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PubMed:30042232 JSONTXT

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sentences

Id Subject Object Predicate Lexical cue
T1 0-75 Sentence denotes The lateral meningocele syndrome mutation causes marked osteopenia in mice.
T2 76-199 Sentence denotes Lateral meningocele syndrome (LMS) is a rare genetic disorder characterized by neurological complications and osteoporosis.
T3 200-373 Sentence denotes LMS is associated with mutations in exon 33 of NOTCH3 leading to a truncated protein lacking sequences for NOTCH3 degradation and presumably causing NOTCH3 gain of function.
T4 374-616 Sentence denotes To create a mouse model reproducing human LMS-associated mutations, we utilized CRISPR/Cas9 to introduce a tandem termination codon at bases 6691-6696 (ACCAAG→TAATGA) and verified this mutation (Notch3tm1.1Ecan ) by DNA sequencing of F1 mice.
T5 617-840 Sentence denotes One-month-old male and female heterozygous Notch3tm1.1Ecan mice had cancellous and cortical bone osteopenia but exhibited no obvious neurological alterations, and histopathology of multiple organs revealed no abnormalities.
T6 841-1012 Sentence denotes Microcomputed tomography of these mutants revealed a 35-60% decrease in cancellous bone volume associated with a reduction in trabecular number and decreased connectivity.
T7 1013-1163 Sentence denotes During maturation, cancellous and cortical bones were restored in female but not in male mice, which exhibited cancellous bone osteopenia at 4 months.
T8 1164-1317 Sentence denotes Cancellous bone histomorphometry revealed increased osteoblast and osteocyte numbers and a modest increase in osteoclast surface and bone formation rate.
T9 1318-1517 Sentence denotes Notch3tm1.1Ecan calvarial osteoblasts had increased proliferation and increased bone γ-carboxyglutamate protein (Bglap) and TNF superfamily member 11 (Tnfsf11) mRNA levels and lower Tnfrsf11b levels.
T10 1518-1596 Sentence denotes Tnfsf11 mRNA was increased in osteocyte-rich femora from Notch3tm1.1Ecan mice.
T11 1597-1778 Sentence denotes Cultures of bone marrow-derived macrophages from Notch3tm1.1Ecan mice revealed increased osteoclast formation, particularly in cocultures with osteoblasts from Notch3tm1.1Ecan mice.
T12 1779-1983 Sentence denotes In conclusion, the Notch3tm1.1Ecan mutation causes osteopenia despite an increase in osteoblast proliferation and function and is associated with enhanced Tnfsf11 expression in osteoblasts and osteocytes.

Glycosmos6-MAT

Id Subject Object Predicate Lexical cue
T1 4-11 http://purl.obolibrary.org/obo/MAT_0000488 denotes lateral
T2 76-83 http://purl.obolibrary.org/obo/MAT_0000488 denotes Lateral
T3 631-635 http://purl.obolibrary.org/obo/MAT_0000029 denotes male
T4 709-713 http://purl.obolibrary.org/obo/MAT_0000299 denotes bone
T5 924-928 http://purl.obolibrary.org/obo/MAT_0000299 denotes bone
T6 1056-1061 http://purl.obolibrary.org/obo/MAT_0000299 denotes bones
T7 1097-1101 http://purl.obolibrary.org/obo/MAT_0000029 denotes male
T8 1135-1139 http://purl.obolibrary.org/obo/MAT_0000299 denotes bone
T9 1175-1179 http://purl.obolibrary.org/obo/MAT_0000299 denotes bone
T10 1297-1301 http://purl.obolibrary.org/obo/MAT_0000299 denotes bone
T11 1398-1402 http://purl.obolibrary.org/obo/MAT_0000299 denotes bone
T12 1609-1620 http://purl.obolibrary.org/obo/MAT_0000084 denotes bone marrow
T13 1609-1613 http://purl.obolibrary.org/obo/MAT_0000299 denotes bone

