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PubMed:9570512 JSONTXT

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DisGeNET

Id Subject Object Predicate Lexical cue
T0 1663-1666 gene:5328 denotes ATF
T1 1816-1819 disease:C0019693 denotes HIV
T2 1663-1666 gene:2668 denotes ATF
T3 1816-1819 disease:C0019693 denotes HIV
T4 1707-1712 gene:51176 denotes LEF-1
T5 1816-1819 disease:C0019693 denotes HIV
R1 T0 T1 associated_with ATF,HIV
R2 T2 T3 associated_with ATF,HIV
R3 T4 T5 associated_with LEF-1,HIV

jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 0-69 DNA denotes Human immunodeficiency virus type 1 long terminal repeat quasispecies
T2 104-118 protein denotes nuclear factor
T3 134-167 cell_type denotes human glial cells and lymphocytes
T4 326-341 DNA denotes proviral genome
T5 391-411 DNA denotes long terminal repeat
T6 413-416 DNA denotes LTR
T7 440-457 DNA denotes LTR-directed gene
T8 557-561 DNA denotes LTRs
T9 567-579 DNA denotes proviral DNA
T10 583-614 cell_type denotes HIV-1-infected peripheral blood
T11 646-650 DNA denotes LTRs
T12 778-785 DNA denotes LAI LTR
T13 798-814 DNA denotes 455-bp U3 region
T14 924-928 DNA denotes LTRs
T15 980-987 DNA denotes LAI LTR
T16 991-1005 cell_line denotes U-373 MG cells
T17 1010-1031 cell_line denotes astrocytoma cell line
T18 1047-1059 cell_line denotes Jurkat cells
T19 1063-1096 cell_line denotes CD4-positive lymphocyte cell line
T20 1105-1109 DNA denotes LTRs
T21 1155-1169 cell_line denotes U-373 MG cells
T22 1220-1224 DNA denotes LTRs
T23 1255-1267 cell_line denotes Jurkat cells
T24 1289-1296 DNA denotes LAI LTR
T25 1313-1325 DNA denotes LTR sequence
T26 1394-1410 DNA denotes cis-acting sites
T27 1422-1431 DNA denotes U3 region
T28 1439-1442 DNA denotes LTR
T29 1565-1585 protein denotes transcription factor
T30 1600-1685 DNA denotes activating transcription factor/cAMP response element binding (ATF/CREB) binding site
T31 1707-1768 DNA denotes LEF-1 and distal NF-kappaB transcription factor binding sites
T32 1816-1825 DNA denotes HIV-1 LTR
T33 1855-1867 DNA denotes LTR sequence
T34 1907-1910 DNA denotes LTR
T35 1924-1944 protein denotes transcription factor

GENIAcorpus

Id Subject Object Predicate Lexical cue
T6 326-341 DNA_molecule denotes proviral genome
T1 0-35 virus denotes Human immunodeficiency virus type 1
T2 36-56 DNA_domain_or_region denotes long terminal repeat
T3 80-99 other_name denotes basal transcription
T4 104-118 protein_family_or_group denotes nuclear factor
T5 279-284 virus denotes HIV-1
T7 391-411 DNA_domain_or_region denotes long terminal repeat
T8 413-416 DNA_domain_or_region denotes LTR
T9 440-443 DNA_domain_or_region denotes LTR
T10 485-507 body_part denotes central nervous system
T11 509-512 body_part denotes CNS
T12 518-531 body_part denotes immune system
T13 557-561 DNA_domain_or_region denotes LTRs
T14 567-579 DNA_family_or_group denotes proviral DNA
T15 583-588 virus denotes HIV-1
T16 616-633 other_name denotes Sequence analysis
T17 646-650 DNA_domain_or_region denotes LTRs
T18 687-695 multi_cell denotes patients
T19 719-721 other_name denotes 33
T20 722-732 nucleotide denotes nucleotide
T21 778-781 DNA_domain_or_region denotes LAI
T22 782-785 DNA_domain_or_region denotes LTR
T23 798-814 DNA_domain_or_region denotes 455-bp U3 region
T24 816-845 other_name denotes Transient expression analyses
T25 924-928 DNA_domain_or_region denotes LTRs
T26 980-983 DNA_domain_or_region denotes LAI
T27 984-987 DNA_domain_or_region denotes LTR
T28 991-1005 cell_line denotes U-373 MG cells
T29 1010-1021 cell_type denotes astrocytoma
T30 1047-1059 cell_line denotes Jurkat cells
T31 1063-1075 cell_line denotes CD4-positive
T32 1076-1086 cell_type denotes lymphocyte
T33 1105-1109 DNA_domain_or_region denotes LTRs
T34 1155-1169 cell_line denotes U-373 MG cells
T35 1220-1224 DNA_domain_or_region denotes LTRs
T36 1255-1267 cell_line denotes Jurkat cells
T37 1289-1292 DNA_domain_or_region denotes LAI
T38 1293-1296 DNA_domain_or_region denotes LTR
T39 1313-1316 DNA_domain_or_region denotes LTR
T40 1358-1390 other_name denotes transcription factor recruitment
T41 1394-1410 DNA_domain_or_region denotes cis-acting sites
T42 1422-1431 DNA_domain_or_region denotes U3 region
T43 1439-1442 DNA_domain_or_region denotes LTR
T44 1463-1500 other_name denotes electrophoretic mobility shift assays
T45 1537-1555 other_name denotes sequence variation
T46 1565-1585 protein_family_or_group denotes transcription factor
T47 1600-1632 protein_molecule denotes activating transcription factor/
T48 1632-1636 polynucleotide denotes cAMP
T49 1663-1671 protein_molecule denotes ATF/CREB
T50 1707-1712 protein_molecule denotes LEF-1
T51 1724-1733 protein_family_or_group denotes NF-kappaB
T52 1816-1821 virus denotes HIV-1
T53 1822-1825 DNA_domain_or_region denotes LTR
T54 1855-1858 DNA_domain_or_region denotes LTR
T55 1901-1906 other_name denotes basal
T56 1907-1910 DNA_domain_or_region denotes LTR
T57 1924-1944 protein_family_or_group denotes transcription factor
T58 1998-2015 other_name denotes viral replication
T59 2028-2031 body_part denotes CNS
T60 2036-2049 body_part denotes immune system

