id stringlengths 1 3 | document_id stringlengths 12 41 | passages list | entities list | events list | coreferences list | relations list |
|---|---|---|---|---|---|---|
0 | PMC-1310901-00-TIAB | [
{
"id": "PMC-1310901-00-TIAB__text",
"type": "abstract",
"text": [
"Down-regulation of interferon regulatory factor 4 gene expression in leukemic cells due to hypermethylation of CpG motifs in the promoter region \nAlthough the bcr-abl translocation has been shown to be the causative genetic aberr... | [
{
"id": "PMC-1310901-00-TIAB_T1",
"type": "Protein",
"offsets": [
[
19,
49
]
],
"text": [
"interferon regulatory factor 4"
],
"normalized": []
},
{
"id": "PMC-1310901-00-TIAB_T2",
"type": "Protein",
"offsets": [
[
159,
... | [
{
"id": "PMC-1310901-00-TIAB_E1",
"type": "Negative_regulation",
"trigger": {
"text": [
"Down-regulation"
],
"offsets": [
[
0,
15
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-00-TIAB_E2"
... | [
{
"id": "PMC-1310901-00-TIAB_1",
"entity_ids": [
"PMC-1310901-00-TIAB_T4",
"PMC-1310901-00-TIAB_T5"
]
}
] | [] |
1 | PMC-1310901-01-INTRODUCTION | [
{
"id": "PMC-1310901-01-INTRODUCTION__text",
"type": "abstract",
"text": [
"INTRODUCTION\nChronic myeloid leukemia (CML) is a clonal myeloproliferative disorder with a typical three phased course (chronic, accelerated and blastic phase) reflecting the loss of differentiation and malignant progress... | [
{
"id": "PMC-1310901-01-INTRODUCTION_T1",
"type": "Protein",
"offsets": [
[
401,
420
]
],
"text": [
"bcr-abl fusion gene"
],
"normalized": []
},
{
"id": "PMC-1310901-01-INTRODUCTION_T2",
"type": "Protein",
"offsets": [
[
480... | [
{
"id": "PMC-1310901-01-INTRODUCTION_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"leading"
],
"offsets": [
[
374,
381
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-01-INTROD... | [
{
"id": "PMC-1310901-01-INTRODUCTION_1",
"entity_ids": [
"PMC-1310901-01-INTRODUCTION_T2",
"PMC-1310901-01-INTRODUCTION_T3"
]
},
{
"id": "PMC-1310901-01-INTRODUCTION_2",
"entity_ids": [
"PMC-1310901-01-INTRODUCTION_T4",
"PMC-1310901-01-INTRODUCTION_T5"
]
},
{
... | [] |
2 | PMC-1310901-02-MATERIALS_AND_METHODS-01 | [
{
"id": "PMC-1310901-02-MATERIALS_AND_METHODS-01__text",
"type": "abstract",
"text": [
"Cell lines\nK-562, Jurkat and U-937 were obtained from the ATCC (American Type Culture Collection, Rockville, USA) and EM-2, LAMA-84, CML-T1, BV-173, SD-1 and RPMI-8226 from the DSMZ (Deutsche Sammlung von Mikr... | [
{
"id": "PMC-1310901-02-MATERIALS_AND_METHODS-01_T1",
"type": "Protein",
"offsets": [
[
324,
329
]
],
"text": [
"IRF-4"
],
"normalized": []
}
] | [
{
"id": "PMC-1310901-02-MATERIALS_AND_METHODS-01_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"negative"
],
"offsets": [
[
330,
338
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-... | [] | [] |
3 | PMC-1310901-03-MATERIALS_AND_METHODS-02 | [
{
"id": "PMC-1310901-03-MATERIALS_AND_METHODS-02__text",
"type": "abstract",
"text": [
"Cell culture and stimulation\nAll cell lines were maintained at 5% CO2 in RPMI 1640 medium with 1% glutamine (Gibco/BRL Eggenstein, Germany) supplemented with 10% fetal calf serum (Gibco/BRL), 1% penicillin/str... | [] | [] | [] | [] |
4 | PMC-1310901-04-MATERIALS_AND_METHODS-03 | [
{
"id": "PMC-1310901-04-MATERIALS_AND_METHODS-03__text",
"type": "abstract",
"text": [
"Sequencing of the IRF-4 promoter\nFor analysis of the IRF-4 promoter region for permanent aberrations such as insertions/deletions or mutation, we PCR-amplified two fragments from genomic DNA, which was extract... | [
{
"id": "PMC-1310901-04-MATERIALS_AND_METHODS-03_T1",
"type": "Protein",
"offsets": [
[
18,
23
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-04-MATERIALS_AND_METHODS-03_T2",
