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7981603 | 7981603 | [
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9047239 | 9047239 | [
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"Transcriptional regulation"
],
"offsets": [
[
282,
308
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "10029589_T1"
}
]
}... | [] | [] |
7935451 | 7935451 | [
{
"id": "7935451__text",
"type": "abstract",
"text": [
"Human T-cell leukemia virus type I Tax activation of NF-kappa B/Rel involves phosphorylation and degradation of I kappa B alpha and RelA (p65)-mediated induction of the c-rel gene. \nThe tax gene product of human T-cell leukemia virus type I ... | [
{
"id": "7935451_T1",
"type": "Protein",
"text": [
"Tax"
],
"offsets": [
[
35,
38
]
],
"normalized": []
},
{
"id": "7935451_T2",
"type": "Protein",
"text": [
"I kappa B alpha"
],
"offsets": [
[
112,
127... | [
{
"id": "7935451_E1",
"type": "Phosphorylation",
"trigger": {
"text": [
"phosphorylation"
],
"offsets": [
[
77,
92
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "7935451_T2"
}
]
},
{
... | [
{
"id": "7935451_1",
"entity_ids": [
"7935451_T3",
"7935451_T4"
]
},
{
"id": "7935451_2",
"entity_ids": [
"7935451_T16",
"7935451_T17"
]
}
] | [] |
9053449 | 9053449 | [
{
"id": "9053449__text",
"type": "abstract",
"text": [
"Involvement of Egr-1/RelA synergy in distinguishing T cell activation from tumor necrosis factor-alpha-induced NF-kappa B1 transcription. \nNF-kappa B is an important transcription factor required for T cell proliferation and other immunologi... | [
{
"id": "9053449_T1",
"type": "Protein",
"text": [
"Egr-1"
],
"offsets": [
[
15,
20
]
],
"normalized": []
},
{
"id": "9053449_T2",
"type": "Protein",
"text": [
"RelA"
],
"offsets": [
[
21,
25
]
... | [
{
"id": "9053449_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"induced"
],
"offsets": [
[
103,
110
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "9053449_E2"
},
{
"rol... | [
{
"id": "9053449_1",
"entity_ids": [
"9053449_T7",
"9053449_T8"
]
}
] | [] |
2122173 | 2122173 | [
{
"id": "2122173__text",
"type": "abstract",
"text": [
"Interferon-gamma and the sexual dimorphism of autoimmunity. \nThe sexual difference in the incidence of autoimmune diseases has remained an enigma for many years. In the examination of the induction of autoimmunity in transgenic mice, evidenc... | [
{
"id": "2122173_T1",
"type": "Protein",
"text": [
"Interferon-gamma"
],
"offsets": [
[
0,
16
]
],
"normalized": []
},
{
"id": "2122173_T2",
"type": "Protein",
"text": [
"interferon-gamma"
],
"offsets": [
[
296... | [
{
"id": "2122173_E1",
"type": "Regulation",
"trigger": {
"text": [
"regulation"
],
"offsets": [
[
358,
368
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "2122173_E2"
}
]
},
{
"id": "2... | [] | [] |
9261367 | 9261367 | [
{
"id": "9261367__text",
"type": "abstract",
"text": [
"Inhibition of human immunodeficiency virus type 1 replication in vitro by a novel combination of anti-Tat single-chain intrabodies and NF-kappa B antagonists. \nHuman immunodeficiency virus type 1 (HIV-1) Tat, an early regulatory protein that... | [
{
"id": "9261367_T1",
"type": "Protein",
"text": [
"Tat"
],
"offsets": [
[
102,
105
]
],
"normalized": []
},
{
"id": "9261367_T2",
"type": "Protein",
"text": [
"Tat"
],
"offsets": [
[
204,
207
]
... | [
{
"id": "9261367_E1",
"type": "Binding",
"trigger": {
"text": [
"binding"
],
"offsets": [
[
357,
364
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "9261367_T2"
}
]
}
] | [] | [] |
9209284 | 9209284 | [
{
"id": "9209284__text",
"type": "abstract",
"text": [
"AP-1 derived from mature monocytes and astrocytes preferentially interacts with the HTLV-I promoter central 21 bp repeat. \nCharacterization of the cellular transcription factors interacting with the human T cell lymphotropic virus type I (HT... | [] | [] | [] | [] |
1313226 | 1313226 | [
{
"id": "1313226__text",
"type": "abstract",
"text": [
"Leukotriene B4 stimulates c-fos and c-jun gene transcription and AP-1 binding activity in human monocytes. \nWe have examined the effect of leukotriene B4 (LTB4), a potent lipid proinflammatory mediator, on the expression of the proto-oncogen... | [
{
"id": "1313226_T1",
"type": "Protein",
