id
stringlengths 15
19
| document_id
stringlengths 15
19
| passages
list | entities
list | events
list | coreferences
list | relations
list |
|---|---|---|---|---|---|---|
split_0_train_4800
|
split_0_train_4800
|
[
{
"id": "split_0_train_4800_passage",
"type": "progene_text",
"text": [
"Expression of a lacZ reporter gene under the control of the copA promoter was approximately proportional to the concentration of cupric ions in the medium , but increased more rapidly in response to silver ion concentrations ."
],
"offsets": [
[
0,
226
]
]
}
] |
[
{
"id": "split_0_train_7654_entity",
"type": "progene_text",
"text": [
"lacZ"
],
"offsets": [
[
16,
20
]
],
"normalized": []
},
{
"id": "split_0_train_7655_entity",
"type": "progene_text",
"text": [
"copA"
],
"offsets": [
[
60,
64
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4801
|
split_0_train_4801
|
[
{
"id": "split_0_train_4801_passage",
"type": "progene_text",
"text": [
"The start of the copA transcript was located by primer extension mapping , and DNase I protection assays showed that the CueR protein binds in vitro to a dyad symmetrical sequence within a 19 bp spacer sequence in the copA promoter ."
],
"offsets": [
[
0,
233
]
]
}
] |
[
{
"id": "split_0_train_7656_entity",
"type": "progene_text",
"text": [
"copA"
],
"offsets": [
[
17,
21
]
],
"normalized": []
},
{
"id": "split_0_train_7657_entity",
"type": "progene_text",
"text": [
"DNase I"
],
"offsets": [
[
79,
86
]
],
"normalized": []
},
{
"id": "split_0_train_7658_entity",
"type": "progene_text",
"text": [
"CueR"
],
"offsets": [
[
121,
125
]
],
"normalized": []
},
{
"id": "split_0_train_7659_entity",
"type": "progene_text",
"text": [
"copA"
],
"offsets": [
[
218,
222
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4802
|
split_0_train_4802
|
[
{
"id": "split_0_train_4802_passage",
"type": "progene_text",
"text": [
"CueR binding occurs in vitro in both the presence and the absence of RNA polymerase with or without copper ions present but , in the presence of CueR , RNA polymerase and copper ions , permanganate - sensitive transcription complexes were formed ."
],
"offsets": [
[
0,
247
]
]
}
] |
[
{
"id": "split_0_train_7660_entity",
"type": "progene_text",
"text": [
"CueR"
],
"offsets": [
[
0,
4
]
],
"normalized": []
},
{
"id": "split_0_train_7661_entity",
"type": "progene_text",
"text": [
"RNA polymerase"
],
"offsets": [
[
69,
83
]
],
"normalized": []
},
{
"id": "split_0_train_7662_entity",
"type": "progene_text",
"text": [
"CueR"
],
"offsets": [
[
145,
149
]
],
"normalized": []
},
{
"id": "split_0_train_7663_entity",
"type": "progene_text",
"text": [
"RNA polymerase"
],
"offsets": [
[
152,
166
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4803
|
split_0_train_4803
|
[
{
"id": "split_0_train_4803_passage",
"type": "progene_text",
"text": [
"CueR is predicted to have an N - terminal helix - turn - helix sequence and shows similarity to MerR family regulators ."
],
"offsets": [
[
0,
120
]
]
}
] |
[
{
"id": "split_0_train_7664_entity",
"type": "progene_text",
"text": [
"CueR"
],
"offsets": [
[
0,
4
]
],
"normalized": []
},
{
"id": "split_0_train_7665_entity",
"type": "progene_text",
"text": [
"MerR family"
],
"offsets": [
[
96,
107
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4804
|
split_0_train_4804
|
[
{
"id": "split_0_train_4804_passage",
"type": "progene_text",
"text": [
"Effect of granulocyte - macrophage colony - stimulating factor on the generation of epidermal Langerhans cells ."
],
"offsets": [
[
0,
112
]
]
}
] |
[
{
"id": "split_0_train_7666_entity",
"type": "progene_text",
"text": [
"granulocyte - macrophage colony - stimulating factor"
],
"offsets": [
[
10,
62
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4805
|
split_0_train_4805
|
[
{
"id": "split_0_train_4805_passage",
"type": "progene_text",
"text": [
"The role of granulocyte - macrophage colony - stimulating factor ( GM-CSF ) and Flt3 ligand in the in vivo development of Langerhans cells ( LC ) was assessed , considering both the steady - state levels of LC in the epidermis and the rate of LC recovery after depletion following lipopolysaccharide ( LPS ) treatment ."
],
"offsets": [
[
0,
319
]
]
}
] |
[
{
"id": "split_0_train_7667_entity",
"type": "progene_text",
"text": [
"granulocyte - macrophage colony - stimulating factor"
],
"offsets": [
[
12,
64
]
],
"normalized": []
},
{
"id": "split_0_train_7668_entity",
"type": "progene_text",
"text": [
"GM-CSF"
],
"offsets": [
[
67,
73
]
],
"normalized": []
},
{
"id": "split_0_train_7669_entity",
"type": "progene_text",
"text": [
"Flt3 ligand"
],
"offsets": [
[
80,
91
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4806
|
split_0_train_4806
|
[
{
"id": "split_0_train_4806_passage",
"type": "progene_text",
"text": [
"The density of LC was determined by counting following IA - specific immunofluorescent staining of epidermal sections from mouse ears ."
],
"offsets": [
[
0,
135
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4807
|
split_0_train_4807
|
[
{
"id": "split_0_train_4807_passage",
"type": "progene_text",
"text": [
"LC levels were compared in beta common chain receptor null ( beta c ( -/- ) ) mice that fail to respond to GM-CSF interleukin-5 ( IL-5 ) , in GM-CSF transgenic mice with elevated GM-CSF levels , and in mice given daily injections of Flt3 ligand ."