"type": "Protein",
"offsets": [
[
... | [] | [] | [] |
5 | PMC-1310901-05-MATERIALS_AND_METHODS-04 | [
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS-04__text",
"type": "abstract",
"text": [
"Expression analysis\nTo analyze the IRF-4 transcriptional level, RNA was extracted from cells using the commercial RNAzol-kit (Paesel, Frankfurt, Germany). An aliquot of 1 mug total RNA was used for cDNA synthe... | [
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS-04_T1",
"type": "Protein",
"offsets": [
[
35,
40
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS-04_T2",
"type": "Protein",
"offsets": [
[
... | [
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS-04_E1",
"type": "Transcription",
"trigger": {
"text": [
"transcriptional"
],
"offsets": [
[
41,
56
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-13109... | [
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS-04_1",
"entity_ids": [
"PMC-1310901-05-MATERIALS_AND_METHODS-04_T12",
"PMC-1310901-05-MATERIALS_AND_METHODS-04_T14",
"PMC-1310901-05-MATERIALS_AND_METHODS-04_T13"
]
}
] | [] |
6 | PMC-1310901-06-MATERIALS_AND_METHODS-05 | [
{
"id": "PMC-1310901-06-MATERIALS_AND_METHODS-05__text",
"type": "abstract",
"text": [
"Methylation-specific restriction-PCR-assay\nDNA was extracted with a commercial kit (Qiagen) as recommended. Since the restriction ability of several endonucleases is inhibited by methylation of their target se... | [
{
"id": "PMC-1310901-06-MATERIALS_AND_METHODS-05_T1",
"type": "Protein",
"offsets": [
[
726,
731
]
],
"text": [
"IRF-4"
],
"normalized": []
}
] | [] | [] | [] |
7 | PMC-1310901-07-MATERIALS_AND_METHODS-06 | [
{
"id": "PMC-1310901-07-MATERIALS_AND_METHODS-06__text",
"type": "abstract",
"text": [
"Bisulfite treatment\nDNA was extracted as described above. Bisulfite treatment of DNA, leading to conversion of unmethylated cytosine to uracil residues and no change of methylated cytosine residues, was perfor... | [
{
"id": "PMC-1310901-07-MATERIALS_AND_METHODS-06_T1",
"type": "Protein",
"offsets": [
[
1171,
1176
]
],
"text": [
"IRF-4"
],
"normalized": []
}
] | [] | [] | [] |
8 | PMC-1310901-08-MATERIALS_AND_METHODS-07 | [
{
"id": "PMC-1310901-08-MATERIALS_AND_METHODS-07__text",
"type": "abstract",
"text": [
"In vitro methylation and reporter gene assays\nThe IRF-4 promoter-reporter gene construct was generously provided by J.Hiscott (31). Constructs were methylated in vitro with CpG Methylase (M.Sss I) as recommend... | [
{
"id": "PMC-1310901-08-MATERIALS_AND_METHODS-07_T1",
"type": "Protein",
"offsets": [
[
50,
55
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-08-MATERIALS_AND_METHODS-07_T2",
"type": "Protein",
"offsets": [
[
... | [
{
"id": "PMC-1310901-08-MATERIALS_AND_METHODS-07_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expressing"
],
"offsets": [
[
511,
521
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-131090... | [
{
"id": "PMC-1310901-08-MATERIALS_AND_METHODS-07_1",
"entity_ids": [
"PMC-1310901-08-MATERIALS_AND_METHODS-07_T2",
"PMC-1310901-08-MATERIALS_AND_METHODS-07_T3"
]
}
] | [] |
9 | PMC-1310901-09-RESULTS-01 | [
{
"id": "PMC-1310901-09-RESULTS-01__text",
"type": "abstract",
"text": [
"Absence of IRF-4 expression in leukemia cells is not due to promoter alterations\nWe have previously demonstrated a lack of IRF-4 expression in leukemia patients and specifically in CML T-cells (3). Here, we demonstrate the ... | [
{
"id": "PMC-1310901-09-RESULTS-01_T1",
"type": "Protein",
"offsets": [
[
11,
16
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-09-RESULTS-01_T2",
"type": "Protein",
"offsets": [
[
123,
128
... | [
{
"id": "PMC-1310901-09-RESULTS-01_E1",
