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PubMed:2124973 JSONTXT

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PubmedHPO

Id Subject Object Predicate Lexical cue
T1 148-164 HP_0002721 denotes immunodeficiency

jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 0-3 DNA denotes TAR
T2 91-104 cell_type denotes T lymphocytes
T3 106-134 DNA denotes Multiple regulatory elements
T4 142-191 DNA denotes human immunodeficiency virus long terminal repeat
T5 193-200 DNA denotes HIV LTR
T6 287-305 DNA denotes HIV LTR constructs
T7 320-358 DNA denotes chloramphenicol acetyltransferase gene
T8 383-401 DNA denotes regulatory regions
T9 416-424 DNA denotes enhancer
T10 426-429 DNA denotes SP1
T11 431-435 DNA denotes TATA
T12 440-451 DNA denotes TAR regions
T13 514-533 DNA denotes regulatory elements
T14 608-616 DNA denotes HIV LTRs
T15 714-724 cell_line denotes HeLa cells
T16 726-738 cell_line denotes Jurkat cells
T17 742-752 cell_line denotes U937 cells
T18 927-942 protein denotes p24 gag protein
T19 1066-1069 DNA denotes SP1
T20 1071-1075 DNA denotes TATA
T21 1193-1207 DNA denotes enhancer motif
T22 1211-1231 DNA denotes TAR primary sequence
T23 1319-1337 DNA denotes TAR loop sequences
T24 1425-1437 cell_line denotes Jurkat cells
T25 1490-1524 cell_line denotes phorbol ester-treated Jurkat cells
T26 1536-1562 cell_line denotes phorbol ester-treated HeLa
T27 1566-1576 cell_line denotes U937 cells
T28 1614-1635 DNA denotes TAR mutant constructs
T29 1639-1673 cell_line denotes phorbol ester-treated Jurkat cells
T30 1721-1736 DNA denotes enhancer region
T31 1761-1769 DNA denotes tat gene

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-105 Sentence denotes TAR independent activation of the human immunodeficiency virus in phorbol ester stimulated T lymphocytes.
S2 106-253 Sentence denotes Multiple regulatory elements in the human immunodeficiency virus long terminal repeat (HIV LTR) are required for activation of HIV gene expression.
S3 254-491 Sentence denotes Previous transfection studies of HIV LTR constructs linked to the chloramphenicol acetyltransferase gene indicated that multiple regulatory regions including the enhancer, SP1, TATA and TAR regions were important for HIV gene expression.
S4 492-667 Sentence denotes To characterize these regulatory elements further, mutations in these regions were inserted into both the 5' and 3' HIV LTRs and infectious proviral constructs were assembled.
S5 668-876 Sentence denotes These constructs were transfected into either HeLa cells, Jurkat cells or U937 cells in both the presence and absence of phorbol esters which have previously been demonstrated to activate HIV gene expression.
S6 877-1007 Sentence denotes Viral gene expression was assayed by the level of p24 gag protein released from cultures transfected with the proviral constructs.
S7 1008-1266 Sentence denotes Results in all cell lines indicated that mutations of the SP1, TATA and the TAR loop and stem secondary structure resulted in marked decreases in gene expression while mutations of the enhancer motif or TAR primary sequence resulted in only slight decreases.
S8 1267-1577 Sentence denotes However, viruses containing mutations in either the TAR loop sequences or stem secondary structure which were very defective for gene expression in untreated Jurkat cells, gave nearly wild-type levels of gene expression in phorbol ester-treated Jurkat cells but not in phorbol ester-treated HeLa or U937 cells.
S9 1578-1770 Sentence denotes High level gene expression of these TAR mutant constructs in phorbol ester-treated Jurkat cells was eliminated by second site mutations in the enhancer region or by disruption of the tat gene.
S10 1770-1803 Sentence denotes (ABSTRACT TRUNCATED AT 250 WORDS)