genia-medco-coref

Id Subject Object Predicate Lexical cue
C1 391-436 NP denotes long terminal repeat (LTR) sequence diversity
C2 481-513 NP denotes the central nervous system (CNS)
C3 557-561 NP denotes LTRs
C4 637-695 NP denotes nineteen LTRs cloned from 2 adult and 3 pediatric patients
C5 794-814 NP denotes the 455-bp U3 region
C6 910-928 NP denotes some of these LTRs
C7 933-943 NP denotes activities
C8 944-949 NP denotes which
C10 991-1005 NP denotes U-373 MG cells
C9 976-1005 NP denotes the LAI LTR in U-373 MG cells
C11 1047-1059 NP denotes Jurkat cells
C13 1105-1109 NP denotes LTRs
C14 1110-1115 NP denotes which
C12 1105-1151 NP denotes LTRs which demonstrated the highest activities
C15 1155-1169 NP denotes U-373 MG cells
C16 1216-1224 NP denotes the LTRs
C17 1255-1267 NP denotes Jurkat cells
C18 1285-1296 NP denotes the LAI LTR
C19 1298-1325 NP denotes Differences in LTR sequence
C21 1435-1442 NP denotes the LTR
C20 1418-1442 NP denotes the U3 region of the LTR
C22 1597-1685 NP denotes an activating transcription factor/cAMP response element binding (ATF/CREB) binding site
C23 1770-1774 NP denotes that
C24 1855-1875 NP denotes LTR sequence changes
C25 1901-1956 NP denotes basal LTR function and transcription factor recruitment
C26 1958-1963 NP denotes which
C27 2028-2031 NP denotes CNS
R1 C4 C3 coref-ident nineteen LTRs cloned from 2 adult and 3 pediatric patients,LTRs
R2 C6 C4 coref-ident some of these LTRs,nineteen LTRs cloned from 2 adult and 3 pediatric patients
R3 C8 C7 coref-relat which,activities
R4 C13 C6 coref-ident LTRs,some of these LTRs
R5 C14 C13 coref-relat which,LTRs
R6 C15 C10 coref-ident U-373 MG cells,U-373 MG cells
R7 C16 C12 coref-ident the LTRs,LTRs which demonstrated the highest activities
R8 C17 C11 coref-ident Jurkat cells,Jurkat cells
R9 C18 C9 coref-ident the LAI LTR,the LAI LTR in U-373 MG cells
R10 C19 C1 coref-ident Differences in LTR sequence,long terminal repeat (LTR) sequence diversity
R11 C21 C16 coref-ident the LTR,the LTRs
R12 C20 C5 coref-ident the U3 region of the LTR,the 455-bp U3 region
R13 C23 C22 coref-relat that,an activating transcription factor/cAMP response element binding (ATF/CREB) binding site
R14 C24 C19 coref-ident LTR sequence changes,Differences in LTR sequence
R15 C26 C25 coref-relat which,basal LTR function and transcription factor recruitment
R16 C27 C2 coref-ident CNS,the central nervous system (CNS)

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-168 Sentence denotes Human immunodeficiency virus type 1 long terminal repeat quasispecies differ in basal transcription and nuclear factor recruitment in human glial cells and lymphocytes.
S2 169-342 Sentence denotes The generation of genomic diversity during the course of infection has the potential to affect all aspects of HIV-1 replication, including expression of the proviral genome.
S3 343-615 Sentence denotes To gain a better understanding of the impact of long terminal repeat (LTR) sequence diversity on LTR-directed gene expression in cells of the central nervous system (CNS) and immune system, we amplified and cloned LTRs from proviral DNA in HIV-1-infected peripheral blood.
S4 616-815 Sentence denotes Sequence analysis of nineteen LTRs cloned from 2 adult and 3 pediatric patients revealed an average of 33 nucleotide changes (with respect to the sequence of the LAI LTR) within the 455-bp U3 region.
S5 816-1098 Sentence denotes Transient expression analyses in cells of neuroglial and lymphocytic origin demonstrated that some of these LTRs had activities which varied significantly from the LAI LTR in U-373 MG cells (an astrocytoma cell line) as well as in Jurkat cells (a CD4-positive lymphocyte cell line).
S6 1099-1297 Sentence denotes While LTRs which demonstrated the highest activities in U-373 MG cells also yielded high activities in Jurkat cells, the LTRs were generally more active in Jurkat cells when compared to the LAI LTR.
S7 1298-1501 Sentence denotes Differences in LTR sequence also resulted in differences in transcription factor recruitment to cis-acting sites within the U3 region of the LTR, as demonstrated by electrophoretic mobility shift assays.
S8 1502-1826 Sentence denotes In particular, naturally occurring sequence variation impacted transcription factor binding to an activating transcription factor/cAMP response element binding (ATF/CREB) binding site (located between the LEF-1 and distal NF-kappaB transcription factor binding sites) that we identified in previous studies of the HIV-1 LTR.
S9 1827-2057 Sentence denotes These findings suggest that LTR sequence changes can significantly affect basal LTR function and transcription factor recruitment, which may, in turn, alter the course of viral replication in cells of CNS and immune system origin.