"type": "Negative_regulation",
"trigger": {
"text": [
"Absence"
],
"offsets": [
[
0,
7
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-09-RESULTS-01_E... | [] | [] |
10 | PMC-1310901-10-RESULTS-02 | [
{
"id": "PMC-1310901-10-RESULTS-02__text",
"type": "abstract",
"text": [
"Increase of IRF-4 expression in hematopoietic cells after demethylating treatment\nWe next analyzed whether promoter methylation could be responsible for down-regulation of IRF-4 expression. A region including exon1 in the I... | [
{
"id": "PMC-1310901-10-RESULTS-02_T1",
"type": "Protein",
"offsets": [
[
12,
17
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-10-RESULTS-02_T2",
"type": "Protein",
"offsets": [
[
172,
177
... | [
{
"id": "PMC-1310901-10-RESULTS-02_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"Increase"
],
"offsets": [
[
0,
8
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-10-RESULTS-02_... | [] | [] |
11 | PMC-1310901-11-RESULTS-03 | [
{
"id": "PMC-1310901-11-RESULTS-03__text",
"type": "abstract",
"text": [
"Methylation-sensitive enzymes do not cut specific sites in the IRF-4 promoter in hematopoietic cells\nTo further investigate promoter methylation as a regulatory mechanism of IRF-4 gene expression, restriction-PCR-assays wer... | [
{
"id": "PMC-1310901-11-RESULTS-03_T1",
"type": "Protein",
"offsets": [
[
63,
68
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-11-RESULTS-03_T2",
"type": "Protein",
"offsets": [
[
174,
179
... | [
{
"id": "PMC-1310901-11-RESULTS-03_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expression"
],
"offsets": [
[
185,
195
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-11-RESULTS-0... | [] | [] |
12 | PMC-1310901-12-RESULTS-04 | [
{
"id": "PMC-1310901-12-RESULTS-04__text",
"type": "abstract",
"text": [
"Specific CpG sites in the IRF-4 promoter are methylated in hematopoietic cells\nIn order to exactly map the methylation sites within the IRF-4 promoter, we treated DNA of Jurkat, CML-T1, U-937, K-562 and EM-2 cells as well a... | [
{
"id": "PMC-1310901-12-RESULTS-04_T1",
"type": "Protein",
"offsets": [
[
26,
31
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-12-RESULTS-04_T2",
"type": "Protein",
"offsets": [
[
136,
141
... | [
{
"id": "PMC-1310901-12-RESULTS-04_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"positive"
],
"offsets": [
[
794,
802
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-12-RESULTS-04_... | [] | [] |
13 | PMC-1310901-13-RESULTS-05 | [
{
"id": "PMC-1310901-13-RESULTS-05__text",
"type": "abstract",
"text": [
"In vitro methylation of an IRF-4 promoter-reporter construct decreases its activity\nTo provide evidence for a direct effect of methylational status on IRF-4 promoter activity we performed reporter gene assays with IRF-4 pro... | [
{
"id": "PMC-1310901-13-RESULTS-05_T1",
"type": "Protein",
"offsets": [
[
27,
32
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-13-RESULTS-05_T2",
"type": "Protein",
"offsets": [
[
151,
156
... | [
{
"id": "PMC-1310901-13-RESULTS-05_E1",
"type": "Negative_regulation",
"trigger": {
"text": [
"decreased"
],
"offsets": [
[
479,
488
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-13-RESULT... | [] | [] |
14 | PMC-1310901-14-RESULTS-06 | [
{
"id": "PMC-1310901-14-RESULTS-06__text",
"type": "abstract",
"text": [
"mRNA expression of DNA methyltransferases and methyl-CpG-binding proteins may not be associated with IRF-4 promoter methylation\nSince abundance of DNMT and MBP contribute to promoter regulation via methylation (25,26,28), w... | [
{
"id": "PMC-1310901-14-RESULTS-06_T1",
"type": "Protein",
"offsets": [
[
101,
106
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-14-RESULTS-06_T2",
