 GeneOrGeneProduct denotes antigen
T3 564-570 GeneOrGeneProduct denotes impact
T4 1017-1021 GeneOrGeneProduct denotes core
T5 1075-1082 GeneOrGeneProduct denotes reduced
T6 1781-1787 GeneOrGeneProduct denotes impact

LitCoin-Disease-MeSH

Id Subject Object Predicate Lexical cue originalLabel
T1 106-117 DiseaseOrPhenotypicFeature denotes hepatitis B D006509
T2 157-164 DiseaseOrPhenotypicFeature denotes strains D013180
T3 196-207 DiseaseOrPhenotypicFeature denotes hepatitis B D006509
T4 842-849 DiseaseOrPhenotypicFeature denotes strains D013180

LitCoin_Mondo_095

Id Subject Object Predicate Lexical cue mondo_id
T1 106-117 DiseaseOrPhenotypicFeature denotes hepatitis B 0005344
T2 196-207 DiseaseOrPhenotypicFeature denotes hepatitis B 0005344
T3 275-278 DiseaseOrPhenotypicFeature denotes can 0012833
T4 786-789 DiseaseOrPhenotypicFeature denotes LAM 0011705
T5 876-879 DiseaseOrPhenotypicFeature denotes LAM 0011705
T6 1003-1005 DiseaseOrPhenotypicFeature denotes PC 0016471
T7 1154-1157 DiseaseOrPhenotypicFeature denotes LAM 0011705
T8 1216-1218 DiseaseOrPhenotypicFeature denotes PC 0016471
T9 1374-1377 DiseaseOrPhenotypicFeature denotes LAM 0011705
T10 1453-1455 DiseaseOrPhenotypicFeature denotes PC 0016471
T11 1474-1477 DiseaseOrPhenotypicFeature denotes LAM 0011705
T12 1606-1609 DiseaseOrPhenotypicFeature denotes LAM 0011705

LitCoin-MeSH-Disease-2

Id Subject Object Predicate Lexical cue ID:
T1 106-117 DiseaseOrPhenotypicFeature denotes hepatitis B D006509
T2 157-164 DiseaseOrPhenotypicFeature denotes strains D013180
T3 196-207 DiseaseOrPhenotypicFeature denotes hepatitis B D006509
T4 842-849 DiseaseOrPhenotypicFeature denotes strains D013180

LitCoin-MONDO_bioort2019

Id Subject Object Predicate Lexical cue #label
T1 106-117 DiseaseOrPhenotypicFeature denotes hepatitis B D006509
T2 196-207 DiseaseOrPhenotypicFeature denotes hepatitis B D006509

LitCoin-NCBITaxon-2

Id Subject Object Predicate Lexical cue
T1 116-123 OrganismTaxon denotes B virus
T2 196-219 OrganismTaxon denotes hepatitis B virus (HBV)
T3 314-317 OrganismTaxon denotes HBV
T4 838-841 OrganismTaxon denotes HBV
T5 1168-1171 OrganismTaxon denotes HBV
T6 1207-1210 OrganismTaxon denotes HBV
T7 1555-1558 OrganismTaxon denotes HBV
T8 1868-1871 OrganismTaxon denotes HBV

LitCoin-Chemical-MeSH-CHEBI

Id Subject Object Predicate Lexical cue ID:
T1 85-95 ChemicalEntity denotes lamivudine http://purl.obolibrary.org/obo/CHEBI_63577
T2 106-133 ChemicalEntity denotes hepatitis B virus e antigen ChemicalEntity
T3 298-305 ChemicalEntity denotes vaccine D014612
T4 774-784 ChemicalEntity denotes lamivudine http://purl.obolibrary.org/obo/CHEBI_63577
T5 786-789 ChemicalEntity denotes LAM C050016|http://purl.obolibrary.org/obo/CHEBI_59524|http://purl.obolibrary.org/obo/CHEBI_63577
T8 798-803 ChemicalEntity denotes HBeAg D006513|ChemicalEntity
T10 876-879 ChemicalEntity denotes LAM C050016|http://purl.obolibrary.org/obo/CHEBI_59524|http://purl.obolibrary.org/obo/CHEBI_63577
T13 941-946 ChemicalEntity denotes HBeAg D006513|ChemicalEntity
T15 963-968 ChemicalEntity denotes HBeAg D006513|ChemicalEntity
T17 1083-1088 ChemicalEntity denotes HBsAg D006514|ChemicalEntity
T19 1154-1157 ChemicalEntity denotes LAM C050016|http://purl.obolibrary.org/obo/CHEBI_59524|http://purl.obolibrary.org/obo/CHEBI_63577
T22 1319-1324 ChemicalEntity denotes HBsAg D006514|ChemicalEntity
T24 1374-1377 ChemicalEntity denotes LAM C050016|http://purl.obolibrary.org/obo/CHEBI_59524|http://purl.obolibrary.org/obo/CHEBI_63577
T27 1435-1440 ChemicalEntity denotes HBeAg D006513|ChemicalEntity
T29 1474-1477 ChemicalEntity denotes LAM C050016|http://purl.obolibrary.org/obo/CHEBI_59524|http://purl.obolibrary.org/obo/CHEBI_63577
T32 1606-1609 ChemicalEntity denotes LAM C050016|http://purl.obolibrary.org/obo/CHEBI_59524|http://purl.obolibrary.org/obo/CHEBI_63577
T35 1657-1665 ChemicalEntity denotes adefovir C053001|http://purl.obolibrary.org/obo/CHEBI_2469|http://purl.obolibrary.org/obo/CHEBI_134512
T38 1670-1679 ChemicalEntity denotes tenofovir D000068698|http://purl.obolibrary.org/obo/CHEBI_63716|http://purl.obolibrary.org/obo/CHEBI_63625|http://purl.obolibrary.org/obo/CHEBI_134504

