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CL-cell

Id Subject Object Predicate Lexical cue cl_id
T1 176-184 Cell denotes a B cell http://purl.obolibrary.org/obo/CL:4023097
T2 178-184 Cell denotes B cell http://purl.obolibrary.org/obo/CL:0000236
T3 238-244 Cell denotes B cell http://purl.obolibrary.org/obo/CL:0000236
T4 694-708 Cell denotes mature B cells http://purl.obolibrary.org/obo/CL:0000785
T5 738-749 Cell denotes pre-B cells http://purl.obolibrary.org/obo/CL:0000817
T6 892-899 Cell denotes B cells http://purl.obolibrary.org/obo/CL:0000236
T7 954-960 Cell denotes B cell http://purl.obolibrary.org/obo/CL:0000236
T8 1956-1966 Cell denotes pre-B cell http://purl.obolibrary.org/obo/CL:0000817
T9 1960-1966 Cell denotes B cell http://purl.obolibrary.org/obo/CL:0000236
T10 2279-2285 Cell denotes B cell http://purl.obolibrary.org/obo/CL:0000236

sentences

Id Subject Object Predicate Lexical cue
T1 0-149 Sentence denotes Cell type- and stage-specific expression of the CD20/B1 antigen correlates with the activity of a diverged octamer DNA motif present in its promoter.
T2 150-279 Sentence denotes The CD20(B1) gene encodes a B cell-specific protein involved in the regulation of human B cell proliferation and differentiation.
T3 280-492 Sentence denotes Studies with 5' deletion CD20 promoter-CAT constructs have previously revealed two regions of the promoter between bases -186 and -280 and between bases -280 and -454 which contained positive regulatory elements.
T4 493-750 Sentence denotes In this study we identified a sequence element present in the most proximal region located between bases -214 and -201, TTCTTCTAATTAA, which is important in the high constitutive expression of CD20 in mature B cells and the induction of CD20 in pre-B cells.
T5 751-900 Sentence denotes This sequence element was referred to as the BAT box and its deletion significantly reduced the activity of a CD20 promoter-CAT construct in B cells.
T6 901-1058 Sentence denotes Mobility shift assays with various mutant probes and B cell nuclear extracts demonstrated that the core sequence TAAT was essential for binding to this site.
T7 1059-1345 Sentence denotes Cross competition experiments with an octamer sequence from the Ig heavy chain promoter, the BAT box, and a TA-rich sequence present in the CD21 promoter revealed that all three sequences bound the same nuclear proteins suggesting that the BAT box binding proteins were Oct-1 and Oct-2.
T8 1346-1462 Sentence denotes Southwestern blotting and UV cross-linking studies confirmed that the BAT box binding proteins were Oct-1 and Oct-2.
T9 1463-1699 Sentence denotes The affinity of the BAT box binding proteins for the BAT box was approximately 25-fold less than for the octamer sequence and the BAT box binding proteins dissociated from the BAT box 10-fold more rapidly than from the octamer sequence.
T10 1700-1880 Sentence denotes Despite this lower affinity, a trimer of the BAT box sequence was as efficiently transactivated by an Oct-2 expression vector as was a trimer of the octamer sequence in HeLa cells.
T11 1881-2000 Sentence denotes The BAT box and Oct-2 were also implicated in the induction of CD20 in the pre-B cell line, PB-697, via phorbol esters.
T12 2001-2192 Sentence denotes The induction of CD20 mRNA was temporally associated with induction of Oct-2 mRNA and a BAT box-deleted CD20-CAT construct, in contrast to the wild type, was poorly induced by phorbol esters.
T13 2193-2331 Sentence denotes Together these results suggest that the BAT box binding proteins are important in the B cell specific expression of CD20 and perhaps CD21.
T1 0-149 Sentence denotes Cell type- and stage-specific expression of the CD20/B1 antigen correlates with the activity of a diverged octamer DNA motif present in its promoter.
T2 150-279 Sentence denotes The CD20(B1) gene encodes a B cell-specific protein involved in the regulation of human B cell proliferation and differentiation.
T3 280-492 Sentence denotes Studies with 5' deletion CD20 promoter-CAT constructs have previously revealed two regions of the promoter between bases -186 and -280 and between bases -280 and -454 which contained positive regulatory elements.
T4 493-750 Sentence denotes In this study we identified a sequence element present in the most proximal region located between bases -214 and -201, TTCTTCTAATTAA, which is important in the high constitutive expression of CD20 in mature B cells and the induction of CD20 in pre-B cells.
T5 751-900 Sentence denotes This sequence element was referred to as the BAT box and its deletion significantly reduced the activity of a CD20 promoter-CAT construct in B cells.
T6 901-1058 Sentence denotes Mobility shift assays with various mutant probes and B cell nuclear extracts demonstrated that the core sequence TAAT was essential for binding to this site.
T7 1059-1345 Sentence denotes Cross competition experiments with an octamer sequence from the Ig heavy chain promoter, the BAT box, and a TA-rich sequence present in the CD21 promoter revealed that all three sequences bound the same nuclear proteins suggesting that the BAT box binding proteins were Oct-1 and Oct-2.
T8 1346-1462 Sentence denotes Southwestern blotting and UV cross-linking studies confirmed that the BAT box binding proteins were Oct-1 and Oct-2.
T9 1463-1699 Sentence denotes The affinity of the BAT box binding proteins for the BAT box was approximately 25-fold less than for the octamer sequence and the BAT box binding proteins dissociated from the BAT box 10-fold more rapidly than from the octamer sequence.
T10 1700-1880 Sentence denotes Despite this lower affinity, a trimer of the BAT box sequence was as efficiently transactivated by an Oct-2 expression vector as was a trimer of the octamer sequence in HeLa cells.
T11 1881-2000 Sentence denotes The BAT box and Oct-2 were also implicated in the induction of CD20 in the pre-B cell line, PB-697, via phorbol esters.
T12 2001-2192 Sentence denotes The induction of CD20 mRNA was temporally associated with induction of Oct-2 mRNA and a BAT box-deleted CD20-CAT construct, in contrast to the wild type, was poorly induced by phorbol esters.
T13 2193-2331 Sentence denotes Together these results suggest that the BAT box binding proteins are important in the B cell specific expression of CD20 and perhaps CD21.