],
"offsets": [
[
0,
246
]
]
}
] |
[
{
"id": "split_0_train_7670_entity",
"type": "progene_text",
"text": [
"beta common"
],
"offsets": [
[
27,
38
]
],
"normalized": []
},
{
"id": "split_0_train_7671_entity",
"type": "progene_text",
"text": [
"beta c"
],
"offsets": [
[
61,
67
]
],
"normalized": []
},
{
"id": "split_0_train_7672_entity",
"type": "progene_text",
"text": [
"GM-CSF"
],
"offsets": [
[
107,
113
]
],
"normalized": []
},
{
"id": "split_0_train_7673_entity",
"type": "progene_text",
"text": [
"interleukin-5"
],
"offsets": [
[
114,
127
]
],
"normalized": []
},
{
"id": "split_0_train_7674_entity",
"type": "progene_text",
"text": [
"IL-5"
],
"offsets": [
[
130,
134
]
],
"normalized": []
},
{
"id": "split_0_train_7675_entity",
"type": "progene_text",
"text": [
"GM-CSF"
],
"offsets": [
[
142,
148
]
],
"normalized": []
},
{
"id": "split_0_train_7676_entity",
"type": "progene_text",
"text": [
"GM-CSF"
],
"offsets": [
[
179,
185
]
],
"normalized": []
},
{
"id": "split_0_train_7677_entity",
"type": "progene_text",
"text": [
"Flt3 ligand"
],
"offsets": [
[
233,
244
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4808
|
split_0_train_4808
|
[
{
"id": "split_0_train_4808_passage",
"type": "progene_text",
"text": [
"In the steady state , LC levels were increased in GM-CSF transgenic mice and present at reduced levels in beta c ( -/- ) mice but unchanged in Flt3 ligand - injected mice ."
],
"offsets": [
[
0,
172
]
]
}
] |
[
{
"id": "split_0_train_7678_entity",
"type": "progene_text",
"text": [
"GM-CSF"
],
"offsets": [
[
50,
56
]
],
"normalized": []
},
{
"id": "split_0_train_7679_entity",
"type": "progene_text",
"text": [
"beta c"
],
"offsets": [
[
106,
112
]
],
"normalized": []
},
{
"id": "split_0_train_7680_entity",
"type": "progene_text",
"text": [
"Flt3 ligand"
],
"offsets": [
[
143,
154
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4809
|
split_0_train_4809
|
[
{
"id": "split_0_train_4809_passage",
"type": "progene_text",
"text": [
"Application of LPS to the ears of control BL/6 mice led to an approximately 70 % reduction in LC 4 days later , with recovery beginning by day 8 and a return to normal levels by 2 weeks ."
],
"offsets": [
[
0,
187
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4810
|
split_0_train_4810
|
[
{
"id": "split_0_train_4810_passage",
"type": "progene_text",
"text": [
"This recovery was significantly delayed in beta c ( -/- ) mice and unchanged in Flt3 ligand - injected mice ."
],
"offsets": [
[
0,
109
]
]
}
] |
[
{
"id": "split_0_train_7681_entity",
"type": "progene_text",
"text": [
"beta c"
],
"offsets": [
[
43,
49
]
],
"normalized": []
},
{
"id": "split_0_train_7682_entity",
"type": "progene_text",
"text": [
"Flt3 ligand"
],
"offsets": [
[
80,
91
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4811
|
split_0_train_4811
|
[
{
"id": "split_0_train_4811_passage",
"type": "progene_text",
"text": [
"These results suggest that GM-CSF ( but not Flt3 ligand ) enhances recruitment / maturation of LC even though GM-CSF is not essential for their formation ."
],
"offsets": [
[
0,
155
]
]
}
] |
[
{
"id": "split_0_train_7683_entity",
"type": "progene_text",
"text": [
"GM-CSF"
],
"offsets": [
[
27,
33
]
],
"normalized": []
},
{
"id": "split_0_train_7684_entity",
"type": "progene_text",
"text": [
"Flt3 ligand"
],
"offsets": [
[
44,
55
]
],
"normalized": []
},
{
"id": "split_0_train_7685_entity",
"type": "progene_text",
"text": [
"GM-CSF"
],
"offsets": [
[
110,
116
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4812
|
split_0_train_4812
|
[
{
"id": "split_0_train_4812_passage",
"type": "progene_text",
"text": [
"IFN-gamma regulation of class II transactivator promoter IV in macrophages and microglia : involvement of the suppressors of cytokine signaling - 1 protein ."
],
"offsets": [
[
0,
157
]
]
}
] |
[
{
"id": "split_0_train_7686_entity",
"type": "progene_text",
"text": [
"IFN-gamma"
],
"offsets": [
[
0,
9
]
],
"normalized": []
},
{
"id": "split_0_train_7687_entity",
"type": "progene_text",
"text": [
"class II transactivator"
],
"offsets": [
[
24,
47
]
],
"normalized": []
},
{
"id": "split_0_train_7688_entity",
"type": "progene_text",
"text": [
"suppressors of cytokine signaling - 1"
],
"offsets": [
[
110,
147
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4813
|
split_0_train_4813
|
[
{
"id": "split_0_train_4813_passage",
"type": "progene_text",
"text": [
"The discovery of the class II transactivator ( CIITA ) transcription factor , and its IFN-gamma - activated promoter ( promoter IV ) , have provided new opportunities to understand the molecular mechanisms of IFN-gamma - induced class II MHC expression ."
],
"offsets": [
[
0,
254
]
]
}
] |
[
{
"id": "split_0_train_7689_entity",
"type": "progene_text",
"text": [
"class II transactivator"
],
"offsets": [
[
21,
44
]
],
"normalized": []
},
{
"id": "split_0_train_7690_entity",
"type": "progene_text",
"text": [
"CIITA"
],
"offsets": [
[
47,
52
]
],
"normalized": []
},
{
"id": "split_0_train_7691_entity",
"type": "progene_text",
"text": [
"transcription factor"
],
"offsets": [
[
55,
75
]
],
"normalized": []
},
{
"id": "split_0_train_7692_entity",
"type": "progene_text",
"text": [
"IFN-gamma"
],
"offsets": [
[
86,
95
]
],
"normalized": []
},
{
"id": "split_0_train_7693_entity",
"type": "progene_text",
"text": [
"IFN-gamma"
],
"offsets": [
[
209,
218
]
],
"normalized": []
},
{
"id": "split_0_train_7694_entity",
"type": "progene_text",
"text": [
"class II MHC"
],
"offsets": [
[
229,
241
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4814
|
split_0_train_4814
|
[
{
"id": "split_0_train_4814_passage",
"type": "progene_text",
"text": [
"Here , we investigated the molecular regulation of IFN-gamma - induced murine CIITA promoter IV activity in microglia / macrophages ."
