id stringlengths 1 3 | document_id stringlengths 19 38 | passages list | entities list | events list | coreferences list | relations list |
|---|---|---|---|---|---|---|
0 | PMC-1310901-05-MATERIALS_AND_METHODS | [
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS__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 synthesis... | [
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS_T1",
"type": "Protein",
"text": [
"IRF-4"
],
"offsets": [
[
35,
40
]
],
"normalized": []
},
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS_T2",
"type": "Protein",
"text": [
"IRF-4"
],... | [
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS_E1",
"type": "Transcription",
"trigger": {
"text": [
"transcriptional"
],
"offsets": [
[
41,
56
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-... | [
{
"id": "PMC-1310901-05-MATERIALS_AND_METHODS_1",
"entity_ids": [
"PMC-1310901-05-MATERIALS_AND_METHODS_T12",
"PMC-1310901-05-MATERIALS_AND_METHODS_T14",
"PMC-1310901-05-MATERIALS_AND_METHODS_T13"
]
}
] | [] |
1 | PMC-2791889-15-Experimental_Procedures | [
{
"id": "PMC-2791889-15-Experimental_Procedures__text",
"type": "abstract",
"text": [
"Immunoblotting\nDifferentiated CD4+ T cells were rested for 5 hr in 1% FCS-containing medium and restimulated as described for specific experiments. Cell lysates were prepared, equal amounts of protein were sepa... | [
{
"id": "PMC-2791889-15-Experimental_Procedures_T1",
"type": "Protein",
"text": [
"CD4"
],
"offsets": [
[
30,
33
]
],
"normalized": []
},
{
"id": "PMC-2791889-15-Experimental_Procedures_T2",
"type": "Protein",
"text": [
"ERK"
],... | [] | [] | [] |
2 | PMC-2664230-11-RESULTS | [
{
"id": "PMC-2664230-11-RESULTS__text",
"type": "abstract",
"text": [
"PTX upregulates CREB phosphorylation and activation after LPS stimulation\nPhosphorylation of nuclear CREB was used as a marker for CREB activation. LPS stimulation caused a negligible increase in CREB phosphorylation when comp... | [
{
"id": "PMC-2664230-11-RESULTS_T1",
"type": "Protein",
"text": [
"CREB"
],
"offsets": [
[
886,
890
]
],
"normalized": []
}
] | [
{
"id": "PMC-2664230-11-RESULTS_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"increased"
],
"offsets": [
[
876,
885
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2664230-11-RESULTS_E... | [] | [] |
3 | PMC-3245220-07-Results | [
{
"id": "PMC-3245220-07-Results__text",
"type": "abstract",
"text": [
"M-CSF Induces Phosphorylation of NF-kappaB Ser276 in a PKC-dependent Fashion\nSince M-CSF did not regulate NF-kappaB activation by influencing IkappaBalpha, we next sought to determine if M-CSF affected NF-kappaB p65 by post-tr... | [
{
"id": "PMC-3245220-07-Results_T1",
"type": "Protein",
"text": [
"IkappaBalpha"
],
"offsets": [
[
142,
154
]
],
"normalized": []
},
{
"id": "PMC-3245220-07-Results_T2",
"type": "Protein",
"text": [
"p65"
],
"offsets": [
... | [
{
"id": "PMC-3245220-07-Results_E1",
"type": "Regulation",
"trigger": {
"text": [
"affected"
],
"offsets": [
[
193,
201
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-3245220-07-Results_E2"
}... | [] | [] |
4 | PMC-3148254-09-Materials_and_Methods | [
{
"id": "PMC-3148254-09-Materials_and_Methods__text",
"type": "abstract",
"text": [