"text": [
"c-fos"
],
"offsets": [
[
26,
31
]
],
"normalized": []
},
{
"id": "1313226_T2",
"type": "Protein",
"text": [
"c-jun"
],
"offsets": [
[
36,
41
]
... | [
{
"id": "1313226_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"stimulates"
],
"offsets": [
[
15,
25
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "1313226_E4"
}
]
},
{
"... | [] | [] |
2407588 | 2407588 | [
{
"id": "2407588__text",
"type": "abstract",
"text": [
"Octamer transcription factors and the cell type-specificity of immunoglobulin gene expression. \nAntibodies are produced exclusively in B lymphocytes. The expression of the antibody-encoding genes, the immunoglobulin (Ig) genes, is also restr... | [
{
"id": "2407588_T1",
"type": "Protein",
"text": [
"Oct-1"
],
"offsets": [
[
539,
544
]
],
"normalized": []
},
{
"id": "2407588_T2",
"type": "Protein",
"text": [
"Oct-2A"
],
"offsets": [
[
607,
613
... | [
{
"id": "2407588_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"present"
],
"offsets": [
[
556,
563
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "2407588_T1"
}
]
},
{
"id": ... | [] | [] |
8605348 | 8605348 | [
{
"id": "8605348__text",
"type": "abstract",
"text": [
"Coexpression of the interleukin-13 and interleukin-4 genes correlates with their physical linkage in the cytokine gene cluster on human chromosome 5q23-31. \nInterleukin-13 (IL-13) and IL-4 are cytokines produced by T cells that are encoded b... | [
{
"id": "8605348_T1",
"type": "Protein",
"text": [
"interleukin-13"
],
"offsets": [
[
20,
34
]
],
"normalized": []
},
{
"id": "8605348_T2",
"type": "Protein",
"text": [
"interleukin-4"
],
"offsets": [
[
39,
... | [
{
"id": "8605348_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"Coexpression"
],
"offsets": [
[
0,
12
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "8605348_T2"
}
]
},
{
"id"... | [
{
"id": "8605348_1",
"entity_ids": [
"8605348_T3",
"8605348_T4"
]
}
] | [] |
8668213 | 8668213 | [
{
"id": "8668213__text",
"type": "abstract",
"text": [
"Recombinant NFAT1 (NFATp) is regulated by calcineurin in T cells and mediates transcription of several cytokine genes. \nTranscription factors of the NFAT family play a key role in the transcription of cytokine genes and other genes during th... | [
{
"id": "8668213_T1",
"type": "Protein",
"text": [
"NFAT1"
],
"offsets": [
[
12,
17
]
],
"normalized": []
},
{
"id": "8668213_T2",
"type": "Protein",
"text": [
"NFATp"
],
"offsets": [
[
19,
24
]
... | [
{
"id": "8668213_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expressed"
],
"offsets": [
[
1104,
1113
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "8668213_T9"
}
]
},
{
"i... | [
{
"id": "8668213_1",
"entity_ids": [
"8668213_T1",
"8668213_T2"
]
}
] | [] |
9817603 | 9817603 | [
{
"id": "9817603__text",
"type": "abstract",
"text": [
"Transcriptional regulation of the beta-casein gene by cytokines: cross-talk between STAT5 and other signaling molecules. \nThe beta-casein promoter has been widely used to monitor the activation of STAT (signal transducer and activator of tra... | [
{
"id": "9817603_T1",
"type": "Protein",
"text": [
"beta-casein"
],
"offsets": [
[
34,
45
]
],
"normalized": []
},
{
"id": "9817603_T2",
"type": "Protein",
"text": [
"STAT5"
],
"offsets": [
[
84,
89
... | [
{
"id": "9817603_E1",
"type": "Regulation",
"trigger": {
"text": [
"Transcriptional regulation"
],
"offsets": [
[
0,
26
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "9817603_T1"
}
]
},
{... | [
{
"id": "9817603_1",
"entity_ids": [
"9817603_T19",
"9817603_T20"
]
},
{
"id": "9817603_2",
"entity_ids": [
"9817603_T21",
"9817603_T22"
]
},
{
"id": "9817603_3",
"entity_ids": [
"9817603_T12",
"9817603_T13"
]
}
] | [] |
9634075 | 9634075 | [
{
"id": "9634075__text",
"type": "abstract",
"text": [
"Mycobacterium tuberculosis mannose-capped lipoarabinomannan can induce NF-kappaB-dependent activation of human immunodeficiency virus type 1 long terminal repeat in T cells. \nTuberculosis has emerged as an epidemic, extended by the large num... | [
{
"id": "9634075_T1",
"type": "Protein",
"text": [
"CD4"
],
"offsets": [
[
658,
661
]
],
"normalized": []
},
{
"id": "9634075_T2",
"type": "Protein",
"text": [
"TNF-alpha"
],
"offsets": [
[
1773,