],
"offsets": [
[
0,
133
]
]
}
] |
[
{
"id": "split_0_train_7695_entity",
"type": "progene_text",
"text": [
"IFN-gamma"
],
"offsets": [
[
51,
60
]
],
"normalized": []
},
{
"id": "split_0_train_7696_entity",
"type": "progene_text",
"text": [
"CIITA"
],
"offsets": [
[
78,
83
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4815
|
split_0_train_4815
|
[
{
"id": "split_0_train_4815_passage",
"type": "progene_text",
"text": [
"In the macrophage cell line RAW264.7 , IFN-gamma inducibility of CIITA promoter IV is dependent on an IFN-gamma activation sequence ( GAS ) element and adjacent E - Box , and an IFN response factor ( IRF ) element , all within 196 bp of the transcription start site ."
],
"offsets": [
[
0,
267
]
]
}
] |
[
{
"id": "split_0_train_7697_entity",
"type": "progene_text",
"text": [
"IFN-gamma"
],
"offsets": [
[
39,
48
]
],
"normalized": []
},
{
"id": "split_0_train_7698_entity",
"type": "progene_text",
"text": [
"CIITA"
],
"offsets": [
[
65,
70
]
],
"normalized": []
},
{
"id": "split_0_train_7699_entity",
"type": "progene_text",
"text": [
"IFN-gamma"
],
"offsets": [
[
102,
111
]
],
"normalized": []
},
{
"id": "split_0_train_7700_entity",
"type": "progene_text",
"text": [
"IFN response factor"
],
"offsets": [
[
178,
197
]
],
"normalized": []
},
{
"id": "split_0_train_7701_entity",
"type": "progene_text",
"text": [
"IRF"
],
"offsets": [
[
200,
203
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4816
|
split_0_train_4816
|
[
{
"id": "split_0_train_4816_passage",
"type": "progene_text",
"text": [
"In both RAW cells and the microglia cell line EOC20 , two IFN-gamma - activated transcription factors , STAT - 1alpha and IRF-1 , bind the GAS and IRF elements , respectively ."
],
"offsets": [
[
0,
176
]
]
}
] |
[
{
"id": "split_0_train_7702_entity",
"type": "progene_text",
"text": [
"IFN-gamma"
],
"offsets": [
[
58,
67
]
],
"normalized": []
},
{
"id": "split_0_train_7703_entity",
"type": "progene_text",
"text": [
"transcription factors"
],
"offsets": [
[
80,
101
]
],
"normalized": []
},
{
"id": "split_0_train_7704_entity",
"type": "progene_text",
"text": [
"STAT - 1alpha"
],
"offsets": [
[
104,
117
]
],
"normalized": []
},
{
"id": "split_0_train_7705_entity",
"type": "progene_text",
"text": [
"IRF-1"
],
"offsets": [
[
122,
127
]
],
"normalized": []
},
{
"id": "split_0_train_7706_entity",
"type": "progene_text",
"text": [
"IRF"
],
"offsets": [
[
147,
150
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4817
|
split_0_train_4817
|
[
{
"id": "split_0_train_4817_passage",
"type": "progene_text",
"text": [
"The E-Box binds upstream stimulating factor-1 ( USF-1 ) , a constitutively expressed transcription factor ."
],
"offsets": [
[
0,
107
]
]
}
] |
[
{
"id": "split_0_train_7707_entity",
"type": "progene_text",
"text": [
"upstream stimulating factor-1"
],
"offsets": [
[
16,
45
]
],
"normalized": []
},
{
"id": "split_0_train_7708_entity",
"type": "progene_text",
"text": [
"USF-1"
],
"offsets": [
[
48,
53
]
],
"normalized": []
},
{
"id": "split_0_train_7709_entity",
"type": "progene_text",
"text": [
"transcription factor"
],
"offsets": [
[
85,
105
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4818
|
split_0_train_4818
|
[
{
"id": "split_0_train_4818_passage",
"type": "progene_text",
"text": [
"Functionally , the GAS , E - Box , and IRF elements are each essential for IFN-gamma - induced CIITA promoter IV activity ."
],
"offsets": [
[
0,
123
]
]
}
] |
[
{
"id": "split_0_train_7710_entity",
"type": "progene_text",
"text": [
"IRF"
],
"offsets": [
[
39,
42
]
],
"normalized": []
},
{
"id": "split_0_train_7711_entity",
"type": "progene_text",
"text": [
"IFN-gamma"
],
"offsets": [
[
75,
84
]
],
"normalized": []
},
{
"id": "split_0_train_7712_entity",
"type": "progene_text",
"text": [
"CIITA"
],
"offsets": [
[
95,
100
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4819
|
split_0_train_4819
|
[
{
"id": "split_0_train_4819_passage",
"type": "progene_text",
"text": [
"The effects of the suppressors of cytokine signaling-1 ( SOCS-1 ) protein on IFN-gamma - induced CIITA and class II MHC expression were examined ."
],
"offsets": [
[
0,
146
]
]
}
] |
[
{
"id": "split_0_train_7713_entity",
"type": "progene_text",
"text": [
"suppressors of cytokine signaling-1"
],
"offsets": [
[
19,
54
]
],
"normalized": []
},
{
"id": "split_0_train_7714_entity",
"type": "progene_text",
"text": [
"SOCS-1"
],
"offsets": [
[
57,
63
]
],
"normalized": []
},
{
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] |
[] |
[] |
[] |
split_0_train_4820
|
split_0_train_4820
|
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}
] |
[] |
[] |
[] |
split_0_train_4821
|
split_0_train_4821
|
[
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}
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164,
169
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}
] |
[] |
[] |
[] |
split_0_train_4822
|
split_0_train_4822
|
[
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}
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73,
76
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}
] |
[] |
[] |
[] |
split_0_train_4823
|
split_0_train_4823
|
[
{
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"type": "progene_text",
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"These results indicate that SOCS-1 may be responsible for attenuating IFN-gamma - induced CIITA and class II MHC expression in macrophages ."
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0,
140
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}
] |
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100,
112
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}
] |
[] |
[] |
[] |
split_0_train_4824
|
split_0_train_4824
|
[
{
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"type": "progene_text",
"text": [
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}
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[
{
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"text": [
"CD4"
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70,
73
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}
] |
[] |
[] |
[] |
split_0_train_4825
|
split_0_train_4825
|
[
{
"id": "split_0_train_4825_passage",
"type": "progene_text",
"text": [
"Recombinant human interleukin-11 ( rHuIL-11 ) is a pleiotropic cytokine with effects on multiple cell types ."