"Somatic cell gene targeting\nThe generation of HOIP-deficient cells was accomplished using a homologous recombination approach described previously [7], [8]. Segments of Rnf31 gene sequence used in the targeting c... | [
{
"id": "PMC-3148254-09-Materials_and_Methods_T1",
"type": "Protein",
"text": [
"HOIP"
],
"offsets": [
[
46,
50
]
],
"normalized": []
},
{
"id": "PMC-3148254-09-Materials_and_Methods_T2",
"type": "Protein",
"text": [
"Rnf31"
],
... | [
{
"id": "PMC-3148254-09-Materials_and_Methods_E1",
"type": "Negative_regulation",
"trigger": {
"text": [
"deficient"
],
"offsets": [
[
51,
60
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-3148254-... | [] | [] |
5 | PMC-2626671-06-RESULTS_AND_DISCUSSION | [
{
"id": "PMC-2626671-06-RESULTS_AND_DISCUSSION__text",
"type": "abstract",
"text": [
"Runx3 controls multiple aspects of the CTL differentiation program, in part through induction of Eomes\nBecause Runx3 is highly expressed in peripheral CD8+ T cells, and because of the T-bet-Runx3 cooperation we ... | [
{
"id": "PMC-2626671-06-RESULTS_AND_DISCUSSION_T1",
"type": "Protein",
"text": [
"Runx3"
],
"offsets": [
[
0,
5
]
],
"normalized": []
},
{
"id": "PMC-2626671-06-RESULTS_AND_DISCUSSION_T2",
"type": "Protein",
"text": [
"Eomes"
],... | [
{
"id": "PMC-2626671-06-RESULTS_AND_DISCUSSION_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"induction"
],
"offsets": [
[
84,
93
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2626671... | [] | [
{
"id": "PMC-2626671-06-RESULTS_AND_DISCUSSION_R1",
"type": "Coreference",
"arg1_id": "PMC-2626671-06-RESULTS_AND_DISCUSSION_T113",
"arg2_id": "PMC-2626671-06-RESULTS_AND_DISCUSSION_T48",
"normalized": []
},
{
"id": "PMC-2626671-06-RESULTS_AND_DISCUSSION_R2",
"type": "Coreference",
... |
6 | PMC-3279418-11-Materials_and_Methods | [
{
"id": "PMC-3279418-11-Materials_and_Methods__text",
"type": "abstract",
"text": [
"Generation of BMDC\nBMDC were developed as previously reported [54], [55]. Cells were collected after 10-12 days of culture. The cell yield was 2-3x107 cells/mouse with 80-95% BMDC."
],
"offsets": [
... | [] | [] | [] | [] |
7 | PMC-2889865-15-Materials_and_methods | [
{
"id": "PMC-2889865-15-Materials_and_methods__text",
"type": "abstract",
"text": [
"Reverse transcription quantitative PCR (RT-qPCR)\nRT-qPCR was used to determine gene expression levels of il-6 and cxcl8 in response to PMA following inhibition of NF-kappaB, JNK and PKC. The following primer sequ... | [
{
"id": "PMC-2889865-15-Materials_and_methods_T1",
"type": "Protein",
"text": [
"il-6"
],
"offsets": [
[
105,
109
]
],
"normalized": []
},
{
"id": "PMC-2889865-15-Materials_and_methods_T2",
"type": "Protein",
"text": [
"cxcl8"
]... | [
{
"id": "PMC-2889865-15-Materials_and_methods_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expression"
],
"offsets": [
[
84,
94
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2889865-15-... | [] | [] |
8 | PMC-3148254-00-TIAB | [
{
"id": "PMC-3148254-00-TIAB__text",
"type": "abstract",
"text": [
"HOIL-1L Interacting Protein (HOIP) Is Essential for CD40 Signaling\nCD40 is a cell surface receptor important in the activation of antigen-presenting cells during immune responses. In macrophages and dendritic cells, engagement of... | [
{
"id": "PMC-3148254-00-TIAB_T1",
"type": "Protein",
"text": [
"HOIL-1L Interacting Protein"
],
"offsets": [
[
0,
27
]
],
"normalized": []
},
{
"id": "PMC-3148254-00-TIAB_T2",