kaiyin_test

Id Subject Object Predicate Lexical cue
T9 200-203 Disease denotes LMS
T2 223-243 Var denotes mutations in exon 33
T1 247-253 Gene denotes NOTCH3
T3 267-276 MPA denotes truncated
T4 277-284 Protein denotes protein
T5 285-292 NegReg denotes lacking
T6 293-325 MPA denotes sequences for NOTCH3 degradation
T8 349-355 Gene denotes NOTCH3
T7 356-372 PosReg denotes gain of function
T24 660-675 Var denotes Notch3tm1.1Ecan
T22 685-713 CPA denotes cancellous and cortical bone
T23 714-724 NegReg denotes osteopenia
T21 875-882 Var denotes mutants
T25 901-909 NegReg denotes decrease
T26 913-935 CPA denotes cancellous bone volume
T27 954-963 NegReg denotes reduction
T28 967-984 CPA denotes trabecular number
T29 989-998 NegReg denotes decreased
T30 999-1011 CPA denotes connectivity
T44 1318-1333 Var denotes Notch3tm1.1Ecan
T36 1334-1355 CPA denotes calvarial osteoblasts
T37 1360-1369 PosReg denotes increased
T38 1388-1397 PosReg denotes increased
T39 1398-1437 Protein denotes bone γ-carboxyglutamate protein (Bglap)
T40 1442-1477 Gene denotes TNF superfamily member 11 (Tnfsf11)
T41 1478-1489 MPA denotes mRNA levels
T42 1494-1499 NegReg denotes lower
T43 1500-1516 MPA denotes Tnfrsf11b levels
T10 1798-1822 Var denotes Notch3tm1.1Ecan mutation
T11 1830-1840 Disease denotes osteopenia
T12 1852-1860 PosReg denotes increase
T19 1864-1888 CPA denotes osteoblast proliferation
T14 1893-1901 CPA denotes function
T15 1925-1933 PosReg denotes enhanced
T16 1934-1941 Gene denotes Tnfsf11
T17 1942-1952 MPA denotes expression
R1 T1 T2 ThemeOf NOTCH3,mutations in exon 33
R10 T19 T12 ThemeOf osteoblast proliferation,increase
R11 T14 T12 ThemeOf function,increase
R12 T10 T15 CauseOf Notch3tm1.1Ecan mutation,enhanced
R13 T16 T17 ThemeOf Tnfsf11,expression
R14 T17 T15 ThemeOf expression,enhanced
R15 T24 T23 CauseOf Notch3tm1.1Ecan,osteopenia
R16 T22 T23 ThemeOf cancellous and cortical bone,osteopenia
R17 T21 T27 CauseOf mutants,reduction
R18 T28 T27 ThemeOf trabecular number,reduction
R19 T21 T29 CauseOf mutants,decreased
R2 T2 T3 CauseOf mutations in exon 33,truncated
R20 T30 T29 ThemeOf connectivity,decreased
R21 T26 T25 ThemeOf cancellous bone volume,decrease
R22 T27 T25 CauseOf reduction,decrease
R23 T29 T25 CauseOf decreased,decrease
R27 T36 T37 ThemeOf calvarial osteoblasts,increased
R28 T44 T37 CauseOf Notch3tm1.1Ecan,increased
R29 T44 T38 CauseOf Notch3tm1.1Ecan,increased
R3 T4 T3 ThemeOf protein,truncated
R30 T39 T38 ThemeOf bone γ-carboxyglutamate protein (Bglap),increased
R31 T40 T41 ThemeOf TNF superfamily member 11 (Tnfsf11),mRNA levels
R32 T41 T38 ThemeOf mRNA levels,increased
R33 T44 T42 CauseOf Notch3tm1.1Ecan,lower
R34 T43 T42 ThemeOf Tnfrsf11b levels,lower
R4 T3 T5 CauseOf truncated,lacking
R5 T6 T5 ThemeOf sequences for NOTCH3 degradation,lacking
R6 T2 T7 CauseOf mutations in exon 33,gain of function
R7 T8 T7 ThemeOf NOTCH3,gain of function
R8 T10 T11 CauseOf Notch3tm1.1Ecan mutation,osteopenia
R9 T10 T12 CauseOf Notch3tm1.1Ecan mutation,increase