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0,
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}
] |
[
{
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"text": [
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63,
71
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}
] |
[] |
[] |
[] |
split_0_train_4826
|
split_0_train_4826
|
[
{
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"type": "progene_text",
"text": [
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0,
184
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}
] |
[
{
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"text": [
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147,
156
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}
] |
[] |
[] |
[] |
split_0_train_4827
|
split_0_train_4827
|
[
{
"id": "split_0_train_4827_passage",
"type": "progene_text",
"text": [
"In vitro and in vivo , rHuIL-11 inhibits production of key immunostimulatory cytokines , including IL-12 and interferon-gamma ( IFN-gamma ) ."
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0,
141
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}
] |
[
{
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"text": [
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128,
137
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}
] |
[] |
[] |
[] |
split_0_train_4828
|
split_0_train_4828
|
[
{
"id": "split_0_train_4828_passage",
"type": "progene_text",
"text": [
"rHuIL-11 has recently demonstrated immunomodulatory activity to downregulate IFN-gamma production , increase IL-4 production , and reduce inflammatory tissue injury in a human psoriasis clinical trial ."
],
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0,
202
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]
}
] |
[
{
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{
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"type": "progene_text",
"text": [
"IL-4"
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109,
113
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],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4829
|
split_0_train_4829
|
[
{
"id": "split_0_train_4829_passage",
"type": "progene_text",
"text": [
"The cellular mechanisms of these effects are not fully elucidated ."
],
"offsets": [
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0,
67
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]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4830
|
split_0_train_4830
|
[
{
"id": "split_0_train_4830_passage",
"type": "progene_text",
"text": [
"We demonstrate here that expression of gp130 and IL-11 receptor ( IL-11R ) alpha mRNA , components of the IL-11R complex , are detected in human and murine CD4 ( + ) and CD8 ( + ) lymphocytes , suggesting that rHuIL-11 can directly interact with T cells ."
],
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255
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}
] |
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"text": [
"rHuIL-11"
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[
210,
218
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],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4831
|
split_0_train_4831
|
[
{
"id": "split_0_train_4831_passage",
"type": "progene_text",
"text": [
"In a cell culture model of murine T cell differentiation , rHuIL-11 acts to inhibit IL-2 production as well as IL-12 - induced IFN-gamma production and enhances IL-4 and IL-10 production ."
],
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0,
188
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}
] |
[
{
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"text": [
"IL-10"
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170,
175
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],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4832
|
split_0_train_4832
|
[
{
"id": "split_0_train_4832_passage",
"type": "progene_text",
"text": [
"rHuIL-11 had no effect on T cell proliferation ."
],
"offsets": [
[
0,
48
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]
}
] |
[
{
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"type": "progene_text",
"text": [
"rHuIL-11"
],
"offsets": [
[
0,
8
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4833
|
split_0_train_4833
|
[
{
"id": "split_0_train_4833_passage",
"type": "progene_text",
"text": [
"The ability of rHuIL-11 to modulate cytokine production from activated CD4 ( + ) T cells provides a mechanism through which rHuIL-11 may ameliorate such inflammatory diseases as psoriasis ."
],
"offsets": [
[
0,
189
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]
}
] |
[
{
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"text": [
"rHuIL-11"
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[
124,
132
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],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4834
|
split_0_train_4834
|
[
{
"id": "split_0_train_4834_passage",
"type": "progene_text",
"text": [
"Immunogold labeling of Hrp pili of Pseudomonas syringae pv. tomato assembled in minimal medium and in planta ."
],
"offsets": [
[
0,
110
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]
}
] |
[
{
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"type": "progene_text",
"text": [
"Hrp"
],
"offsets": [
[
23,
26
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],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4835
|
split_0_train_4835
|
[
{
"id": "split_0_train_4835_passage",
"type": "progene_text",
"text": [
"Hypersensitive reaction and pathogenicity ( hrp ) genes are required for Pseudomonas syringae pv. tomato ( Pst ) DC3000 to cause disease in susceptible tomato and Arabidopsis thaliana plants and to elicit the hypersensitive response in resistant plants ."
],
"offsets": [
[
0,
254
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]
}
] |
[
{
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"type": "progene_text",
"text": [
"hrp"
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"offsets": [
[
44,
47
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4836
|
split_0_train_4836
|
[
{
"id": "split_0_train_4836_passage",
"type": "progene_text",
"text": [
"The hrp genes encode a type III protein secretion system known as the Hrp system , which in Pst DC3000 secretes HrpA , HrpZ , HrpW , and AvrPto and assembles a surface appendage , named the Hrp pilus , in hrp - gene - inducing minimal medium ."
],
"offsets": [
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0,
243
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]
}
] |
[
{
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112,
116
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{
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119,
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{
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{
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143
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{
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190,
193
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{
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"type": "progene_text",
"text": [
"hrp"
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"offsets": [
[
205,
208
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],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4837
|
split_0_train_4837
|
[
{
"id": "split_0_train_4837_passage",
"type": "progene_text",
"text": [
"HrpA has been suggested to be the Hrp pilus structural protein on the basis of copurification and mutational analyses ."
],
"offsets": [
[
0,
119
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]
}
] |
[
{
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0,
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{
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"type": "progene_text",
"text": [
"Hrp"
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"offsets": [
[
34,
37
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4838
|
split_0_train_4838
|
[
{
"id": "split_0_train_4838_passage",
"type": "progene_text",
"text": [
"In this study , we show that an antibody against HrpA efficiently labeled Hrp pili , whereas antibodies against HrpW and HrpZ did not ."
],
"offsets": [
[
0,
135
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]
}
] |
[
{
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49,
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{
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74,
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},
{
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"type": "progene_text",
"text": [
"HrpW"
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112,
116
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},
{
"id": "split_0_train_7782_entity",
"type": "progene_text",
"text": [
"HrpZ"
],
"offsets": [
[
121,
125
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4839
|
split_0_train_4839
|
[
{
"id": "split_0_train_4839_passage",
"type": "progene_text",
"text": [
"Immunogold labeling of bacteria - infected Arabidopsis thaliana leaf tissue with an Hrp pilus antibody revealed a characteristic lineup of gold particles around bacteria and/or at the bacterium - plant contact site ."