Glycosmos6-MAT

Id Subject Object Predicate Lexical cue
T1 560-568 http://purl.obolibrary.org/obo/MAT_0000491 denotes proximal

jnlpba-st-training

Id Subject Object Predicate Lexical cue
T1 48-63 protein denotes CD20/B1 antigen
T2 140-148 DNA denotes promoter
T3 154-167 DNA denotes CD20(B1) gene
T4 178-201 protein denotes B cell-specific protein
T5 293-333 DNA denotes 5' deletion CD20 promoter-CAT constructs
T6 378-386 DNA denotes promoter
T7 463-491 DNA denotes positive regulatory elements
T8 523-539 DNA denotes sequence element
T9 686-690 protein denotes CD20
T10 730-734 protein denotes CD20
T11 738-749 cell_type denotes pre-B cells
T12 756-772 DNA denotes sequence element
T13 796-803 DNA denotes BAT box
T14 1152-1159 DNA denotes BAT box
T15 1199-1212 DNA denotes CD21 promoter
T16 1262-1278 protein denotes nuclear proteins
T17 1299-1323 protein denotes BAT box binding proteins
T18 1329-1334 protein denotes Oct-1
T19 1339-1344 protein denotes Oct-2
T20 1416-1440 protein denotes BAT box binding proteins
T21 1446-1451 protein denotes Oct-1
T22 1456-1461 protein denotes Oct-2
T23 1483-1507 protein denotes BAT box binding proteins
T24 1516-1523 DNA denotes BAT box
T25 1568-1584 DNA denotes octamer sequence
T26 1593-1617 protein denotes BAT box binding proteins
T27 1639-1646 DNA denotes BAT box
T28 1682-1698 DNA denotes octamer sequence
T29 1745-1761 DNA denotes BAT box sequence
T30 1802-1825 DNA denotes Oct-2 expression vector
T31 1849-1865 DNA denotes octamer sequence
T32 1869-1879 cell_line denotes HeLa cells
T33 1885-1892 DNA denotes BAT box
T34 1897-1902 protein denotes Oct-2
T35 1944-1948 protein denotes CD20
T36 1956-1971 cell_line denotes pre-B cell line
T37 1973-1979 cell_line denotes PB-697
T38 2018-2027 RNA denotes CD20 mRNA
T39 2072-2082 RNA denotes Oct-2 mRNA
T40 2089-2123 DNA denotes BAT box-deleted CD20-CAT construct
T41 2233-2257 protein denotes BAT box binding proteins
T42 2309-2313 protein denotes CD20
T43 2326-2330 protein denotes CD21