"type": "Protein",
"text": [
"HOIP"
],
"offsets"... | [
{
"id": "PMC-3148254-00-TIAB_E1",
"type": "Binding",
"trigger": {
"text": [
"engagement"
],
"offsets": [
[
216,
226
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-3148254-00-TIAB_T5"
},
... | [
{
"id": "PMC-3148254-00-TIAB_1",
"entity_ids": [
"PMC-3148254-00-TIAB_T1",
"PMC-3148254-00-TIAB_T2"
]
},
{
"id": "PMC-3148254-00-TIAB_2",
"entity_ids": [
"PMC-3148254-00-TIAB_T12",
"PMC-3148254-00-TIAB_T13"
]
}
] | [] |
9 | PMC-3245220-32-Caption-Figure_8 | [
{
"id": "PMC-3245220-32-Caption-Figure_8__text",
"type": "abstract",
"text": [
"NF-kappaB p65 Ser276 is essential in regulating NF-kappaB activity.\n(A) Raw 264.7 cell line was transiently transfected with pNF-kappaB-SEAP along with empty vector or plasmid encoding either NF-kappaB p65 WT or NF-ka... | [
{
"id": "PMC-3245220-32-Caption-Figure_8_T1",
"type": "Protein",
"text": [
"p65"
],
"offsets": [
[
10,
13
]
],
"normalized": []
},
{
"id": "PMC-3245220-32-Caption-Figure_8_T2",
"type": "Protein",
"text": [
"p65"
],
"offsets"... | [
{
"id": "PMC-3245220-32-Caption-Figure_8_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"transfected"
],
"offsets": [
[
108,
119
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-3245220-32-Ca... | [] | [] |
10 | PMC-2065877-06-Results | [
{
"id": "PMC-2065877-06-Results__text",
"type": "abstract",
"text": [
"LMP1 Upregulates IL10 and Constitutively Activates Stat3\nTo identify cytokines that may contribute to the increased survival and growth of lymphomas, the expression levels of a panel of cytokines were screened on CD19+ MACS-pu... | [
{
"id": "PMC-2065877-06-Results_T1",
"type": "Protein",
"text": [
"LMP1"
],
"offsets": [
[
0,
4
]
],
"normalized": []
},
{
"id": "PMC-2065877-06-Results_T2",
"type": "Protein",
"text": [
"IL10"
],
"offsets": [
[
... | [
{
"id": "PMC-2065877-06-Results_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"Upregulates"
],
"offsets": [
[
5,
16
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2065877-06-Results_T2... | [] | [
{
"id": "PMC-2065877-06-Results_R1",
"type": "Coreference",
"arg1_id": "PMC-2065877-06-Results_T69",
"arg2_id": "PMC-2065877-06-Results_T5",
"normalized": []
},
{
"id": "PMC-2065877-06-Results_R2",
"type": "Coreference",
"arg1_id": "PMC-2065877-06-Results_T69",
"arg2_id": "PM... |
11 | PMC-2626671-15-MATERIALS_AND_METHODS | [
{
"id": "PMC-2626671-15-MATERIALS_AND_METHODS__text",
"type": "abstract",
"text": [
"Northern and Western blot analyses.\nRNA isolation and Northern blot analysis was performed as previously described (29). In brief, 10 mug of total RNA was loaded per lane and transferred to positively charged nyl... | [
{
"id": "PMC-2626671-15-MATERIALS_AND_METHODS_T1",
"type": "Protein",
"text": [
"CD8"
],
"offsets": [
[
781,
784
]
],
"normalized": []
},
{
"id": "PMC-2626671-15-MATERIALS_AND_METHODS_T2",
"type": "Protein",
"text": [
"IL-2"
],
... | [] | [] | [] |
12 | PMC-1447668-05-Results | [
{
"id": "PMC-1447668-05-Results__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 necrosis f... | [
{
"id": "PMC-1447668-05-Results_T1",
"type": "Protein",
"text": [
"Tax"
],
"offsets": [
[
40,
43
]
],
"normalized": []
},
{
"id": "PMC-1447668-05-Results_T2",
"type": "Protein",
"text": [
"Foxp3"
],
"offsets": [
[
... | [
{