],
"offsets": [
[
0,
216
]
]
}
] |
[
{
"id": "split_0_train_7783_entity",
"type": "progene_text",
"text": [
"Hrp"
],
"offsets": [
[
84,
87
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4840
|
split_0_train_4840
|
[
{
"id": "split_0_train_4840_passage",
"type": "progene_text",
"text": [
"These results confirm that HrpA is the major structural protein of the Hrp pilus and provide evidence that Hrp pili are assembled in vitro and in planta ."
],
"offsets": [
[
0,
154
]
]
}
] |
[
{
"id": "split_0_train_7784_entity",
"type": "progene_text",
"text": [
"HrpA"
],
"offsets": [
[
27,
31
]
],
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},
{
"id": "split_0_train_7785_entity",
"type": "progene_text",
"text": [
"Hrp"
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71,
74
]
],
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},
{
"id": "split_0_train_7786_entity",
"type": "progene_text",
"text": [
"Hrp"
],
"offsets": [
[
107,
110
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4841
|
split_0_train_4841
|
[
{
"id": "split_0_train_4841_passage",
"type": "progene_text",
"text": [
"Petunia Ap2 - like genes and their role in flower and seed development ."
],
"offsets": [
[
0,
72
]
]
}
] |
[
{
"id": "split_0_train_7787_entity",
"type": "progene_text",
"text": [
"Ap2"
],
"offsets": [
[
8,
11
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4842
|
split_0_train_4842
|
[
{
"id": "split_0_train_4842_passage",
"type": "progene_text",
"text": [
"We have isolated three Apetala2 (Ap2) - like genes from petunia and studied their expression patterns by in situ hybridization ."
],
"offsets": [
[
0,
128
]
]
}
] |
[
{
"id": "split_0_train_7788_entity",
"type": "progene_text",
"text": [
"Apetala2"
],
"offsets": [
[
23,
31
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],
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},
{
"id": "split_0_train_7789_entity",
"type": "progene_text",
"text": [
"(Ap2)"
],
"offsets": [
[
32,
37
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4843
|
split_0_train_4843
|
[
{
"id": "split_0_train_4843_passage",
"type": "progene_text",
"text": [
"PhAp2A has a high sequence similarity to the A function gene Ap2 from Arabidopsis and a similar expression pattern during flower development , suggesting that they are cognate orthologs ."
],
"offsets": [
[
0,
187
]
]
}
] |
[
{
"id": "split_0_train_7790_entity",
"type": "progene_text",
"text": [
"PhAp2A"
],
"offsets": [
[
0,
6
]
],
"normalized": []
},
{
"id": "split_0_train_7791_entity",
"type": "progene_text",
"text": [
"Ap2"
],
"offsets": [
[
61,
64
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4844
|
split_0_train_4844
|
[
{
"id": "split_0_train_4844_passage",
"type": "progene_text",
"text": [
"PhAp2B and PhAp2C encode for AP2 - like proteins that belong to a different subgroup of the AP2 family of transcription factors and exhibit divergent , nearly complementary expression patterns during flower development compared with PhAp2A ."
],
"offsets": [
[
0,
241
]
]
}
] |
[
{
"id": "split_0_train_7792_entity",
"type": "progene_text",
"text": [
"PhAp2B"
],
"offsets": [
[
0,
6
]
],
"normalized": []
},
{
"id": "split_0_train_7793_entity",
"type": "progene_text",
"text": [
"PhAp2C"
],
"offsets": [
[
11,
17
]
],
"normalized": []
},
{
"id": "split_0_train_7794_entity",
"type": "progene_text",
"text": [
"AP2"
],
"offsets": [
[
29,
32
]
],
"normalized": []
},
{
"id": "split_0_train_7795_entity",
"type": "progene_text",
"text": [
"AP2 family of transcription factors"
],
"offsets": [
[
92,
127
]
],
"normalized": []
},
{
"id": "split_0_train_7796_entity",
"type": "progene_text",
"text": [
"PhAp2A"
],
"offsets": [
[
233,
239
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4845
|
split_0_train_4845
|
[
{
"id": "split_0_train_4845_passage",
"type": "progene_text",
"text": [
"In contrast , all three PhAp2 genes are strongly expressed in endosperm ."
],
"offsets": [
[
0,
73
]
]
}
] |
[
{
"id": "split_0_train_7797_entity",
"type": "progene_text",
"text": [
"PhAp2"
],
"offsets": [
[
24,
29
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4846
|
split_0_train_4846
|
[
{
"id": "split_0_train_4846_passage",
"type": "progene_text",
"text": [
"The phenotype of the petunia A - type mutant blind cannot be attributed to mutations in the petunia Ap2 homologs identified in this study , and reverse genetics strategies applied to identify phap2a mutants indicate that PhAp2A might not be essential for normal perianth development in petunia ."
],
"offsets": [
[
0,
295
]
]
}
] |
[
{
"id": "split_0_train_7798_entity",
"type": "progene_text",
"text": [
"Ap2"
],
"offsets": [
[
100,
103
]
],
"normalized": []
},
{
"id": "split_0_train_7799_entity",
"type": "progene_text",
"text": [
"phap2a"
],
"offsets": [
[
192,
198
]
],
"normalized": []
},
{
"id": "split_0_train_7800_entity",
"type": "progene_text",
"text": [
"PhAp2A"
],
"offsets": [
[
221,
227
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4847
|
split_0_train_4847
|
[
{
"id": "split_0_train_4847_passage",
"type": "progene_text",
"text": [
"Nevertheless , we show that PhAp2A is capable of restoring the homeotic transformations observed in flowers and seed of the ap2-1 mutant of Arabidopsis ."
],
"offsets": [
[
0,
153
]
]
}
] |
[
{
"id": "split_0_train_7801_entity",
"type": "progene_text",
"text": [
"PhAp2A"
],
"offsets": [
[
28,
34
]
],
"normalized": []
},
{
"id": "split_0_train_7802_entity",
"type": "progene_text",
"text": [
"ap2-1"
],
"offsets": [
[
124,
129
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4848
|
split_0_train_4848
|
[
{
"id": "split_0_train_4848_passage",
"type": "progene_text",
"text": [
"Although the interspecific complementation proves that PhAp2A encodes a genuine Ap2 ortholog from petunia , additional factors may be involved in the control of perianth identity in this species ."