name_no

Id Subject Object Predicate Lexical cue
T9 200-203 Disease denotes LMS
T2 223-243 Var denotes mutations in exon 33
T1 247-253 Gene denotes NOTCH3
T3 267-276 MPA denotes truncated
T4 277-284 Protein denotes protein
T5 285-292 NegReg denotes lacking
T6 293-325 MPA denotes sequences for NOTCH3 degradation
T8 349-355 Gene denotes NOTCH3
T7 356-372 PosReg denotes gain of function
T24 660-675 Var denotes Notch3tm1.1Ecan
T22 685-713 CPA denotes cancellous and cortical bone
T23 714-724 NegReg denotes osteopenia
T21 875-882 Var denotes mutants
T25 901-909 NegReg denotes decrease
T26 913-935 CPA denotes cancellous bone volume
T27 954-963 NegReg denotes reduction
T28 967-984 CPA denotes trabecular number
T29 989-998 NegReg denotes decreased
T30 999-1011 CPA denotes connectivity
T44 1318-1333 Var denotes Notch3tm1.1Ecan
T36 1334-1355 CPA denotes calvarial osteoblasts
T37 1360-1369 PosReg denotes increased
T38 1388-1397 PosReg denotes increased
T39 1398-1437 Protein denotes bone γ-carboxyglutamate protein (Bglap)
T40 1442-1477 Gene denotes TNF superfamily member 11 (Tnfsf11)
T41 1478-1489 MPA denotes mRNA levels
T42 1494-1499 NegReg denotes lower
T43 1500-1516 MPA denotes Tnfrsf11b levels
T10 1798-1822 Var denotes Notch3tm1.1Ecan mutation
T11 1830-1840 Disease denotes osteopenia
T12 1852-1860 PosReg denotes increase
T19 1864-1888 CPA denotes osteoblast proliferation
T14 1893-1901 CPA denotes function
T15 1925-1933 PosReg denotes enhanced
T16 1934-1941 Gene denotes Tnfsf11
T17 1942-1952 MPA denotes expression
R1 T1 T2 ThemeOf NOTCH3,mutations in exon 33
R10 T19 T12 ThemeOf osteoblast proliferation,increase
R11 T14 T12 ThemeOf function,increase
R12 T10 T15 CauseOf Notch3tm1.1Ecan mutation,enhanced
R13 T16 T17 ThemeOf Tnfsf11,expression
R14 T17 T15 ThemeOf expression,enhanced
R15 T24 T23 CauseOf Notch3tm1.1Ecan,osteopenia
R16 T22 T23 ThemeOf cancellous and cortical bone,osteopenia
R17 T21 T27 CauseOf mutants,reduction
R18 T28 T27 ThemeOf trabecular number,reduction
R19 T21 T29 CauseOf mutants,decreased
R2 T2 T3 CauseOf mutations in exon 33,truncated
R20 T30 T29 ThemeOf connectivity,decreased
R21 T26 T25 ThemeOf cancellous bone volume,decrease
R22 T27 T25 CauseOf reduction,decrease
R23 T29 T25 CauseOf decreased,decrease
R27 T36 T37 ThemeOf calvarial osteoblasts,increased
R28 T44 T37 CauseOf Notch3tm1.1Ecan,increased
R29 T44 T38 CauseOf Notch3tm1.1Ecan,increased
R3 T4 T3 ThemeOf protein,truncated
R30 T39 T38 ThemeOf bone γ-carboxyglutamate protein (Bglap),increased
R31 T40 T41 ThemeOf TNF superfamily member 11 (Tnfsf11),mRNA levels
R32 T41 T38 ThemeOf mRNA levels,increased
R33 T44 T42 CauseOf Notch3tm1.1Ecan,lower
R34 T43 T42 ThemeOf Tnfrsf11b levels,lower
R4 T3 T5 CauseOf truncated,lacking
R5 T6 T5 ThemeOf sequences for NOTCH3 degradation,lacking
R6 T2 T7 CauseOf mutations in exon 33,gain of function
R7 T8 T7 ThemeOf NOTCH3,gain of function
R8 T10 T11 CauseOf Notch3tm1.1Ecan mutation,osteopenia
R9 T10 T12 CauseOf Notch3tm1.1Ecan mutation,increase