"id": "PMC-1447668-05-Results_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"overexpression"
],
"offsets": [
[
714,
728
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1447668-05-Resu... | [] | [
{
"id": "PMC-1447668-05-Results_R1",
"type": "Coreference",
"arg1_id": "PMC-1447668-05-Results_T57",
"arg2_id": "PMC-1447668-05-Results_T34",
"normalized": []
},
{
"id": "PMC-1447668-05-Results_R2",
"type": "Coreference",
"arg1_id": "PMC-1447668-05-Results_T58",
"arg2_id": "P... |
13 | PMC-3245220-20-Materials_and_Methods | [
{
"id": "PMC-3245220-20-Materials_and_Methods__text",
"type": "abstract",
"text": [
"Western Blot Analysis\nCells were washed with PBS and resuspended in cell lysis buffer. (Cell Signaling Technology) and incubated for 10 minutes on ice then centrifuged to remove the insoluble fraction. The protei... | [] | [] | [] | [] |
14 | PMC-2065877-10-Materials_and_Methods | [
{
"id": "PMC-2065877-10-Materials_and_Methods__text",
"type": "abstract",
"text": [
"Transgenic mice.\nGeneration of LMP1 mice under the Ig heavy chain promoter and enhancer have been described previously and were maintained as heterozygotes on a Balbc background [26]. LMP1 mice were genotyped by ... | [
{
"id": "PMC-2065877-10-Materials_and_Methods_T1",
"type": "Protein",
"text": [
"LMP1"
],
"offsets": [
[
31,
35
]
],
"normalized": []
},
{
"id": "PMC-2065877-10-Materials_and_Methods_T2",
"type": "Protein",
"text": [
"LMP1"
],
... | [] | [] | [] |
15 | PMC-2065877-24-Caption-Figure_6 | [
{
"id": "PMC-2065877-24-Caption-Figure_6__text",
"type": "abstract",
"text": [
"LMP1 Activates Akt Signaling and Deregulates the Rb Cell Cycle Pathway\n(A and B) Immunoblot analysis of purified B cells (CD19+) from the spleens of WT and LMP1 transgenic mice for Akt signaling, probing for (A) activ... | [
{
"id": "PMC-2065877-24-Caption-Figure_6_T1",
"type": "Protein",
"text": [
"LMP1"
],
"offsets": [
[
0,
4
]
],
"normalized": []
},
{
"id": "PMC-2065877-24-Caption-Figure_6_T2",
"type": "Protein",
"text": [
"Akt"
],
"offsets":... | [
{
"id": "PMC-2065877-24-Caption-Figure_6_E1",
"type": "Regulation",
"trigger": {
"text": [
"targets"
],
"offsets": [
[
242,
249
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2065877-24-Caption-Fig... | [] | [] |
16 | PMC-2065877-00-TIAB | [
{
"id": "PMC-2065877-00-TIAB__text",
"type": "abstract",
"text": [
"EBV Latent Membrane Protein 1 Activates Akt, NFkappaB, and Stat3 in B Cell Lymphomas\nLatent membrane protein 1 (LMP1) is the major oncoprotein of Epstein-Barr virus (EBV). In transgenic mice, LMP1 promotes increased lymphoma deve... | [
{
"id": "PMC-2065877-00-TIAB_T1",
"type": "Protein",
"text": [
"Latent Membrane Protein 1"
],
"offsets": [
[
4,
29
]
],
"normalized": []
},
{
"id": "PMC-2065877-00-TIAB_T2",
"type": "Protein",
"text": [
"Akt"
],
"offsets": [... | [
{
"id": "PMC-2065877-00-TIAB_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"Activates"
],
"offsets": [
[
30,
39
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2065877-00-TIAB_T2"
... | [] | [
{
"id": "PMC-2065877-00-TIAB_R1",
"type": "Coreference",
"arg1_id": "PMC-2065877-00-TIAB_T15",
"arg2_id": "PMC-2065877-00-TIAB_T10",
"normalized": []
},
{
"id": "PMC-2065877-00-TIAB_R2",
"type": "Coreference",
"arg1_id": "PMC-2065877-00-TIAB_T15",
"arg2_id": "PMC-2065877-00-T... |
17 | PMC-2791889-05-Results | [