],
"offsets": [
[
0,
196
]
]
}
] |
[
{
"id": "split_0_train_7803_entity",
"type": "progene_text",
"text": [
"PhAp2A"
],
"offsets": [
[
55,
61
]
],
"normalized": []
},
{
"id": "split_0_train_7804_entity",
"type": "progene_text",
"text": [
"Ap2"
],
"offsets": [
[
80,
83
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4849
|
split_0_train_4849
|
[
{
"id": "split_0_train_4849_passage",
"type": "progene_text",
"text": [
"Arp2 / 3 complex and actin dynamics are required for actin - based mitochondrial motility in yeast ."
],
"offsets": [
[
0,
100
]
]
}
] |
[
{
"id": "split_0_train_7805_entity",
"type": "progene_text",
"text": [
"Arp2 / 3 complex"
],
"offsets": [
[
0,
16
]
],
"normalized": []
},
{
"id": "split_0_train_7806_entity",
"type": "progene_text",
"text": [
"actin"
],
"offsets": [
[
21,
26
]
],
"normalized": []
},
{
"id": "split_0_train_7807_entity",
"type": "progene_text",
"text": [
"actin"
],
"offsets": [
[
53,
58
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4850
|
split_0_train_4850
|
[
{
"id": "split_0_train_4850_passage",
"type": "progene_text",
"text": [
"The Arp2 / 3 complex is implicated in actin polymerization - driven movement of Listeria monocytogenes ."
],
"offsets": [
[
0,
104
]
]
}
] |
[
{
"id": "split_0_train_7808_entity",
"type": "progene_text",
"text": [
"Arp2 / 3 complex"
],
"offsets": [
[
4,
20
]
],
"normalized": []
},
{
"id": "split_0_train_7809_entity",
"type": "progene_text",
"text": [
"actin"
],
"offsets": [
[
38,
43
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4851
|
split_0_train_4851
|
[
{
"id": "split_0_train_4851_passage",
"type": "progene_text",
"text": [
"Here , we find that Arp2p and Arc15p , two subunits of this complex , show tight , actin - independent association with isolated yeast mitochondria ."
],
"offsets": [
[
0,
149
]
]
}
] |
[
{
"id": "split_0_train_7810_entity",
"type": "progene_text",
"text": [
"Arp2p"
],
"offsets": [
[
20,
25
]
],
"normalized": []
},
{
"id": "split_0_train_7811_entity",
"type": "progene_text",
"text": [
"Arc15p"
],
"offsets": [
[
30,
36
]
],
"normalized": []
},
{
"id": "split_0_train_7812_entity",
"type": "progene_text",
"text": [
"actin"
],
"offsets": [
[
83,
88
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4852
|
split_0_train_4852
|
[
{
"id": "split_0_train_4852_passage",
"type": "progene_text",
"text": [
"Arp2p colocalizes with mitochondria ."
],
"offsets": [
[
0,
37
]
]
}
] |
[
{
"id": "split_0_train_7813_entity",
"type": "progene_text",
"text": [
"Arp2p"
],
"offsets": [
[
0,
5
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4853
|
split_0_train_4853
|
[
{
"id": "split_0_train_4853_passage",
"type": "progene_text",
"text": [
"Consistent with this result , we detect Arp2p - dependent formation of actin clouds around mitochondria in intact yeast ."
],
"offsets": [
[
0,
121
]
]
}
] |
[
{
"id": "split_0_train_7814_entity",
"type": "progene_text",
"text": [
"Arp2p"
],
"offsets": [
[
40,
45
]
],
"normalized": []
},
{
"id": "split_0_train_7815_entity",
"type": "progene_text",
"text": [
"actin"
],
"offsets": [
[
71,
76
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4854
|
split_0_train_4854
|
[
{
"id": "split_0_train_4854_passage",
"type": "progene_text",
"text": [
"Cells bearing mutations in ARP2 or ARC15 genes show decreased velocities of mitochondrial movement , loss of all directed movement and defects in mitochondrial morphology ."
],
"offsets": [
[
0,
172
]
]
}
] |
[
{
"id": "split_0_train_7816_entity",
"type": "progene_text",
"text": [
"ARP2"
],
"offsets": [
[
27,
31
]
],
"normalized": []
},
{
"id": "split_0_train_7817_entity",
"type": "progene_text",
"text": [
"ARC15"
],
"offsets": [
[
35,
40
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4855
|
split_0_train_4855
|
[
{
"id": "split_0_train_4855_passage",
"type": "progene_text",
"text": [
"Finally , we observe a decrease in the velocity and extent of mitochondrial movement in yeast in which actin dynamics are reduced but actin cytoskeletal structure is intact ."
],
"offsets": [
[
0,
174
]
]
}
] |
[
{
"id": "split_0_train_7818_entity",
"type": "progene_text",
"text": [
"actin"
],
"offsets": [
[
103,
108
]
],
"normalized": []
},
{
"id": "split_0_train_7819_entity",
"type": "progene_text",
"text": [
"actin"
],
"offsets": [
[
134,
139
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4856
|
split_0_train_4856
|
[
{
"id": "split_0_train_4856_passage",
"type": "progene_text",
"text": [
"These results support the idea that the movement of mitochondria in yeast is actin polymerization driven and that this movement requires Arp2 / 3 complex ."
],
"offsets": [
[
0,
155
]
]
}
] |
[
{
"id": "split_0_train_7820_entity",
"type": "progene_text",
"text": [
"actin"
],
"offsets": [
[
77,
82
]
],
"normalized": []
},
{
"id": "split_0_train_7821_entity",
"type": "progene_text",
"text": [
"Arp2 / 3 complex"
],
"offsets": [
[
137,
153
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4857
|
split_0_train_4857
|
[
{
"id": "split_0_train_4857_passage",
"type": "progene_text",
"text": [
"Brachytelephalangic dwarfism due to the loss of ARSE and SHOX genes resulting from an X ; Y translocation ."
],
"offsets": [
[
0,
107
]
]
}
] |
[
{
"id": "split_0_train_7822_entity",
"type": "progene_text",
"text": [
"ARSE"
],
"offsets": [
[
48,
52
]
],
"normalized": []
},
{
"id": "split_0_train_7823_entity",
"type": "progene_text",
"text": [
"SHOX"
],
"offsets": [
[
57,
61
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4858
|
split_0_train_4858
|
[
{
"id": "split_0_train_4858_passage",
"type": "progene_text",
"text": [
"Here we report an 8 - year - old male patient who had mesomelic shortening of forearms and legs , brachytelephalangia and ichthyotic skin lesions ."