"type": "Protein",
"offsets": [
[
339,
344
... | [
{
"id": "PMC-1310901-14-RESULTS-06_E1",
"type": "Regulation",
"trigger": {
"text": [
"regulation"
],
"offsets": [
[
183,
193
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-14-RESULTS-06_T2"... | [] | [] |
15 | PMC-1310901-15-DISCUSSION | [
{
"id": "PMC-1310901-15-DISCUSSION__text",
"type": "abstract",
"text": [
"DISCUSSION\nMany genetic lesions are known to influence gene expression of tumor suppressor genes. Whereas mutations and deletions or insertions have permanent effects, reversible mechanisms are gene methylation, or expressi... | [
{
"id": "PMC-1310901-15-DISCUSSION_T1",
"type": "Protein",
"offsets": [
[
320,
325
]
],
"text": [
"IRF-4"
],
"normalized": []
},
{
"id": "PMC-1310901-15-DISCUSSION_T2",
"type": "Protein",
"offsets": [
[
455,
460
... | [
{
"id": "PMC-1310901-15-DISCUSSION_E1",
"type": "Negative_regulation",
"trigger": {
"text": [
"absent"
],
"offsets": [
[
313,
319
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-15-DISCUSSIO... | [
{
"id": "PMC-1310901-15-DISCUSSION_1",
"entity_ids": [
"PMC-1310901-15-DISCUSSION_T35",
"PMC-1310901-15-DISCUSSION_T36",
"PMC-1310901-15-DISCUSSION_T37"
]
},
{
"id": "PMC-1310901-15-DISCUSSION_2",
"entity_ids": [
"PMC-1310901-15-DISCUSSION_T49",
"PMC-1310901-15-... | [] |
16 | PMC-1447668-00-TIAB | [
{
"id": "PMC-1447668-00-TIAB__text",
"type": "abstract",
"text": [
"Foxp3 Represses Retroviral Transcription by Targeting Both NF-kappaB and CREB Pathways \nForkhead box (Fox)/winged-helix transcription factors regulate multiple aspects of immune responsiveness and Foxp3 is recognized as an essent... | [
{
"id": "PMC-1447668-00-TIAB_T1",
"type": "Protein",
"offsets": [
[
0,
5
]
],
"text": [
"Foxp3"
],
"normalized": []
},
{
"id": "PMC-1447668-00-TIAB_T2",
"type": "Protein",
"offsets": [
[
197,
202
]
],
"... | [
{
"id": "PMC-1447668-00-TIAB_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"Overexpression"
],
"offsets": [
[
393,
407
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-00-TIAB_T4... | [] | [] |
17 | PMC-1447668-01-Synopsis | [
{
"id": "PMC-1447668-01-Synopsis__text",
"type": "abstract",
"text": [
"Synopsis\nOver the past several years, mounting evidence has shown that immune tolerance in healthy individuals can be maintained by a population of T lymphocytes known as regulatory T cells (Tregs). As a component of this sys... | [
{
"id": "PMC-1447668-01-Synopsis_T1",
"type": "Protein",
"offsets": [
[
249,
254
]
],
"text": [
"Foxp3"
],
"normalized": []
},
{
"id": "PMC-1447668-01-Synopsis_T2",
"type": "Protein",
"offsets": [
[
345,
350
]
... | [
{
"id": "PMC-1447668-01-Synopsis_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expression"
],
"offsets": [
[
1244,
1254
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-01-Synopsis_... | [] | [] |
18 | PMC-1447668-02-Introduction | [
{
"id": "PMC-1447668-02-Introduction__text",
"type": "abstract",
"text": [
"Introduction\nImmunological tolerance to self-antigens is the result of the deletion of self-reactive T lymphocytes in the thymus (central tolerance) and suppression of the activation of potentially self-reactive T lymphoc... | [
{
"id": "PMC-1447668-02-Introduction_T1",
"type": "Protein",
"offsets": [
[
347,
350
]
],
"text": [
"CD4"
],
"normalized": []
},
{
"id": "PMC-1447668-02-Introduction_T2",
"type": "Protein",
"offsets": [
[
351,
355
... | [
{
"id": "PMC-1447668-02-Introduction_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expressed"
],
"offsets": [
[
1105,
1114
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-02-Introd... | [] | [] |
19 | PMC-1447668-03-Results-01 | [
{
"id": "PMC-1447668-03-Results-01__text",
