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LitCoin-sentences

Id Subject Object Predicate Lexical cue
T1 0-127 Sentence denotes Osteogenesis imperfecta type III with intracranial hemorrhage and brachydactyly associated with mutations in exon 49 of COL1A2.
T2 128-233 Sentence denotes Osteogenesis imperfecta (OI) is a heritable bone disorder characterized by fractures with minimal trauma.
T3 234-309 Sentence denotes Intracranial hemorrhage has been reported in a small number of OI patients.
T4 310-509 Sentence denotes Here we describe three patients, a boy (aged 15 years) and two girls (aged 17 and 7 years) with OI type III who suffered intracranial hemorrhage and in addition had brachydactyly and nail hypoplasia.
T5 510-722 Sentence denotes In all of these patients, OI was caused by glycine mutations affecting exon 49 of the COL1A2 gene, which codes for the most carboxy-terminal part of the triple-helical domain of the collagen type I alpha 2 chain.
T6 723-890 Sentence denotes These observations suggest that mutations in this region of the collagen type I alpha 2 chain carry a high risk of abnormal limb development and intracranial bleeding.

LitCoin-entities

Id Subject Object Predicate Lexical cue db_id
5776 0-32 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta type III MESH:C536044
5777 38-61 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage MESH:D020300
5778 66-79 DiseaseOrPhenotypicFeature denotes brachydactyly MESH:D059327
5779 120-126 GeneOrGeneProduct denotes COL1A2 NCBIGene:1278
5780 128-151 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta MESH:D010013
5781 153-155 DiseaseOrPhenotypicFeature denotes OI MESH:D010013
5782 172-185 DiseaseOrPhenotypicFeature denotes bone disorder MESH:D001847
5783 203-212 DiseaseOrPhenotypicFeature denotes fractures MESH:D050723
5784 226-232 DiseaseOrPhenotypicFeature denotes trauma MESH:D014947
5785 234-257 DiseaseOrPhenotypicFeature denotes Intracranial hemorrhage MESH:D020300
5786 297-299 DiseaseOrPhenotypicFeature denotes OI MESH:D010013
5787 300-308 OrganismTaxon denotes patients NCBITaxon:9606
5788 333-341 OrganismTaxon denotes patients NCBITaxon:9606
5789 406-417 DiseaseOrPhenotypicFeature denotes OI type III MESH:C536044
5790 431-454 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage MESH:D020300
5791 475-488 DiseaseOrPhenotypicFeature denotes brachydactyly MESH:D059327
5792 493-508 DiseaseOrPhenotypicFeature denotes nail hypoplasia MESH:D009260
5793 526-534 OrganismTaxon denotes patients NCBITaxon:9606
5794 536-538 DiseaseOrPhenotypicFeature denotes OI MESH:D010013
5795 596-602 GeneOrGeneProduct denotes COL1A2 NCBIGene:1278
5796 692-715 GeneOrGeneProduct denotes collagen type I alpha 2 NCBIGene:1278
5797 787-810 GeneOrGeneProduct denotes collagen type I alpha 2 NCBIGene:1278
5798 838-863 DiseaseOrPhenotypicFeature denotes abnormal limb development MESH:D009140
5799 868-889 DiseaseOrPhenotypicFeature denotes intracranial bleeding MESH:D020300

LitCoin_Mondo

Id Subject Object Predicate Lexical cue mondo_id
T1 0-23 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta 0019019
T2 38-61 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage 0005049
T3 66-79 DiseaseOrPhenotypicFeature denotes brachydactyly 0021004
T4 128-151 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta 0019019
T5 234-257 DiseaseOrPhenotypicFeature denotes Intracranial hemorrhage 0005049
T6 431-454 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage 0005049
T7 475-488 DiseaseOrPhenotypicFeature denotes brachydactyly 0021004

LitCoin-GeneOrGeneProduct-v0

Id Subject Object Predicate Lexical cue
T1 29-32 GeneOrGeneProduct denotes III
T2 96-105 GeneOrGeneProduct denotes mutations
T3 120-126 GeneOrGeneProduct denotes COL1A2
T4 172-176 GeneOrGeneProduct denotes bone
T5 276-280 GeneOrGeneProduct denotes in a
T6 281-286 GeneOrGeneProduct denotes small
T7 358-363 GeneOrGeneProduct denotes years
T8 394-399 GeneOrGeneProduct denotes years
T9 414-417 GeneOrGeneProduct denotes III
T10 493-497 GeneOrGeneProduct denotes nail
T11 513-516 GeneOrGeneProduct denotes all
T12 561-570 GeneOrGeneProduct denotes mutations
T13 596-602 GeneOrGeneProduct denotes COL1A2
T14 651-655 GeneOrGeneProduct denotes part
T15 692-721 GeneOrGeneProduct denotes collagen type I alpha 2 chain
T16 750-764 GeneOrGeneProduct denotes that mutations
T17 787-816 GeneOrGeneProduct denotes collagen type I alpha 2 chain
T18 825-829 GeneOrGeneProduct denotes high
T19 847-851 GeneOrGeneProduct denotes limb