],
"offsets": [
[
0,
147
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4859
|
split_0_train_4859
|
[
{
"id": "split_0_train_4859_passage",
"type": "progene_text",
"text": [
"Chromosomal analysis showed an X ; Y translocation involving the short arm of the X chromosome ( Xp ) ."
],
"offsets": [
[
0,
103
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4860
|
split_0_train_4860
|
[
{
"id": "split_0_train_4860_passage",
"type": "progene_text",
"text": [
"Fluorescence in situ hybridization ( FISH ) and molecular studies localized the breakpoints on Xp22.3 in the immediate vicinity of the KAL gene demonstrating deletions of steroid sulfatase ( STS ) , arylsulfatase E ( ARSE ) , and short stature homeo box ( SHOX ) genes ."
],
"offsets": [
[
0,
270
]
]
}
] |
[
{
"id": "split_0_train_7824_entity",
"type": "progene_text",
"text": [
"KAL"
],
"offsets": [
[
135,
138
]
],
"normalized": []
},
{
"id": "split_0_train_7825_entity",
"type": "progene_text",
"text": [
"steroid sulfatase"
],
"offsets": [
[
171,
188
]
],
"normalized": []
},
{
"id": "split_0_train_7826_entity",
"type": "progene_text",
"text": [
"STS"
],
"offsets": [
[
191,
194
]
],
"normalized": []
},
{
"id": "split_0_train_7827_entity",
"type": "progene_text",
"text": [
"arylsulfatase E"
],
"offsets": [
[
199,
214
]
],
"normalized": []
},
{
"id": "split_0_train_7828_entity",
"type": "progene_text",
"text": [
"ARSE"
],
"offsets": [
[
217,
221
]
],
"normalized": []
},
{
"id": "split_0_train_7829_entity",
"type": "progene_text",
"text": [
"short stature homeo box"
],
"offsets": [
[
230,
253
]
],
"normalized": []
},
{
"id": "split_0_train_7830_entity",
"type": "progene_text",
"text": [
"SHOX"
],
"offsets": [
[
256,
260
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4861
|
split_0_train_4861
|
[
{
"id": "split_0_train_4861_passage",
"type": "progene_text",
"text": [
"It was suspected that the patient was suffering from chondrodysplasia punctata because of a loss of the arylsulfatase E ( ARSE ) gene ."
],
"offsets": [
[
0,
135
]
]
}
] |
[
{
"id": "split_0_train_7831_entity",
"type": "progene_text",
"text": [
"arylsulfatase E"
],
"offsets": [
[
104,
119
]
],
"normalized": []
},
{
"id": "split_0_train_7832_entity",
"type": "progene_text",
"text": [
"ARSE"
],
"offsets": [
[
122,
126
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4862
|
split_0_train_4862
|
[
{
"id": "split_0_train_4862_passage",
"type": "progene_text",
"text": [
"However , no stippled epiphyses were to be seen in the neonatal radiograph ."
],
"offsets": [
[
0,
76
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4863
|
split_0_train_4863
|
[
{
"id": "split_0_train_4863_passage",
"type": "progene_text",
"text": [
"Interestingly , this patient is the first case with a proven loss of the ARSE gene without chondrodysplasia punctata , assuming that chondrodysplasia punctata is not an obligatory sign of ARSE gene loss ."
],
"offsets": [
[
0,
204
]
]
}
] |
[
{
"id": "split_0_train_7833_entity",
"type": "progene_text",
"text": [
"ARSE"
],
"offsets": [
[
73,
77
]
],
"normalized": []
},
{
"id": "split_0_train_7834_entity",
"type": "progene_text",
"text": [
"ARSE"
],
"offsets": [
[
188,
192
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4864
|
split_0_train_4864
|
[
{
"id": "split_0_train_4864_passage",
"type": "progene_text",
"text": [
"Brachytelephalangia was the only result of ARSE gene deletion in this case ."
],
"offsets": [
[
0,
76
]
]
}
] |
[
{
"id": "split_0_train_7835_entity",
"type": "progene_text",
"text": [
"ARSE"
],
"offsets": [
[
43,
47
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4865
|
split_0_train_4865
|
[
{
"id": "split_0_train_4865_passage",
"type": "progene_text",
"text": [
"The patient 's mother also had dwarfism and showed Madelung deformity of the forearms ."
],
"offsets": [
[
0,
87
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4866
|
split_0_train_4866
|
[
{
"id": "split_0_train_4866_passage",
"type": "progene_text",
"text": [
"She was detected as a carrier of the same aberrant X chromosome ."
],
"offsets": [
[
0,
65
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4867
|
split_0_train_4867
|
[
{
"id": "split_0_train_4867_passage",
"type": "progene_text",
"text": [
"The male patient did not show Madelung deformity , demonstrating that Lerri - Weill syndrome phenotype may be still incomplete in children with SHOX gene deletion ."
],
"offsets": [
[
0,
164
]
]
}
] |
[
{
"id": "split_0_train_7836_entity",
"type": "progene_text",
"text": [
"SHOX"
],
"offsets": [
[
144,
148
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4868
|
split_0_train_4868
|
[
{
"id": "split_0_train_4868_passage",
"type": "progene_text",
"text": [
"The wide clinical spectrum in the male and the Leri - Weill phenotype in his mother are the results of both a deletion involving several sulfatase genes in Xp22.3 and the SHOX gene located in the pseudoautosomal region ."
],
"offsets": [
[
0,
220
]
]
}
] |
[
{
"id": "split_0_train_7837_entity",
"type": "progene_text",
"text": [
"sulfatase"
],
"offsets": [
[
137,
146
]
],
"normalized": []
},
{
"id": "split_0_train_7838_entity",
"type": "progene_text",
"text": [
"SHOX"
],
"offsets": [
[
171,
175
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4869
|
split_0_train_4869
|
[
{
"id": "split_0_train_4869_passage",
"type": "progene_text",
"text": [
"Nevertheless , there is no explanation for the absence of chondrodysplasia punctata despite the total loss of the ARSE gene ."