mondo_disease

Id Subject Object Predicate Lexical cue mondo_id
T1 4-32 Disease denotes lateral meningocele syndrome http://purl.obolibrary.org/obo/MONDO_0007537
T2 76-104 Disease denotes Lateral meningocele syndrome http://purl.obolibrary.org/obo/MONDO_0007537
T3 106-109 Disease denotes LMS http://purl.obolibrary.org/obo/MONDO_0011334
T4 121-137 Disease denotes genetic disorder http://purl.obolibrary.org/obo/MONDO_0003847
T5 186-198 Disease denotes osteoporosis http://purl.obolibrary.org/obo/MONDO_0005298
T6 200-203 Disease denotes LMS http://purl.obolibrary.org/obo/MONDO_0011334
T7 416-419 Disease denotes LMS http://purl.obolibrary.org/obo/MONDO_0011334

Anatomy-MAT

Id Subject Object Predicate Lexical cue mat_id
T1 4-11 Body_part denotes lateral http://purl.obolibrary.org/obo/MAT_0000488
T2 76-83 Body_part denotes Lateral http://purl.obolibrary.org/obo/MAT_0000488
T3 631-635 Body_part denotes male http://purl.obolibrary.org/obo/MAT_0000029
T4 709-713 Body_part denotes bone http://purl.obolibrary.org/obo/MAT_0000299
T5 924-928 Body_part denotes bone http://purl.obolibrary.org/obo/MAT_0000299
T6 1056-1061 Body_part denotes bones http://purl.obolibrary.org/obo/MAT_0000299
T7 1097-1101 Body_part denotes male http://purl.obolibrary.org/obo/MAT_0000029
T8 1135-1139 Body_part denotes bone http://purl.obolibrary.org/obo/MAT_0000299
T9 1175-1179 Body_part denotes bone http://purl.obolibrary.org/obo/MAT_0000299
T10 1297-1301 Body_part denotes bone http://purl.obolibrary.org/obo/MAT_0000299
T11 1398-1402 Body_part denotes bone http://purl.obolibrary.org/obo/MAT_0000299
T12 1609-1620 Body_part denotes bone marrow http://purl.obolibrary.org/obo/MAT_0000084

NCBITAXON

Id Subject Object Predicate Lexical cue db_id
T1 70-74 OrganismTaxon denotes mice 10088
T2 386-391 OrganismTaxon denotes mouse 10088|10090
T4 410-415 OrganismTaxon denotes human 9606
T5 611-615 OrganismTaxon denotes mice 10088
T6 676-680 OrganismTaxon denotes mice 10088
T7 1102-1106 OrganismTaxon denotes mice 10088
T8 1591-1595 OrganismTaxon denotes mice 10088
T9 1662-1666 OrganismTaxon denotes mice 10088
T10 1773-1777 OrganismTaxon denotes mice 10088