LitCoin-training-merged

Id Subject Object Predicate Lexical cue #label ID:
T38 1670-1679 ChemicalEntity denotes tenofovir http://purl.obolibrary.org/obo/CHEBI_134504|http://purl.obolibrary.org/obo/CHEBI_63625|http://purl.obolibrary.org/obo/CHEBI_63716|D000068698
T35 1657-1665 ChemicalEntity denotes adefovir http://purl.obolibrary.org/obo/CHEBI_134512|http://purl.obolibrary.org/obo/CHEBI_2469|C053001
T32 1606-1609 ChemicalEntity denotes LAM http://purl.obolibrary.org/obo/CHEBI_63577|http://purl.obolibrary.org/obo/CHEBI_59524|C050016
T29 1474-1477 ChemicalEntity denotes LAM http://purl.obolibrary.org/obo/CHEBI_63577|http://purl.obolibrary.org/obo/CHEBI_59524|C050016
T27 1435-1440 ChemicalEntity denotes HBeAg ChemicalEntity|D006513
T24 1374-1377 ChemicalEntity denotes LAM http://purl.obolibrary.org/obo/CHEBI_63577|http://purl.obolibrary.org/obo/CHEBI_59524|C050016
T22 1319-1324 ChemicalEntity denotes HBsAg ChemicalEntity|D006514
T19 1154-1157 ChemicalEntity denotes LAM http://purl.obolibrary.org/obo/CHEBI_63577|http://purl.obolibrary.org/obo/CHEBI_59524|C050016
T17 1083-1088 ChemicalEntity denotes HBsAg ChemicalEntity|D006514
T15 963-968 ChemicalEntity denotes HBeAg ChemicalEntity|D006513
T13 941-946 ChemicalEntity denotes HBeAg ChemicalEntity|D006513
T10 876-879 ChemicalEntity denotes LAM http://purl.obolibrary.org/obo/CHEBI_63577|http://purl.obolibrary.org/obo/CHEBI_59524|C050016
T8 798-803 ChemicalEntity denotes HBeAg ChemicalEntity|D006513
T5 786-789 ChemicalEntity denotes LAM http://purl.obolibrary.org/obo/CHEBI_63577|http://purl.obolibrary.org/obo/CHEBI_59524|C050016
T4 774-784 ChemicalEntity denotes lamivudine http://purl.obolibrary.org/obo/CHEBI_63577
T3 298-305 ChemicalEntity denotes vaccine D014612
T2 106-133 ChemicalEntity denotes hepatitis B virus e antigen ChemicalEntity
T1 85-95 ChemicalEntity denotes lamivudine http://purl.obolibrary.org/obo/CHEBI_63577
T21473 196-207 DiseaseOrPhenotypicFeature denotes hepatitis B D006509
T85652 106-117 DiseaseOrPhenotypicFeature denotes hepatitis B D006509
T27802 1868-1871 OrganismTaxon denotes HBV
T7 1555-1558 OrganismTaxon denotes HBV
T6 1207-1210 OrganismTaxon denotes HBV
T77385 1168-1171 OrganismTaxon denotes HBV
T34500 838-841 OrganismTaxon denotes HBV
T16997 314-317 OrganismTaxon denotes HBV
T42319 196-219 OrganismTaxon denotes hepatitis B virus (HBV)
T63580 116-123 OrganismTaxon denotes B virus
T74334 57-62 SequenceVariant denotes P120T
T65286 47-52 SequenceVariant denotes G145R

Allie

Id Subject Object Predicate Lexical cue
SS1_19889778_1_0 196-213 expanded denotes hepatitis B virus
SS2_19889778_1_0 215-218 abbr denotes HBV
SS1_19889778_3_0 774-784 expanded denotes lamivudine
SS2_19889778_3_0 786-789 abbr denotes LAM
SS1_19889778_4_0 994-1001 expanded denotes precore
SS2_19889778_4_0 1003-1005 abbr denotes PC
SS1_19889778_4_1 1011-1030 expanded denotes basal core promoter
SS2_19889778_4_1 1032-1035 abbr denotes BCP
AE1_19889778_1_0 SS1_19889778_1_0 SS2_19889778_1_0 abbreviatedTo hepatitis B virus,HBV
AE1_19889778_3_0 SS1_19889778_3_0 SS2_19889778_3_0 abbreviatedTo lamivudine,LAM
AE1_19889778_4_0 SS1_19889778_4_0 SS2_19889778_4_0 abbreviatedTo precore,PC
AE1_19889778_4_1 SS1_19889778_4_1 SS2_19889778_4_1 abbreviatedTo basal core promoter,BCP