genia-medco-coref

Id Subject Object Predicate Lexical cue
C1 44-63 NP denotes the CD20/B1 antigen
C2 136-139 NP denotes its
C3 150-167 NP denotes The CD20(B1) gene
C4 232-244 NP denotes human B cell
C6 305-309 NP denotes CD20
C5 305-333 NP denotes CD20 promoter-CAT constructs
C8 521-611 NP denotes a sequence element present in the most proximal region located between bases -214 and -201
C9 613-626 NP denotes TTCTTCTAATTAA
C10 628-633 NP denotes which
C11 686-690 NP denotes CD20
C12 694-708 NP denotes mature B cells
C13 730-734 NP denotes CD20
C14 738-749 NP denotes pre-B cells
C7 521-749 NP denotes a sequence element present in the most proximal region located between bases -214 and -201, TTCTTCTAATTAA, which is important in the high constitutive expression of CD20 in mature B cells and the induction of CD20 in pre-B cells
C15 751-772 NP denotes This sequence element
C16 792-803 NP denotes the BAT box
C17 808-811 NP denotes its
C19 861-865 NP denotes CD20
C18 859-888 NP denotes a CD20 promoter-CAT construct
C20 892-899 NP denotes B cells
C22 954-960 NP denotes B cell
C21 901-977 NP denotes Mobility shift assays with various mutant probes and B cell nuclear extracts
C23 1048-1057 NP denotes this site
C24 1094-1146 NP denotes an octamer sequence from the Ig heavy chain promoter
C25 1148-1159 NP denotes the BAT box
C26 1199-1203 NP denotes CD21
C28 1295-1306 NP denotes the BAT box
C27 1295-1323 NP denotes the BAT box binding proteins
C30 1339-1344 NP denotes Oct-2
C29 1329-1344 NP denotes Oct-1 and Oct-2
C32 1412-1423 NP denotes the BAT box
C31 1412-1440 NP denotes the BAT box binding proteins
C34 1456-1461 NP denotes Oct-2
C33 1446-1461 NP denotes Oct-1 and Oct-2
C37 1479-1490 NP denotes the BAT box
C36 1479-1507 NP denotes the BAT box binding proteins
C38 1512-1523 NP denotes the BAT box
C35 1463-1523 NP denotes The affinity of the BAT box binding proteins for the BAT box
C39 1564-1584 NP denotes the octamer sequence
C41 1589-1600 NP denotes the BAT box
C40 1589-1617 NP denotes the BAT box binding proteins
C42 1635-1646 NP denotes the BAT box
C43 1678-1698 NP denotes the octamer sequence
C44 1708-1727 NP denotes this lower affinity
C45 1741-1752 NP denotes the BAT box
C46 1802-1807 NP denotes Oct-2
C47 1845-1865 NP denotes the octamer sequence
C48 1881-1892 NP denotes The BAT box
C49 1897-1902 NP denotes Oct-2
C50 1944-1948 NP denotes CD20
C51 1952-1971 NP denotes the pre-B cell line
C52 1973-1979 NP denotes PB-697
C53 1985-1999 NP denotes phorbol esters
C54 2018-2022 NP denotes CD20
C55 2072-2077 NP denotes Oct-2
C56 2177-2191 NP denotes phorbol esters
C58 2229-2240 NP denotes the BAT box
C57 2229-2257 NP denotes the BAT box binding proteins
C59 2279-2285 NP denotes B cell
C60 2309-2313 NP denotes CD20
C61 2326-2330 NP denotes CD21