{
"id": "PMC-2791889-05-Results__text",
"type": "abstract",
"text": [
"IL-10 Production Is Maintained by High TCR Signal Strength and IL-12\nWe next investigated whether repeated strong TCR activation is a compensatory signal for IL-12-induced STAT4 signaling in the induction of IL-10 in Th1 cells... | [
{
"id": "PMC-2791889-05-Results_T1",
"type": "Protein",
"text": [
"IL-10"
],
"offsets": [
[
0,
5
]
],
"normalized": []
},
{
"id": "PMC-2791889-05-Results_T2",
"type": "Protein",
"text": [
"IL-12"
],
"offsets": [
[
... | [
{
"id": "PMC-2791889-05-Results_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"Production"
],
"offsets": [
[
6,
16
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2791889-05-Results_T1"
... | [] | [] |
18 | PMC-2626671-17-Caption-Figure_1 | [
{
"id": "PMC-2626671-17-Caption-Figure_1__text",
"type": "abstract",
"text": [
"Kinetics of gene expression during CD8+ T cell differentiation. (A) Kinetics of Prf1, Gzmb, Tbx21 (T-bet), and Eomes mRNA expression in differentiating P14 CD8+ T cells analyzed by Northern blotting. RNA from day 7 Th1... | [
{
"id": "PMC-2626671-17-Caption-Figure_1_T1",
"type": "Protein",
"text": [
"CD8"
],
"offsets": [
[
35,
38
]
],
"normalized": []
},
{
"id": "PMC-2626671-17-Caption-Figure_1_T2",
"type": "Protein",
"text": [
"Prf1"
],
"offsets... | [
{
"id": "PMC-2626671-17-Caption-Figure_1_E1",
"type": "Transcription",
"trigger": {
"text": [
"mRNA expression"
],
"offsets": [
[
117,
132
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2626671-17-... | [
{
"id": "PMC-2626671-17-Caption-Figure_1_1",
"entity_ids": [
"PMC-2626671-17-Caption-Figure_1_T4",
"PMC-2626671-17-Caption-Figure_1_T5"
]
}
] | [] |
19 | PMC-3148254-10-Materials_and_Methods | [
{
"id": "PMC-3148254-10-Materials_and_Methods__text",
"type": "abstract",
"text": [
"Retroviral transduction\nA retroviral vector (pMIP) was used for the stable transduction of cells with HOIP and IKKgamma cDNA constructs. pMIP was constructed by replacing the IRES and GFP encoding sequences in pM... | [
{
"id": "PMC-3148254-10-Materials_and_Methods_T1",
"type": "Protein",
"text": [
"HOIP"
],
"offsets": [
[
102,
106
]
],
"normalized": []
},
{
"id": "PMC-3148254-10-Materials_and_Methods_T2",
"type": "Protein",
"text": [
"IKKgamma"
... | [
{
"id": "PMC-3148254-10-Materials_and_Methods_E1",
"type": "Negative_regulation",
"trigger": {
"text": [
"deficient"
],
"offsets": [
[
736,
745
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-314825... | [] | [] |
20 | PMC-2664230-05-MATERIALS_AND_METHODS | [
{
"id": "PMC-2664230-05-MATERIALS_AND_METHODS__text",
"type": "abstract",
"text": [
"SDS-PAGE and Immunoblotting (I-kappaBalpha, NF-kappaB p65, and CREB)\nFollowing stimulation, PBMCs were washed with ice-cold PBS and centrifuged to collect a cell pellet. The pellet was resuspended in ice-cold SDS... | [
{
"id": "PMC-2664230-05-MATERIALS_AND_METHODS_T1",
"type": "Protein",
"text": [
"I-kappaBalpha"
],
"offsets": [
[
29,
42
]
],
"normalized": []
},
{
"id": "PMC-2664230-05-MATERIALS_AND_METHODS_T2",
"type": "Protein",
"text": [
"p65"
... | [
{
"id": "PMC-2664230-05-MATERIALS_AND_METHODS_E1",
"type": "Phosphorylation",
"trigger": {
"text": [
"phosphorylated"
],
"offsets": [
[
1037,
1051
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-266... | [] | [] |