Anatomy-UBERON

Id Subject Object Predicate Lexical cue uberon_id
T1 700-713 Body_part denotes cortical bone http://purl.obolibrary.org/obo/UBERON_0001439
T2 913-928 Body_part denotes cancellous bone http://purl.obolibrary.org/obo/UBERON_0002483
T3 1047-1061 Body_part denotes cortical bones http://purl.obolibrary.org/obo/UBERON_0001439
T4 1124-1139 Body_part denotes cancellous bone http://purl.obolibrary.org/obo/UBERON_0002483
T5 1164-1179 Body_part denotes Cancellous bone http://purl.obolibrary.org/obo/UBERON_0002483
T6 1216-1226 Body_part denotes osteoblast http://purl.obolibrary.org/obo/CL_0000062
T7 1231-1240 Body_part denotes osteocyte http://purl.obolibrary.org/obo/CL_0000137
T8 1274-1284 Body_part denotes osteoclast http://purl.obolibrary.org/obo/CL_0000092
T9 1285-1301 Body_part denotes surface and bone http://purl.obolibrary.org/obo/UBERON_4200230
T10 1334-1355 Body_part denotes calvarial osteoblasts http://purl.obolibrary.org/obo/CL_2000058
T11 1398-1402 Body_part denotes bone http://purl.obolibrary.org/obo/UBERON_0001474|http://purl.obolibrary.org/obo/UBERON_0002481
T13 1548-1557 Body_part denotes osteocyte http://purl.obolibrary.org/obo/CL_0000137
T14 1609-1620 Body_part denotes bone marrow http://purl.obolibrary.org/obo/UBERON_0002371
T15 1629-1640 Body_part denotes macrophages http://purl.obolibrary.org/obo/CL_0000235
T16 1686-1696 Body_part denotes osteoclast http://purl.obolibrary.org/obo/CL_0000092
T17 1740-1751 Body_part denotes osteoblasts http://purl.obolibrary.org/obo/CL_0000062
T18 1864-1874 Body_part denotes osteoblast http://purl.obolibrary.org/obo/CL_0000062
T19 1956-1967 Body_part denotes osteoblasts http://purl.obolibrary.org/obo/CL_0000062
T20 1972-1982 Body_part denotes osteocytes http://purl.obolibrary.org/obo/CL_0000137

HP-phenotype

Id Subject Object Predicate Lexical cue hp_id
T1 12-23 Phenotype denotes meningocele HP:0002435
T2 56-66 Phenotype denotes osteopenia HP:0000938
T3 84-95 Phenotype denotes meningocele HP:0002435
T4 186-198 Phenotype denotes osteoporosis HP:0000939
T5 714-724 Phenotype denotes osteopenia HP:0000938
T6 1140-1150 Phenotype denotes osteopenia HP:0000938
T7 1830-1840 Phenotype denotes osteopenia HP:0000938

CL-cell

Id Subject Object Predicate Lexical cue cl_id
T1 1216-1226 Cell denotes osteoblast http://purl.obolibrary.org/obo/CL:0000062
T2 1231-1240 Cell denotes osteocyte http://purl.obolibrary.org/obo/CL:0000137
T3 1274-1284 Cell denotes osteoclast http://purl.obolibrary.org/obo/CL:0000092
T4 1334-1355 Cell denotes calvarial osteoblasts http://purl.obolibrary.org/obo/CL:2000058
T5 1548-1557 Cell denotes osteocyte http://purl.obolibrary.org/obo/CL:0000137
T6 1629-1640 Cell denotes macrophages http://purl.obolibrary.org/obo/CL:0000235|http://purl.obolibrary.org/obo/CL:0000394
T8 1686-1696 Cell denotes osteoclast http://purl.obolibrary.org/obo/CL:0000092
T9 1740-1751 Cell denotes osteoblasts http://purl.obolibrary.org/obo/CL:0000062
T10 1864-1874 Cell denotes osteoblast http://purl.obolibrary.org/obo/CL:0000062
T11 1956-1967 Cell denotes osteoblasts http://purl.obolibrary.org/obo/CL:0000062
T12 1972-1982 Cell denotes osteocytes http://purl.obolibrary.org/obo/CL:0000137