R1 C2 C1 coref-pron its,the CD20/B1 antigen
R2 C3 C1 coref-other The CD20(B1) gene,the CD20/B1 antigen
R3 C9 C8 coref-appos TTCTTCTAATTAA,a sequence element present in the most proximal region located between bases -214 and -201
R4 C10 C9 coref-relat which,TTCTTCTAATTAA
R5 C11 C6 coref-ident CD20,CD20
R6 C12 C4 coref-other mature B cells,human B cell
R7 C13 C11 coref-ident CD20,CD20
R8 C15 C7 coref-ident This sequence element,"a sequence element present in the most proximal region located between bases -214 and -201, TTCTTCTAATTAA, which is important in the high constitutive expression of CD20 in mature B cells and the induction of CD20 in pre-B cells"
R9 C16 C15 coref-ident the BAT box,This sequence element
R10 C17 C16 coref-pron its,the BAT box
R11 C19 C13 coref-ident CD20,CD20
R12 C18 C5 coref-other a CD20 promoter-CAT construct,CD20 promoter-CAT constructs
R13 C20 C4 coref-ident B cells,human B cell
R14 C22 C4 coref-ident B cell,human B cell
R15 C23 C21 coref-ident this site,Mobility shift assays with various mutant probes and B cell nuclear extracts
R16 C25 C16 coref-ident the BAT box,the BAT box
R17 C28 C25 coref-ident the BAT box,the BAT box
R18 C32 C28 coref-ident the BAT box,the BAT box
R19 C31 C27 coref-ident the BAT box binding proteins,the BAT box binding proteins
R20 C34 C30 coref-ident Oct-2,Oct-2
R21 C33 C29 coref-ident Oct-1 and Oct-2,Oct-1 and Oct-2
R22 C37 C32 coref-ident the BAT box,the BAT box
R23 C36 C31 coref-ident the BAT box binding proteins,the BAT box binding proteins
R24 C38 C37 coref-ident the BAT box,the BAT box
R25 C39 C24 coref-other the octamer sequence,an octamer sequence from the Ig heavy chain promoter
R26 C41 C38 coref-ident the BAT box,the BAT box
R27 C40 C36 coref-ident the BAT box binding proteins,the BAT box binding proteins
R28 C42 C41 coref-ident the BAT box,the BAT box
R29 C43 C39 coref-ident the octamer sequence,the octamer sequence
R30 C44 C35 coref-ident this lower affinity,The affinity of the BAT box binding proteins for the BAT box
R31 C45 C42 coref-ident the BAT box,the BAT box
R32 C46 C34 coref-ident Oct-2,Oct-2
R33 C47 C43 coref-ident the octamer sequence,the octamer sequence
R34 C48 C45 coref-ident The BAT box,the BAT box
R35 C49 C46 coref-ident Oct-2,Oct-2
R36 C50 C19 coref-ident CD20,CD20
R37 C51 C14 coref-other the pre-B cell line,pre-B cells
R38 C52 C51 coref-appos PB-697,the pre-B cell line
R39 C54 C50 coref-ident CD20,CD20
R40 C55 C49 coref-ident Oct-2,Oct-2
R41 C56 C53 coref-ident phorbol esters,phorbol esters
R42 C58 C48 coref-ident the BAT box,The BAT box
R43 C57 C40 coref-ident the BAT box binding proteins,the BAT box binding proteins
R44 C59 C4 coref-ident B cell,human B cell
R45 C60 C54 coref-ident CD20,CD20
R46 C61 C26 coref-ident CD21,CD21