21 | PMC-3245220-19-Materials_and_Methods | [
{
"id": "PMC-3245220-19-Materials_and_Methods__text",
"type": "abstract",
"text": [
"Annexin V/PI Apoptosis Assay\nCell apoptosis assay was performed as described previously [51] using the Annexin V-FITC apoptosis detection kit (BD PharMingen, San Diego, CA). Briefly, human monocytes (5x106) were ... | [
{
"id": "PMC-3245220-19-Materials_and_Methods_T1",
"type": "Protein",
"text": [
"Annexin V"
],
"offsets": [
[
0,
9
]
],
"normalized": []
},
{
"id": "PMC-3245220-19-Materials_and_Methods_T2",
"type": "Protein",
"text": [
"Annexin V"
... | [] | [] | [] |
22 | PMC-2065877-20-Caption-Figure_2 | [
{
"id": "PMC-2065877-20-Caption-Figure_2__text",
"type": "abstract",
"text": [
"LMP1 Promotes B-1a Lymphomas That Can Escape Allelic Exclusion\n(A) Flow cytometry analysis of splenocytes from a WT or LMP1 transgenic lymphoma for the pan-B cell (CD19), B-1a cell (CD5), and Ig heavy chain (IgM and I... | [
{
"id": "PMC-2065877-20-Caption-Figure_2_T1",
"type": "Protein",
"text": [
"LMP1"
],
"offsets": [
[
0,
4
]
],
"normalized": []
},
{
"id": "PMC-2065877-20-Caption-Figure_2_T2",
"type": "Protein",
"text": [
"LMP1"
],
"offsets"... | [] | [] | [] |
23 | PMC-1447668-17-Materials_and_Methods | [
{
"id": "PMC-1447668-17-Materials_and_Methods__text",
"type": "abstract",
"text": [
"Western blot analysis.\nHEK 293T cells were plated at a density of 5 x 105 cells/well in six-well culture plates (BD Biosciences) 1 d prior to transfection with the appropriate plasmid DNA (2 mug total) using FuGe... | [
{
"id": "PMC-1447668-17-Materials_and_Methods_T1",
"type": "Protein",
"text": [
"Foxp3"
],
"offsets": [
[
957,
962
]
],
"normalized": []
},
{
"id": "PMC-1447668-17-Materials_and_Methods_T2",
"type": "Protein",
"text": [
"Foxp3"
... | [] | [] | [] |
24 | PMC-1310901-11-RESULTS | [
{
"id": "PMC-1310901-11-RESULTS__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 were p... | [
{
"id": "PMC-1310901-11-RESULTS_T1",
"type": "Protein",
"text": [
"IRF-4"
],
"offsets": [
[
63,
68
]
],
"normalized": []
},
{
"id": "PMC-1310901-11-RESULTS_T2",
"type": "Protein",
"text": [
"IRF-4"
],
"offsets": [
[
... | [
{
"id": "PMC-1310901-11-RESULTS_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"expression"
],
"offsets": [
[
185,
195
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-1310901-11-RESULTS_T2"
... | [] | [] |
25 | PMC-2889865-03-Results | [
{
"id": "PMC-2889865-03-Results__text",
"type": "abstract",
"text": [
"Induction of inflammatory responses\nThe ability of PMA and HK E. coli to induce an inflammatory response in Jurkat T-cells was evaluated using a multiplex cytokine assay following 24 h stimulation. The cytokine profile reveale... | [
{
"id": "PMC-2889865-03-Results_T1",
"type": "Protein",
"text": [
"IL-2"
],
"offsets": [
[
284,
288
]
],
"normalized": []
},
{
"id": "PMC-2889865-03-Results_T2",
"type": "Protein",
"text": [
"IL-6"
],
"offsets": [
[
... | [
{
"id": "PMC-2889865-03-Results_E1",
"type": "Positive_regulation",
"trigger": {
"text": [
"enhanced"
],
"offsets": [
[
231,
239
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2889865-03-Results_E2... | [] | [
{
"id": "PMC-2889865-03-Results_R1",
"type": "Coreference",
"arg1_id": "PMC-2889865-03-Results_T12",
"arg2_id": "PMC-2889865-03-Results_T7",
"normalized": []
},
{
