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PubMed:20080916 JSON TXT

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LitCoin-sentences

Id	Subject	Object	Predicate	Lexical cue
T1	0-227	Sentence	denotes	Promoter insertion/deletion in the IRF5 gene is highly associated with susceptibility to systemic lupus erythematosus in distinct populations, but exerts a modest effect on gene expression in peripheral blood mononuclear cells.
T2	228-238	Sentence	denotes	OBJECTIVE:
T3	239-436	Sentence	denotes	We examined the genetic association of the promoter insertion/deletion (indel) in IRF5 gene with systemic lupus erythematosus (SLE) in distinct populations and assessed its role in gene expression.
T4	437-445	Sentence	denotes	METHODS:
T5	446-524	Sentence	denotes	Four IRF5 polymorphisms were genotyped in 1488 SLE patients and 1466 controls.
T6	525-641	Sentence	denotes	Gene expression was analyzed by quantitative real-time PCR using RNA from peripheral blood mononuclear cells (PBMC).
T7	642-650	Sentence	denotes	RESULTS:
T8	651-781	Sentence	denotes	The promoter indel and rs2070197 had independent genetic effects, which accounted for the association of rs2004640 and rs10954213.
T9	782-889	Sentence	denotes	Gene expression analysis revealed that rs10954213 exerted the greatest influence on IRF5 transcript levels.
T10	890-901	Sentence	denotes	CONCLUSION:
T11	902-1112	Sentence	denotes	We corroborated the association of the promoter indel with SLE in 5 different populations and revealed that rs10954213 is the main single-nucleotide polymorphism responsible for altered IRF5 expression in PBMC.

LitCoin-entities

Id	Subject	Object	Predicate	Lexical cue	db_id
6993	35-39	GeneOrGeneProduct	denotes	IRF5	NCBIGene:3663
6994	89-117	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	MESH:D008180
6995	321-325	GeneOrGeneProduct	denotes	IRF5	NCBIGene:3663
6996	336-364	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	MESH:D008180
6997	366-369	DiseaseOrPhenotypicFeature	denotes	SLE	MESH:D008180
6998	451-455	GeneOrGeneProduct	denotes	IRF5	NCBIGene:3663
6999	493-496	DiseaseOrPhenotypicFeature	denotes	SLE	MESH:D008180
7000	497-505	OrganismTaxon	denotes	patients	NCBITaxon:9606
7001	674-683	SequenceVariant	denotes	rs2070197	DBSNP:rs2070197
7002	756-765	SequenceVariant	denotes	rs2004640	DBSNP:rs2004640
7003	770-780	SequenceVariant	denotes	rs10954213	DBSNP:rs10954213
7004	821-831	SequenceVariant	denotes	rs10954213	DBSNP:rs10954213
7005	866-870	GeneOrGeneProduct	denotes	IRF5	NCBIGene:3663
7006	961-964	DiseaseOrPhenotypicFeature	denotes	SLE	MESH:D008180
7007	1010-1020	SequenceVariant	denotes	rs10954213	DBSNP:rs10954213
7008	1088-1092	GeneOrGeneProduct	denotes	IRF5	NCBIGene:3663

LitCoin_Mondo

Id	Subject	Object	Predicate	Lexical cue	mondo_id
T1	89-117	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	0007915
T2	98-117	DiseaseOrPhenotypicFeature	denotes	lupus erythematosus	0004670
T3	336-364	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	0007915
T4	345-364	DiseaseOrPhenotypicFeature	denotes	lupus erythematosus	0004670

LitCoin-SeqVar

Id	Subject	Object	Predicate	Lexical cue
T1	674-683	SequenceVariant	denotes	rs2070197
T2	756-765	SequenceVariant	denotes	rs2004640
T3	770-780	SequenceVariant	denotes	rs10954213
T4	821-831	SequenceVariant	denotes	rs10954213
T5	1010-1020	SequenceVariant	denotes	rs10954213