pubmed-sentences-benchmark

Id Subject Object Predicate Lexical cue
S1 0-149 Sentence denotes Cell type- and stage-specific expression of the CD20/B1 antigen correlates with the activity of a diverged octamer DNA motif present in its promoter.
S2 150-279 Sentence denotes The CD20(B1) gene encodes a B cell-specific protein involved in the regulation of human B cell proliferation and differentiation.
S3 280-492 Sentence denotes Studies with 5' deletion CD20 promoter-CAT constructs have previously revealed two regions of the promoter between bases -186 and -280 and between bases -280 and -454 which contained positive regulatory elements.
S4 493-750 Sentence denotes In this study we identified a sequence element present in the most proximal region located between bases -214 and -201, TTCTTCTAATTAA, which is important in the high constitutive expression of CD20 in mature B cells and the induction of CD20 in pre-B cells.
S5 751-900 Sentence denotes This sequence element was referred to as the BAT box and its deletion significantly reduced the activity of a CD20 promoter-CAT construct in B cells.
S6 901-1058 Sentence denotes Mobility shift assays with various mutant probes and B cell nuclear extracts demonstrated that the core sequence TAAT was essential for binding to this site.
S7 1059-1345 Sentence denotes Cross competition experiments with an octamer sequence from the Ig heavy chain promoter, the BAT box, and a TA-rich sequence present in the CD21 promoter revealed that all three sequences bound the same nuclear proteins suggesting that the BAT box binding proteins were Oct-1 and Oct-2.
S8 1346-1462 Sentence denotes Southwestern blotting and UV cross-linking studies confirmed that the BAT box binding proteins were Oct-1 and Oct-2.
S9 1463-1699 Sentence denotes The affinity of the BAT box binding proteins for the BAT box was approximately 25-fold less than for the octamer sequence and the BAT box binding proteins dissociated from the BAT box 10-fold more rapidly than from the octamer sequence.
S10 1700-1880 Sentence denotes Despite this lower affinity, a trimer of the BAT box sequence was as efficiently transactivated by an Oct-2 expression vector as was a trimer of the octamer sequence in HeLa cells.
S11 1881-2000 Sentence denotes The BAT box and Oct-2 were also implicated in the induction of CD20 in the pre-B cell line, PB-697, via phorbol esters.
S12 2001-2192 Sentence denotes The induction of CD20 mRNA was temporally associated with induction of Oct-2 mRNA and a BAT box-deleted CD20-CAT construct, in contrast to the wild type, was poorly induced by phorbol esters.
S13 2193-2331 Sentence denotes Together these results suggest that the BAT box binding proteins are important in the B cell specific expression of CD20 and perhaps CD21.