LitCoin-GeneOrGeneProduct-v2

Id Subject Object Predicate Lexical cue
T1 120-126 GeneOrGeneProduct denotes COL1A2
T2 281-286 GeneOrGeneProduct denotes small
T3 596-602 GeneOrGeneProduct denotes COL1A2
T4 692-721 GeneOrGeneProduct denotes collagen type I alpha 2 chain
T5 787-816 GeneOrGeneProduct denotes collagen type I alpha 2 chain
T6 825-829 GeneOrGeneProduct denotes high

LitCoin-Disease-MeSH

Id Subject Object Predicate Lexical cue originalLabel
T1 0-32 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta type III C536044
T2 38-61 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage D020300
T3 66-79 DiseaseOrPhenotypicFeature denotes brachydactyly D059327
T4 128-151 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta D010013
T5 153-155 DiseaseOrPhenotypicFeature denotes OI D010013
T6 203-212 DiseaseOrPhenotypicFeature denotes fractures DISEASE
T7 226-232 DiseaseOrPhenotypicFeature denotes trauma D014947
T8 234-257 DiseaseOrPhenotypicFeature denotes Intracranial hemorrhage D020300
T9 297-299 DiseaseOrPhenotypicFeature denotes OI D010013
T10 406-408 DiseaseOrPhenotypicFeature denotes OI D010013
T11 431-454 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage D020300
T12 475-488 DiseaseOrPhenotypicFeature denotes brachydactyly D059327
T13 536-538 DiseaseOrPhenotypicFeature denotes OI D010013
T14 881-889 DiseaseOrPhenotypicFeature denotes bleeding D006470

LitCoin-GeneOrGeneProduct-v3

Id Subject Object Predicate Lexical cue
T1 120-126 GeneOrGeneProduct denotes COL1A2
T2 596-602 GeneOrGeneProduct denotes COL1A2
T3 692-721 GeneOrGeneProduct denotes collagen type I alpha 2 chain
T4 787-816 GeneOrGeneProduct denotes collagen type I alpha 2 chain

LitCoin_Mondo_095

Id Subject Object Predicate Lexical cue mondo_id
T1 0-32 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta type III 0009804
T2 38-61 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage 0005049
T3 66-79 DiseaseOrPhenotypicFeature denotes brachydactyly 0021004|0017424
T5 128-151 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta 0019019
T6 153-155 DiseaseOrPhenotypicFeature denotes OI 0019019
T7 226-232 DiseaseOrPhenotypicFeature denotes trauma 0021178
T8 234-257 DiseaseOrPhenotypicFeature denotes Intracranial hemorrhage 0005049
T9 297-299 DiseaseOrPhenotypicFeature denotes OI 0019019
T10 406-417 DiseaseOrPhenotypicFeature denotes OI type III 0009804
T11 406-408 DiseaseOrPhenotypicFeature denotes OI 0019019
T12 431-454 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage 0005049
T13 475-488 DiseaseOrPhenotypicFeature denotes brachydactyly 0021004|0017424
T15 536-538 DiseaseOrPhenotypicFeature denotes OI 0019019

LitCoin-MeSH-Disease-2

Id Subject Object Predicate Lexical cue ID:
T1 0-32 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta type III C536044
T2 38-61 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage D020300
T3 66-79 DiseaseOrPhenotypicFeature denotes brachydactyly D059327
T4 128-151 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta D010013
T5 153-155 DiseaseOrPhenotypicFeature denotes OI D010013
T6 172-185 DiseaseOrPhenotypicFeature denotes bone disorder DISEASE
T7 203-212 DiseaseOrPhenotypicFeature denotes fractures DISEASE
T8 226-232 DiseaseOrPhenotypicFeature denotes trauma D014947
T9 234-257 DiseaseOrPhenotypicFeature denotes Intracranial hemorrhage D020300
T10 297-299 DiseaseOrPhenotypicFeature denotes OI D010013
T11 406-408 DiseaseOrPhenotypicFeature denotes OI D010013
T12 431-454 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage D020300
T13 475-488 DiseaseOrPhenotypicFeature denotes brachydactyly D059327
T14 493-508 DiseaseOrPhenotypicFeature denotes nail hypoplasia DISEASE
T15 536-538 DiseaseOrPhenotypicFeature denotes OI D010013
T16 838-863 DiseaseOrPhenotypicFeature denotes abnormal limb development DISEASE
T17 881-889 DiseaseOrPhenotypicFeature denotes bleeding D006470