genia-medco-coref

Id Subject Object Predicate Lexical cue
C1 106-201 NP denotes Multiple regulatory elements in the human immunodeficiency virus long terminal repeat (HIV LTR)
C2 233-252 NP denotes HIV gene expression
C3 374-451 NP denotes multiple regulatory regions including the enhancer, SP1, TATA and TAR regions
C4 471-490 NP denotes HIV gene expression
C5 508-533 NP denotes these regulatory elements
C6 556-569 NP denotes these regions
C7 621-651 NP denotes infectious proviral constructs
C8 668-684 NP denotes These constructs
C9 714-752 NP denotes HeLa cells, Jurkat cells or U937 cells
C10 789-803 NP denotes phorbol esters
C11 804-809 NP denotes which
C12 856-875 NP denotes HIV gene expression
C13 983-1006 NP denotes the proviral constructs
C14 1019-1033 NP denotes all cell lines
C15 1154-1169 NP denotes gene expression
C16 1295-1365 NP denotes mutations in either the TAR loop sequences or stem secondary structure
C17 1366-1371 NP denotes which
C18 1396-1411 NP denotes gene expression
C19 1471-1486 NP denotes gene expression
C20 1490-1524 NP denotes phorbol ester-treated Jurkat cells
C21 1639-1673 NP denotes phorbol ester-treated Jurkat cells
R1 C4 C2 coref-ident HIV gene expression,HIV gene expression
R2 C5 C1 coref-ident these regulatory elements,Multiple regulatory elements in the human immunodeficiency virus long terminal repeat (HIV LTR)
R3 C6 C3 coref-ident these regions,"multiple regulatory regions including the enhancer, SP1, TATA and TAR regions"
R4 C8 C7 coref-ident These constructs,infectious proviral constructs
R5 C11 C10 coref-relat which,phorbol esters
R6 C12 C4 coref-ident HIV gene expression,HIV gene expression
R7 C13 C7 coref-ident the proviral constructs,infectious proviral constructs
R8 C14 C9 coref-ident all cell lines,"HeLa cells, Jurkat cells or U937 cells"
R9 C15 C12 coref-ident gene expression,HIV gene expression
R10 C17 C16 coref-relat which,mutations in either the TAR loop sequences or stem secondary structure
R11 C18 C15 coref-ident gene expression,gene expression
R12 C19 C18 coref-ident gene expression,gene expression
R13 C21 C20 coref-ident phorbol ester-treated Jurkat cells,phorbol ester-treated Jurkat cells

GENIAcorpus

Id Subject Object Predicate Lexical cue
T1 0-3 DNA_domain_or_region denotes TAR
T2 34-62 virus denotes human immunodeficiency virus
T3 66-79 other_organic_compound denotes phorbol ester
T4 91-104 cell_type denotes T lymphocytes
T5 106-134 DNA_family_or_group denotes Multiple regulatory elements
T6 142-170 virus denotes human immunodeficiency virus
T7 171-191 DNA_domain_or_region denotes long terminal repeat
T8 193-200 DNA_domain_or_region denotes HIV LTR
T9 233-252 other_name denotes HIV gene expression
T10 287-294 DNA_domain_or_region denotes HIV LTR
T11 320-358 DNA_molecule denotes chloramphenicol acetyltransferase gene
T12 383-401 DNA_domain_or_region denotes regulatory regions
T13 416-424 DNA_domain_or_region denotes enhancer
T14 426-429 DNA_domain_or_region denotes SP1
T15 431-435 DNA_domain_or_region denotes TATA
T16 440-451 DNA_domain_or_region denotes TAR regions
T17 471-490 other_name denotes HIV gene expression
T18 514-533 DNA_family_or_group denotes regulatory elements
T19 608-616 DNA_domain_or_region denotes HIV LTRs
T20 621-651 other_artificial_source denotes infectious proviral constructs
T21 714-724 cell_line denotes HeLa cells
T22 726-738 cell_line denotes Jurkat cells
T23 742-752 cell_line denotes U937 cells
T24 789-803 other_organic_compound denotes phorbol esters
T25 856-875 other_name denotes HIV gene expression
T26 927-942 protein_family_or_group denotes p24 gag protein
T27 987-1006 other_artificial_source denotes proviral constructs
T28 1049-1058 other_name denotes mutations
T29 1066-1069 DNA_domain_or_region denotes SP1
T30 1071-1075 DNA_domain_or_region denotes TATA
T31 1084-1092 DNA_substructure denotes TAR loop
T32 1097-1121 DNA_substructure denotes stem secondary structure
T33 1154-1169 other_name denotes gene expression
T34 1193-1207 DNA_domain_or_region denotes enhancer motif
T35 1211-1231 DNA_domain_or_region denotes TAR primary sequence
T36 1276-1283 virus denotes viruses
T37 1295-1304 other_name denotes mutations
T38 1319-1337 DNA_domain_or_region denotes TAR loop sequences
T39 1341-1365 DNA_substructure denotes stem secondary structure
T40 1396-1411 other_name denotes gene expression
T41 1425-1437 cell_line denotes Jurkat cells
T42 1451-1467 other_name denotes wild-type levels
T43 1471-1486 other_name denotes gene expression
T44 1490-1503 other_organic_compound denotes phorbol ester
T45 1512-1524 cell_line denotes Jurkat cells
T46 1536-1549 other_organic_compound denotes phorbol ester
T47 1566-1576 cell_line denotes U937 cells
T48 1589-1604 other_name denotes gene expression
T49 1614-1635 DNA_family_or_group denotes TAR mutant constructs
T50 1639-1652 other_organic_compound denotes phorbol ester
T51 1661-1673 cell_line denotes Jurkat cells
T52 1699-1713 other_name denotes site mutations
T53 1721-1736 DNA_domain_or_region denotes enhancer region
T54 1761-1769 DNA_domain_or_region denotes tat gene