1782
... | [
{
"id": "9634075_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expressing"
],
"offsets": [
[
662,
672
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "9634075_T1"
}
]
}
] | [] | [] |
9974401 | 9974401 | [
{
"id": "9974401__text",
"type": "abstract",
"text": [
"Oleic acid inhibits endothelial activation : A direct vascular antiatherogenic mechanism of a nutritional component in the mediterranean diet. \nBecause oleic acid is implicated in the antiatherogenic effects attributed to the Mediterranean d... | [
{
"id": "9974401_T1",
"type": "Protein",
"text": [
"interleukin (IL)-1alpha"
],
"offsets": [
[
599,
622
]
],
"normalized": []
},
{
"id": "9974401_T2",
"type": "Protein",
"text": [
"IL-1beta"
],
"offsets": [
[
6... | [
{
"id": "9974401_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expression"
],
"offsets": [
[
763,
773
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "9974401_T6"
}
]
},
{
"id... | [
{
"id": "9974401_1",
"entity_ids": [
"9974401_T4",
"9974401_T5"
]
}
] | [] |
7917514 | 7917514 | [
{
"id": "7917514__text",
"type": "abstract",
"text": [
"Role of HIV-1 Nef expression in activation pathways in CD4+ T cells. \nThe role of the human immunodeficiency virus (HIV-1) Nef protein in T cell activation pathways was investigated using a Jurkat CD4+ cell line stably transfected with a Nef... | [
{
"id": "7917514_T1",
"type": "Protein",
"text": [
"Nef"
],
"offsets": [
[
14,
17
]
],
"normalized": []
},
{
"id": "7917514_T2",
"type": "Protein",
"text": [
"CD4"
],
"offsets": [
[
55,
58
]
]... | [
{
"id": "7917514_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expression"
],
"offsets": [
[
18,
28
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "7917514_T1"
}
]
},
{
"id":... | [] | [] |
9177217 | 9177217 | [
{
"id": "9177217__text",
"type": "abstract",
"text": [
"Specific complex formation between the type II bare lymphocyte syndrome-associated transactivators CIITA and RFX5. \nTwo of the genes defective in the five complementation groups identified in the class II-negative bare lymphocyte syndrome or... | [
{
"id": "9177217_T1",
"type": "Protein",
"text": [
"CIITA"
],
"offsets": [
[
99,
104
]
],
"normalized": []
},
{
"id": "9177217_T2",
"type": "Protein",
"text": [
"RFX5"
],
"offsets": [
[
109,
113
]... | [
{
"id": "9177217_E1",
"type": "Binding",
"trigger": {
"text": [
"complex formation"
],
"offsets": [
[
9,
26
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "9177217_T1"
},
{
"role": "... | [] | [] |
10383397 | 10383397 | [
{
"id": "10383397__text",
"type": "abstract",
"text": [
"3-deazaadenosine, a S-adenosylhomocysteine hydrolase inhibitor, has dual effects on NF-kappaB regulation. Inhibition of NF-kappaB transcriptional activity and promotion of IkappaBalpha degradation. \nPreviously we reported that 3-deazaadenos... | [
{
"id": "10383397_T1",
"type": "Protein",
"text": [
"S-adenosylhomocysteine hydrolase"
],
"offsets": [
[
20,
52
]
],
"normalized": []
},
{
"id": "10383397_T2",
"type": "Protein",
"text": [
"IkappaBalpha"
],
"offsets": [
... | [
{
"id": "10383397_E1",
"type": "Negative_regulation",
"trigger": {
"text": [
"inhibitor"
],
"offsets": [
[
53,
62
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "10383397_T1"
}
]
},
{
... | [
{
"id": "10383397_1",
"entity_ids": [
"10383397_T6",
"10383397_T7"
]
}
] | [] |
End of preview. Expand in Data Studio
Dataset Card for BioNLP 2009
The BioNLP Shared Task 2009 was organized by GENIA Project and its corpora were curated based on the annotations of the publicly available GENIA Event corpus and an unreleased (blind) section of the GENIA Event corpus annotations, used for evaluation.
Citation Information
@inproceedings{kim-etal-2009-overview,
title = "Overview of {B}io{NLP}{'}09 Shared Task on Event Extraction",
author = "Kim, Jin-Dong and
Ohta, Tomoko and
Pyysalo, Sampo and
Kano, Yoshinobu and
Tsujii, Jun{'}ichi",
booktitle = "Proceedings of the {B}io{NLP} 2009 Workshop Companion Volume for Shared Task",
month = jun,
year = "2009",
address = "Boulder, Colorado",
publisher = "Association for Computational Linguistics",
url = "https://aclanthology.org/W09-1401",
pages = "1--9",
}
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