LitCoin-MONDO_bioort2019

Id Subject Object Predicate Lexical cue #label
T1 0-32 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta type III C536044
T2 38-61 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage D020300
T3 66-79 DiseaseOrPhenotypicFeature denotes brachydactyly D059327
T4 128-151 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta D010013
T5 153-155 DiseaseOrPhenotypicFeature denotes OI D010013
T6 172-185 DiseaseOrPhenotypicFeature denotes bone disorder DISEASE
T7 203-212 DiseaseOrPhenotypicFeature denotes fractures DISEASE
T8 226-232 DiseaseOrPhenotypicFeature denotes trauma D014947
T9 234-257 DiseaseOrPhenotypicFeature denotes Intracranial hemorrhage D020300
T10 297-299 DiseaseOrPhenotypicFeature denotes OI D010013
T11 406-408 DiseaseOrPhenotypicFeature denotes OI D010013
T12 431-454 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage D020300
T13 475-488 DiseaseOrPhenotypicFeature denotes brachydactyly D059327
T14 493-508 DiseaseOrPhenotypicFeature denotes nail hypoplasia DISEASE
T15 536-538 DiseaseOrPhenotypicFeature denotes OI D010013
T16 838-863 DiseaseOrPhenotypicFeature denotes abnormal limb development DISEASE
T17 881-889 DiseaseOrPhenotypicFeature denotes bleeding D006470

LitCoin-Chemical-MeSH-CHEBI

Id Subject Object Predicate Lexical cue ID:
T1 553-560 ChemicalEntity denotes glycine http://purl.obolibrary.org/obo/CHEBI_57305|http://purl.obolibrary.org/obo/CHEBI_29947|http://purl.obolibrary.org/obo/CHEBI_15428
T4 634-641 ChemicalEntity denotes carboxy http://purl.obolibrary.org/obo/CHEBI_46883
T5 692-700 ChemicalEntity denotes collagen http://purl.obolibrary.org/obo/CHEBI_3815
T6 787-795 ChemicalEntity denotes collagen http://purl.obolibrary.org/obo/CHEBI_3815

LitCoin-NCBITaxon-2

Id Subject Object Predicate Lexical cue
T1 300-308 OrganismTaxon denotes patients
T2 333-341 OrganismTaxon denotes patients
T3 526-534 OrganismTaxon denotes patients

LitCoin-training-merged

Id Subject Object Predicate Lexical cue #label ID:
T6 787-795 ChemicalEntity denotes collagen http://purl.obolibrary.org/obo/CHEBI_3815
T5 692-700 ChemicalEntity denotes collagen http://purl.obolibrary.org/obo/CHEBI_3815
T4 634-641 ChemicalEntity denotes carboxy http://purl.obolibrary.org/obo/CHEBI_46883
T1 553-560 ChemicalEntity denotes glycine http://purl.obolibrary.org/obo/CHEBI_15428|http://purl.obolibrary.org/obo/CHEBI_29947|http://purl.obolibrary.org/obo/CHEBI_57305
T78675 787-816 GeneOrGeneProduct denotes collagen type I alpha 2 chain
T3 692-721 GeneOrGeneProduct denotes collagen type I alpha 2 chain
T2 596-602 GeneOrGeneProduct denotes COL1A2
T57517 120-126 GeneOrGeneProduct denotes COL1A2
T17 881-889 DiseaseOrPhenotypicFeature denotes bleeding D006470
T16 838-863 DiseaseOrPhenotypicFeature denotes abnormal limb development DISEASE
T15 536-538 DiseaseOrPhenotypicFeature denotes OI D010013
T14 493-508 DiseaseOrPhenotypicFeature denotes nail hypoplasia DISEASE
T13 475-488 DiseaseOrPhenotypicFeature denotes brachydactyly D059327
T12 431-454 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage D020300
T11 406-408 DiseaseOrPhenotypicFeature denotes OI D010013
T10 297-299 DiseaseOrPhenotypicFeature denotes OI D010013
T9 234-257 DiseaseOrPhenotypicFeature denotes Intracranial hemorrhage D020300
T8 226-232 DiseaseOrPhenotypicFeature denotes trauma D014947
T7 203-212 DiseaseOrPhenotypicFeature denotes fractures DISEASE
T47980 172-185 DiseaseOrPhenotypicFeature denotes bone disorder DISEASE
T88966 153-155 DiseaseOrPhenotypicFeature denotes OI D010013
T73081 128-151 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta D010013
T39072 66-79 DiseaseOrPhenotypicFeature denotes brachydactyly D059327
T85622 38-61 DiseaseOrPhenotypicFeature denotes intracranial hemorrhage D020300
T35891 0-32 DiseaseOrPhenotypicFeature denotes Osteogenesis imperfecta type III C536044
T12992 526-534 OrganismTaxon denotes patients
T48265 333-341 OrganismTaxon denotes patients
T82831 300-308 OrganismTaxon denotes patients