"id": "PMC-2889865-03-Results_R2",
"type": "Coreference",
"arg1_id": "PMC-2889865-03-Results_T12",
"arg2_id": "PM... |
26 | PMC-2065877-18-Materials_and_Methods | [
{
"id": "PMC-2065877-18-Materials_and_Methods__text",
"type": "abstract",
"text": [
"Antibodies.\nFITC-conjugated goat anti-mouse IgM, rat IgG2akappa anti-mouse IgD (clone 11-26), rat IgG1kappa anti-mouse kappa (clone 187.1), rat IgG2bkappa anti-mouse lambda (clone JC5-1); PE-conjugated goat anti-... | [
{
"id": "PMC-2065877-18-Materials_and_Methods_T1",
"type": "Protein",
"text": [
"CD19"
],
"offsets": [
[
360,
364
]
],
"normalized": []
},
{
"id": "PMC-2065877-18-Materials_and_Methods_T2",
"type": "Protein",
"text": [
"LMP1"
],... | [] | [] | [] |
27 | PMC-2889865-17-Caption-Figure_1 | [
{
"id": "PMC-2889865-17-Caption-Figure_1__text",
"type": "abstract",
"text": [
"AP-1 activation following long-term exposure of Jurkat T-cells to PMA. Jurkat T-cells were transfected with luciferase reporter plasmids containing the AP-1 cis-elements. (A) Time-dependent AP-1 activation in response ... | [
{
"id": "PMC-2889865-17-Caption-Figure_1_T1",
"type": "Protein",
"text": [
"luciferase"
],
"offsets": [
[
108,
118
]
],
"normalized": []
}
] | [] | [] | [] |
28 | 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 aberra... | [
{
"id": "PMC-1310901-00-TIAB_T1",
"type": "Protein",
"text": [
"interferon regulatory factor 4"
],
"offsets": [
[
19,
49
]
],
"normalized": []
},
{
"id": "PMC-1310901-00-TIAB_T2",
"type": "Protein",
"text": [
"bcr"
],
"offse... | [
{
"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"
]
}
] | [
{
"id": "PMC-1310901-00-TIAB_R1",
"type": "Coreference",
"arg1_id": "PMC-1310901-00-TIAB_T18",
"arg2_id": "PMC-1310901-00-TIAB_T4",
"normalized": []
}
] |
29 | PMC-2065877-27-Caption-Table_1 | [
{
"id": "PMC-2065877-27-Caption-Table_1__text",
"type": "abstract",
"text": [
"Summary of Analysis Performed on Wild-Type and LMP1 Transgenic Lymphomas"
],
"offsets": [
[
0,
72
]
]
}
] | [
{
"id": "PMC-2065877-27-Caption-Table_1_T1",
"type": "Protein",
"text": [
"LMP1"
],
"offsets": [
[
47,
51
]
],
"normalized": []
}
] | [
{
"id": "PMC-2065877-27-Caption-Table_1_E1",
"type": "Gene_expression",
"trigger": {
"text": [
"Transgenic"
],
"offsets": [
[
52,
62
]
]
},
"arguments": [
{
"role": "Theme",
"ref_id": "PMC-2065877-27-Captio... | [] | [] |
30 | PMC-3245220-15-Materials_and_Methods | [
{
"id": "PMC-3245220-15-Materials_and_Methods__text",
"type": "abstract",
"text": [
"Electrophoresis of the Mobility Shift Analysis (EMSA)\nNuclear extracts were isolated from MDMs by using a nuclear extraction kit according to the manufacturer's instruction from Active Motif (Carlsbad, CA). Brief... | [] | [] | [] | [] |
End of preview. Expand
in Data Studio
Dataset Card for BioNLP 2013 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
Citation Information
@inproceedings{kim-etal-2013-genia,
title = "The {G}enia Event Extraction Shared Task, 2013 Edition - Overview",
author = "Kim, Jin-Dong and
Wang, Yue and
Yasunori, Yamamoto",
booktitle = "Proceedings of the {B}io{NLP} Shared Task 2013 Workshop",
month = aug,
year = "2013",
address = "Sofia, Bulgaria",
publisher = "Association for Computational Linguistics",
url = "https://aclanthology.org/W13-2002",
pages = "8--15",
}
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