LitCoin-GeneOrGeneProduct-v0

Id	Subject	Object	Predicate	Lexical cue
T1	35-39	GeneOrGeneProduct	denotes	IRF5
T2	48-54	GeneOrGeneProduct	denotes	highly
T3	221-226	GeneOrGeneProduct	denotes	cells
T4	321-325	GeneOrGeneProduct	denotes	IRF5
T5	437-444	GeneOrGeneProduct	denotes	METHODS
T6	451-455	GeneOrGeneProduct	denotes	IRF5
T7	570-579	GeneOrGeneProduct	denotes	real-time
T8	628-633	GeneOrGeneProduct	denotes	cells
T9	866-870	GeneOrGeneProduct	denotes	IRF5
T10	871-881	GeneOrGeneProduct	denotes	transcript
T11	965-969	GeneOrGeneProduct	denotes	in 5
T12	1028-1032	GeneOrGeneProduct	denotes	main
T13	1088-1092	GeneOrGeneProduct	denotes	IRF5

LitCoin-GeneOrGeneProduct-v2

Id	Subject	Object	Predicate	Lexical cue
T1	35-39	GeneOrGeneProduct	denotes	IRF5
T2	321-325	GeneOrGeneProduct	denotes	IRF5
T3	451-455	GeneOrGeneProduct	denotes	IRF5
T4	570-579	GeneOrGeneProduct	denotes	real-time
T5	866-870	GeneOrGeneProduct	denotes	IRF5
T6	871-881	GeneOrGeneProduct	denotes	transcript
T7	1088-1092	GeneOrGeneProduct	denotes	IRF5

LitCoin-Disease-MeSH

Id	Subject	Object	Predicate	Lexical cue	originalLabel
T1	89-117	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	D008180
T2	336-364	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	D008180
T3	366-369	DiseaseOrPhenotypicFeature	denotes	SLE	D008180
T4	493-496	DiseaseOrPhenotypicFeature	denotes	SLE	D008180
T5	961-964	DiseaseOrPhenotypicFeature	denotes	SLE	D008180

LitCoin-GeneOrGeneProduct-v3

Id	Subject	Object	Predicate	Lexical cue
T1	35-39	GeneOrGeneProduct	denotes	IRF5
T2	321-325	GeneOrGeneProduct	denotes	IRF5
T3	451-455	GeneOrGeneProduct	denotes	IRF5
T4	866-870	GeneOrGeneProduct	denotes	IRF5
T5	1088-1092	GeneOrGeneProduct	denotes	IRF5

LitCoin_Mondo_095

Id	Subject	Object	Predicate	Lexical cue	mondo_id
T1	89-117	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	0007915
T2	336-364	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	0007915
T3	366-369	DiseaseOrPhenotypicFeature	denotes	SLE	0007915
T4	493-496	DiseaseOrPhenotypicFeature	denotes	SLE	0007915
T5	961-964	DiseaseOrPhenotypicFeature	denotes	SLE	0007915

LitCoin-MeSH-Disease-2

Id	Subject	Object	Predicate	Lexical cue	ID:
T1	89-117	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	D008180
T2	336-364	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	D008180
T3	366-369	DiseaseOrPhenotypicFeature	denotes	SLE	D008180
T4	493-496	DiseaseOrPhenotypicFeature	denotes	SLE	D008180
T5	961-964	DiseaseOrPhenotypicFeature	denotes	SLE	D008180

LitCoin-MONDO_bioort2019

Id	Subject	Object	Predicate	Lexical cue	#label
T1	89-117	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	D008180
T2	336-364	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	D008180
T3	366-369	DiseaseOrPhenotypicFeature	denotes	SLE	D008180
T4	493-496	DiseaseOrPhenotypicFeature	denotes	SLE	D008180
T5	961-964	DiseaseOrPhenotypicFeature	denotes	SLE	D008180