sentences

Id Subject Object Predicate Lexical cue
TextSentencer_T1 0-127 Sentence denotes Osteogenesis imperfecta type III with intracranial hemorrhage and brachydactyly associated with mutations in exon 49 of COL1A2.
TextSentencer_T2 128-233 Sentence denotes Osteogenesis imperfecta (OI) is a heritable bone disorder characterized by fractures with minimal trauma.
TextSentencer_T3 234-309 Sentence denotes Intracranial hemorrhage has been reported in a small number of OI patients.
TextSentencer_T4 310-509 Sentence denotes Here we describe three patients, a boy (aged 15 years) and two girls (aged 17 and 7 years) with OI type III who suffered intracranial hemorrhage and in addition had brachydactyly and nail hypoplasia.
TextSentencer_T5 510-722 Sentence denotes In all of these patients, OI was caused by glycine mutations affecting exon 49 of the COL1A2 gene, which codes for the most carboxy-terminal part of the triple-helical domain of the collagen type I alpha 2 chain.
TextSentencer_T6 723-890 Sentence denotes These observations suggest that mutations in this region of the collagen type I alpha 2 chain carry a high risk of abnormal limb development and intracranial bleeding.
T1 0-127 Sentence denotes Osteogenesis imperfecta type III with intracranial hemorrhage and brachydactyly associated with mutations in exon 49 of COL1A2.
T2 128-233 Sentence denotes Osteogenesis imperfecta (OI) is a heritable bone disorder characterized by fractures with minimal trauma.
T3 234-309 Sentence denotes Intracranial hemorrhage has been reported in a small number of OI patients.
T4 310-509 Sentence denotes Here we describe three patients, a boy (aged 15 years) and two girls (aged 17 and 7 years) with OI type III who suffered intracranial hemorrhage and in addition had brachydactyly and nail hypoplasia.
T5 510-722 Sentence denotes In all of these patients, OI was caused by glycine mutations affecting exon 49 of the COL1A2 gene, which codes for the most carboxy-terminal part of the triple-helical domain of the collagen type I alpha 2 chain.
T6 723-890 Sentence denotes These observations suggest that mutations in this region of the collagen type I alpha 2 chain carry a high risk of abnormal limb development and intracranial bleeding.

DisGeNET5_gene_disease

Id Subject Object Predicate Lexical cue
19208385-0#120#126#gene1278 120-126 gene1278 denotes COL1A2
19208385-0#0#32#diseaseC0268362 0-32 diseaseC0268362 denotes Osteogenesis imperfecta type III
120#126#gene12780#32#diseaseC0268362 19208385-0#120#126#gene1278 19208385-0#0#32#diseaseC0268362 associated_with COL1A2,Osteogenesis imperfecta type III

PubCasesHPO

Id Subject Object Predicate Lexical cue
TI1 38-61 HP:0002170 denotes intracranial hemorrhage
TI2 66-79 HP:0001156 denotes brachydactyly
AB1 234-257 HP:0002170 denotes Intracranial hemorrhage
AB2 431-454 HP:0002170 denotes intracranial hemorrhage
AB3 475-488 HP:0001156 denotes brachydactyly

PubCasesORDO

Id Subject Object Predicate Lexical cue
AB1 128-151 ORDO:666 denotes Osteogenesis imperfecta

UBERON-AE

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 493-497 http://purl.obolibrary.org/obo/UBERON_0001705 denotes nail
PD-UBERON-AE-B_T2 847-851 http://purl.obolibrary.org/obo/UBERON_0002101 denotes limb

performance-test

Id Subject Object Predicate Lexical cue
PD-UBERON-AE-B_T1 847-851 http://purl.obolibrary.org/obo/UBERON_0002101 denotes limb
PD-UBERON-AE-B_T2 493-497 http://purl.obolibrary.org/obo/UBERON_0001705 denotes nail