"type": "abstract",
"text": [
"Foxp3 Suppresses NF-kappaB Dependent Transcriptional Activation\nTo ascertain the molecular mechanisms by which Foxp3 functions to promote the regulatory function of CD4+CD25hi T cells, we first confirmed the function of Fox... | [
{
"id": "PMC-1447668-03-Results-01_T1",
"type": "Protein",
"offsets": [
[
0,
5
]
],
"text": [
"Foxp3"
],
"normalized": []
},
{
"id": "PMC-1447668-03-Results-01_T2",
"type": "Protein",
"offsets": [
[
111,
116
]
... | [
{
"id": "PMC-1447668-03-Results-01_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"overexpression"
],
"offsets": [
[
429,
443
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-03-R... | [] | [] |
20 | PMC-1447668-04-Results-02 | [
{
"id": "PMC-1447668-04-Results-02__text",
"type": "abstract",
"text": [
"The Carboxyl-Terminal FKH Domain Is Not Required for Suppression of NF-kappaB Activation in T Cells\nTo define the requirements of Foxp3 with respect to inhibition of NF-kappaB-dependent transcription, we utilized a mutant o... | [
{
"id": "PMC-1447668-04-Results-02_T1",
"type": "Protein",
"offsets": [
[
130,
135
]
],
"text": [
"Foxp3"
],
"normalized": []
},
{
"id": "PMC-1447668-04-Results-02_T2",
"type": "Protein",
"offsets": [
[
225,
230
... | [
{
"id": "PMC-1447668-04-Results-02_E1",
"type": "Negative_regulation",
"trigger": {
"text": [
"lacking"
],
"offsets": [
[
231,
238
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-04-Results-... | [] | [] |
21 | PMC-1447668-05-Results-03 | [
{
"id": "PMC-1447668-05-Results-03__text",
"type": "abstract",
"text": [
"Foxp3 Suppresses HIV-1 Gene Expression in Part through Blocking Activation of NF-kappaB\nIf Foxp3 functions as a repressor of NF-kappaB-dependent gene expression, then we hypothesized that Foxp3 overexpression could selectiv... | [
{
"id": "PMC-1447668-05-Results-03_T1",
"type": "Protein",
"offsets": [
[
0,
5
]
],
"text": [
"Foxp3"
],
"normalized": []
},
{
"id": "PMC-1447668-05-Results-03_T2",
"type": "Protein",
"offsets": [
[
91,
96
]
... | [
{
"id": "PMC-1447668-05-Results-03_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"overexpression"
],
"offsets": [
[
194,
208
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-05-R... | [] | [] |
22 | PMC-1447668-06-Results-04 | [
{
"id": "PMC-1447668-06-Results-04__text",
"type": "abstract",
"text": [
"The Transactivation Functions of HTLV-I Tax Are Suppressed by Foxp3\nPrevious studies by Bettelli and colleagues have demonstrated that Foxp3 can repress both the basal levels of NF-kappaB activation as well as tumor necrosi... | [
{
"id": "PMC-1447668-06-Results-04_T1",
"type": "Protein",
"offsets": [
[
40,
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],
"text": [
"Tax"
],
"normalized": []
},
{
"id": "PMC-1447668-06-Results-04_T2",
"type": "Protein",
"offsets": [
[
62,
67
]
... | [
{
"id": "PMC-1447668-06-Results-04_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"overexpression"
],
"offsets": [
[
714,
728
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-06-R... | [] | [] |
23 | PMC-1447668-07-Results-05 | [
{
"id": "PMC-1447668-07-Results-05__text",
"type": "abstract",
"text": [
"Increased Foxp3 Protein Expression Is Associated with Low HTLV-I Proviral Load\nSince Foxp3 is expressed almost exclusively within CD4+CD25+ T cells, a major viral reservoir for HTLV-I [33], it was important to determine whe... | [
{
"id": "PMC-1447668-07-Results-05_T1",
"type": "Protein",
"offsets": [
[
10,
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]
],
"text": [
"Foxp3"
],
"normalized": []
},
{
"id": "PMC-1447668-07-Results-05_T2",
"type": "Protein",
"offsets": [
[
85,
90
]
... | [
{