LitCoin-NCBITaxon-2

Id	Subject	Object	Predicate	Lexical cue
T1	497-505	OrganismTaxon	denotes	patients

LitCoin-training-merged

Id	Subject	Object	Predicate	Lexical cue	#label
T5	1088-1092	GeneOrGeneProduct	denotes	IRF5
T4	866-870	GeneOrGeneProduct	denotes	IRF5
T3	451-455	GeneOrGeneProduct	denotes	IRF5
T2	321-325	GeneOrGeneProduct	denotes	IRF5
T1	35-39	GeneOrGeneProduct	denotes	IRF5
T79198	961-964	DiseaseOrPhenotypicFeature	denotes	SLE	D008180
T40188	493-496	DiseaseOrPhenotypicFeature	denotes	SLE	D008180
T40375	366-369	DiseaseOrPhenotypicFeature	denotes	SLE	D008180
T69478	336-364	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	D008180
T82722	89-117	DiseaseOrPhenotypicFeature	denotes	systemic lupus erythematosus	D008180
T50341	497-505	OrganismTaxon	denotes	patients
T61127	1010-1020	SequenceVariant	denotes	rs10954213
T89245	821-831	SequenceVariant	denotes	rs10954213
T25425	770-780	SequenceVariant	denotes	rs10954213
T30468	756-765	SequenceVariant	denotes	rs2004640
T77548	674-683	SequenceVariant	denotes	rs2070197

DisGeNET

Id	Subject	Object	Predicate	Lexical cue
T0	1088-1092	gene:3663	denotes	IRF5
T1	961-964	disease:C0024141	denotes	SLE
R1	T0	T1	associated_with	IRF5,SLE

PubmedHPO

Id	Subject	Object	Predicate	Lexical cue
T1	336-364	HP_0002725	denotes	systemic lupus erythematosus

Allie

Id	Subject	Object	Predicate	Lexical cue
SS1_20080916_2_0	336-364	expanded	denotes	systemic lupus erythematosus
SS2_20080916_2_0	366-369	abbr	denotes	SLE
SS1_20080916_5_0	599-633	expanded	denotes	peripheral blood mononuclear cells
SS2_20080916_5_0	635-639	abbr	denotes	PBMC
AE1_20080916_2_0	SS1_20080916_2_0	SS2_20080916_2_0	abbreviatedTo	systemic lupus erythematosus,SLE
AE1_20080916_5_0	SS1_20080916_5_0	SS2_20080916_5_0	abbreviatedTo	peripheral blood mononuclear cells,PBMC

DisGeNET5_variant_disease

Id	Subject	Object	Predicate	Lexical cue
20080916-6#108#118#geners10954213	1010-1020	geners10954213	denotes	rs10954213
20080916-6#59#62#diseaseC0024141	961-964	diseaseC0024141	denotes	SLE
108#118#geners1095421359#62#diseaseC0024141	20080916-6#108#118#geners10954213	20080916-6#59#62#diseaseC0024141	associated_with	rs10954213,SLE

DisGeNET5_gene_disease

Id	Subject	Object	Predicate	Lexical cue
20080916-0#35#39#gene3663	35-39	gene3663	denotes	IRF5
20080916-0#89#117#diseaseC0024141	89-117	diseaseC0024141	denotes	systemic lupus erythematosus
35#39#gene366389#117#diseaseC0024141	20080916-0#35#39#gene3663	20080916-0#89#117#diseaseC0024141	associated_with	IRF5,systemic lupus erythematosus

tmVarCorpus

Id	Subject	Object	Predicate	Lexical cue
T1	674-683	SNP:rs2070197	denotes	rs2070197
T2	756-765	SNP:rs2004640	denotes	rs2004640
T3	770-780	SNP:rs10954213	denotes	rs10954213
T4	821-831	SNP:rs10954213	denotes	rs10954213
T5	1010-1020	SNP:rs10954213	denotes	rs10954213