GENIAcorpus

Id Subject Object Predicate Lexical cue
T1 48-63 protein_molecule denotes CD20/B1 antigen
T2 107-124 DNA_substructure denotes octamer DNA motif
T3 140-148 DNA_domain_or_region denotes promoter
T4 154-167 DNA_domain_or_region denotes CD20(B1) gene
T5 178-201 protein_molecule denotes B cell-specific protein
T6 293-333 DNA_molecule denotes 5' deletion CD20 promoter-CAT constructs
T7 378-386 DNA_domain_or_region denotes promoter
T8 463-491 DNA_family_or_group denotes positive regulatory elements
T9 523-539 DNA_domain_or_region denotes sequence element
T10 613-626 polynucleotide denotes TTCTTCTAATTAA
T11 686-690 protein_molecule denotes CD20
T12 730-734 protein_molecule denotes CD20
T13 738-749 cell_type denotes pre-B cells
T14 756-772 DNA_domain_or_region denotes sequence element
T15 796-803 DNA_domain_or_region denotes BAT box
T16 1152-1159 DNA_domain_or_region denotes BAT box
T17 1167-1183 DNA_substructure denotes TA-rich sequence
T18 1199-1212 DNA_domain_or_region denotes CD21 promoter
T19 1262-1278 protein_family_or_group denotes nuclear proteins
T20 1299-1323 protein_family_or_group denotes BAT box binding proteins
T21 1329-1334 protein_family_or_group denotes Oct-1
T22 1339-1344 protein_molecule denotes Oct-2
T23 1346-1367 other_name denotes Southwestern blotting
T24 1372-1388 other_name denotes UV cross-linking
T25 1416-1440 protein_family_or_group denotes BAT box binding proteins
T26 1446-1451 protein_family_or_group denotes Oct-1
T27 1456-1461 protein_molecule denotes Oct-2
T28 1483-1507 protein_family_or_group denotes BAT box binding proteins
T29 1516-1523 DNA_domain_or_region denotes BAT box
T30 1568-1584 DNA_domain_or_region denotes octamer sequence
T31 1593-1617 protein_family_or_group denotes BAT box binding proteins
T32 1639-1646 DNA_domain_or_region denotes BAT box
T33 1682-1698 DNA_domain_or_region denotes octamer sequence
T34 1745-1752 DNA_domain_or_region denotes BAT box
T35 1802-1807 protein_molecule denotes Oct-2
T36 1849-1865 DNA_domain_or_region denotes octamer sequence
T37 1869-1879 cell_line denotes HeLa cells
T38 1885-1892 DNA_domain_or_region denotes BAT box
T39 1897-1902 protein_molecule denotes Oct-2
T40 1944-1948 protein_molecule denotes CD20
T41 1956-1971 cell_line denotes pre-B cell line
T42 1973-1979 cell_line denotes PB-697
T43 1985-1999 other_organic_compound denotes phorbol esters
T44 2018-2027 RNA_molecule denotes CD20 mRNA
T45 2072-2082 RNA_molecule denotes Oct-2 mRNA
T46 2089-2123 DNA_molecule denotes BAT box-deleted CD20-CAT construct
T47 2177-2191 other_organic_compound denotes phorbol esters
T48 2233-2257 protein_family_or_group denotes BAT box binding proteins
T49 2279-2305 other_name denotes B cell specific expression
T50 2309-2313 protein_molecule denotes CD20
T51 2326-2330 protein_molecule denotes CD21

Anatomy-MAT

Id Subject Object Predicate Lexical cue mat_id
T1 560-568 Body_part denotes proximal http://purl.obolibrary.org/obo/MAT_0000491

mondo_disease

Id Subject Object Predicate Lexical cue mondo_id
T1 2087-2092 Disease denotes a BAT http://purl.obolibrary.org/obo/MONDO_0013166

NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 232-237 OrganismTaxon denotes human 9606

Anatomy-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 178-184 Body_part denotes B cell http://purl.obolibrary.org/obo/CL_0000236
T2 238-244 Body_part denotes B cell http://purl.obolibrary.org/obo/CL_0000236
T3 694-708 Body_part denotes mature B cells http://purl.obolibrary.org/obo/CL_0000785
T4 738-749 Body_part denotes pre-B cells http://purl.obolibrary.org/obo/CL_0000817
T5 954-960 Body_part denotes B cell http://purl.obolibrary.org/obo/CL_0000236
T6 1956-1966 Body_part denotes pre-B cell http://purl.obolibrary.org/obo/CL_0000817
T7 2279-2285 Body_part denotes B cell http://purl.obolibrary.org/obo/CL_0000236