"id": "PMC-1447668-07-Results-05_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"Increased"
],
"offsets": [
[
0,
9
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-07-Results-05... | [] | [] |
24 | PMC-1447668-08-Results-06 | [
{
"id": "PMC-1447668-08-Results-06__text",
"type": "abstract",
"text": [
"CREB Is a Target for Transcriptional Repression by Foxp3\nAlthough Foxp3 could down-regulate Tax-dependent transactivation of the HTLV-I LTR (Figure 4B) and inhibit Tax expression from an infectious molecular clone (Figure 5... | [
{
"id": "PMC-1447668-08-Results-06_T1",
"type": "Protein",
"offsets": [
[
51,
56
]
],
"text": [
"Foxp3"
],
"normalized": []
},
{
"id": "PMC-1447668-08-Results-06_T2",
"type": "Protein",
"offsets": [
[
66,
71
]
... | [
{
"id": "PMC-1447668-08-Results-06_E1",
"type": "Negative_regulation",
"trigger": {
"text": [
"inhibit"
],
"offsets": [
[
156,
163
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-08-Results-... | [
{
"id": "PMC-1447668-08-Results-06_1",
"entity_ids": [
"PMC-1447668-08-Results-06_T53",
"PMC-1447668-08-Results-06_T54"
]
}
] | [] |
25 | PMC-1447668-09-Results-07 | [
{
"id": "PMC-1447668-09-Results-07__text",
"type": "abstract",
"text": [
"Foxp3 Antagonizes CREB Transcriptional Activation by Disrupting Coactivator Recruitment\nStimulation of CREB-dependent transcription by reagents that activate adenylate cyclase and increase cAMP levels (e.g., forskolin) incr... | [
{
"id": "PMC-1447668-09-Results-07_T1",
"type": "Protein",
"offsets": [
[
0,
5
]
],
"text": [
"Foxp3"
],
"normalized": []
},
{
"id": "PMC-1447668-09-Results-07_T2",
"type": "Protein",
"offsets": [
[
379,
382
]
... | [
{
"id": "PMC-1447668-09-Results-07_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"permits"
],
"offsets": [
[
331,
338
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-09-Results-... | [
{
"id": "PMC-1447668-09-Results-07_1",
"entity_ids": [
"PMC-1447668-09-Results-07_T7",
"PMC-1447668-09-Results-07_T8"
]
}
] | [] |
End of preview. Expand
in Data Studio
Dataset Card for BioNLP 2011 GE
The BioNLP-ST GE task has been promoting development of fine-grained information extraction (IE) from biomedical documents, since 2009. Particularly, it has focused on the domain of NFkB as a model domain of Biomedical IE. The GENIA task aims at extracting events occurring upon genes or gene products, which are typed as "Protein" without differentiating genes from gene products. Other types of physical entities, e.g. cells, cell components, are not differentiated from each other, and their type is given as "Entity".
Citation Information
@inproceedings{10.5555/2107691.2107693,
author = {Kim, Jin-Dong and Wang, Yue and Takagi, Toshihisa and Yonezawa, Akinori},
title = {Overview of Genia Event Task in BioNLP Shared Task 2011},
year = {2011},
isbn = {9781937284091},
publisher = {Association for Computational Linguistics},
address = {USA},
abstract = {The Genia event task, a bio-molecular event extraction task,
is arranged as one of the main tasks of BioNLP Shared Task 2011.
As its second time to be arranged for community-wide focused
efforts, it aimed to measure the advance of the community since 2009,
and to evaluate generalization of the technology to full text papers.
After a 3-month system development period, 15 teams submitted their
performance results on test cases. The results show the community has
made a significant advancement in terms of both performance improvement
and generalization.},
booktitle = {Proceedings of the BioNLP Shared Task 2011 Workshop},
pages = {7–15},
numpages = {9},
location = {Portland, Oregon},
series = {BioNLP Shared Task '11}
}
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