],
"offsets": [
[
0,
125
]
]
}
] |
[
{
"id": "split_0_train_7839_entity",
"type": "progene_text",
"text": [
"ARSE"
],
"offsets": [
[
114,
118
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4870
|
split_0_train_4870
|
[
{
"id": "split_0_train_4870_passage",
"type": "progene_text",
"text": [
"Further studies are necessary to investigate genotype / phenotype correlation in cases with translocations or microdeletions on Xp22.3 , including the ARSE and the SHOX gene loci ."
],
"offsets": [
[
0,
180
]
]
}
] |
[
{
"id": "split_0_train_7840_entity",
"type": "progene_text",
"text": [
"ARSE"
],
"offsets": [
[
151,
155
]
],
"normalized": []
},
{
"id": "split_0_train_7841_entity",
"type": "progene_text",
"text": [
"SHOX"
],
"offsets": [
[
164,
168
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4871
|
split_0_train_4871
|
[
{
"id": "split_0_train_4871_passage",
"type": "progene_text",
"text": [
"Aberrant expression of human mucin gene MUC5B in gastric carcinoma and cancer cells ."
],
"offsets": [
[
0,
85
]
]
}
] |
[
{
"id": "split_0_train_7842_entity",
"type": "progene_text",
"text": [
"mucin"
],
"offsets": [
[
29,
34
]
],
"normalized": []
},
{
"id": "split_0_train_7843_entity",
"type": "progene_text",
"text": [
"MUC5B"
],
"offsets": [
[
40,
45
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4872
|
split_0_train_4872
|
[
{
"id": "split_0_train_4872_passage",
"type": "progene_text",
"text": [
"Identification and regulation of a distal promoter ."
],
"offsets": [
[
0,
52
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4873
|
split_0_train_4873
|
[
{
"id": "split_0_train_4873_passage",
"type": "progene_text",
"text": [
"In gastric cancer , altered expression of MUC1 , MUC2 , MUC5AC , and MUC6 mucin genes has already been described ."
],
"offsets": [
[
0,
114
]
]
}
] |
[
{
"id": "split_0_train_7844_entity",
"type": "progene_text",
"text": [
"MUC1"
],
"offsets": [
[
42,
46
]
],
"normalized": []
},
{
"id": "split_0_train_7845_entity",
"type": "progene_text",
"text": [
"MUC2"
],
"offsets": [
[
49,
53
]
],
"normalized": []
},
{
"id": "split_0_train_7846_entity",
"type": "progene_text",
"text": [
"MUC5AC"
],
"offsets": [
[
56,
62
]
],
"normalized": []
},
{
"id": "split_0_train_7847_entity",
"type": "progene_text",
"text": [
"MUC6"
],
"offsets": [
[
69,
73
]
],
"normalized": []
},
{
"id": "split_0_train_7848_entity",
"type": "progene_text",
"text": [
"mucin"
],
"offsets": [
[
74,
79
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4874
|
split_0_train_4874
|
[
{
"id": "split_0_train_4874_passage",
"type": "progene_text",
"text": [
"We show in this report by the means of in situ hybridization , reverse transcriptase - polymerase chain reaction , and transfection assays that MUC5B is also abnormally expressed in gastric carcinomatous tissues and cell lines ."
],
"offsets": [
[
0,
228
]
]
}
] |
[
{
"id": "split_0_train_7849_entity",
"type": "progene_text",
"text": [
"MUC5B"
],
"offsets": [
[
144,
149
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4875
|
split_0_train_4875
|
[
{
"id": "split_0_train_4875_passage",
"type": "progene_text",
"text": [
"We thus undertook to elucidate the molecular mechanisms that regulate the transcription of MUC5B in gastric cancer cells ."
],
"offsets": [
[
0,
122
]
]
}
] |
[
{
"id": "split_0_train_7850_entity",
"type": "progene_text",
"text": [
"MUC5B"
],
"offsets": [
[
91,
96
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4876
|
split_0_train_4876
|
[
{
"id": "split_0_train_4876_passage",
"type": "progene_text",
"text": [
"To this end , high expressing ( KATO - III ) and low expressing ( AGS ) gastric cancer cell lines were chosen to study human mucin gene MUC5B expression and promoter activity ."
],
"offsets": [
[
0,
176
]
]
}
] |
[
{
"id": "split_0_train_7851_entity",
"type": "progene_text",
"text": [
"mucin"
],
"offsets": [
[
125,
130
]
],
"normalized": []
},
{
"id": "split_0_train_7852_entity",
"type": "progene_text",
"text": [
"MUC5B"
],
"offsets": [
[
136,
141
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4877
|
split_0_train_4877
|
[
{
"id": "split_0_train_4877_passage",
"type": "progene_text",
"text": [
"Sequencing of the promoter region revealed a distal TATA box located 1 kilobase upstream of the proximal TATA box ."
],
"offsets": [
[
0,
115
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4878
|
split_0_train_4878
|
[
{
"id": "split_0_train_4878_passage",
"type": "progene_text",
"text": [
"Functional activity of the promoter was addressed by using deletion mutants covering 2044 nucleotides upstream of the MUC5B transcription start site ."
],
"offsets": [
[
0,
150
]
]
}
] |
[
{
"id": "split_0_train_7853_entity",
"type": "progene_text",
"text": [
"MUC5B"
],
"offsets": [
[
118,
123
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4879
|
split_0_train_4879
|
[
{
"id": "split_0_train_4879_passage",
"type": "progene_text",
"text": [
"We identified a distal promoter 10 times more active than the proximal promoter in KATO - III cells ."
],
"offsets": [
[
0,
101
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4880
|
split_0_train_4880
|
[
{
"id": "split_0_train_4880_passage",
"type": "progene_text",
"text": [
"In AGS cells , both promoters , much less active , showed the same range of activity ."
],
"offsets": [
[
0,
86
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4881
|
split_0_train_4881
|
[
{
"id": "split_0_train_4881_passage",
"type": "progene_text",
"text": [
"Binding assays allowed us to show that the transcription factor ATF-1 binds to a cis - element present in the distal promoter ."
],
"offsets": [
[
0,
127
]
]
}
] |
[
{
"id": "split_0_train_7854_entity",
"type": "progene_text",
"text": [
"transcription factor"
],
"offsets": [
[
43,
63
]
],
"normalized": []
},
{
"id": "split_0_train_7855_entity",
"type": "progene_text",
"text": [
"ATF-1"
],
"offsets": [
[
64,
69
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4882
|
split_0_train_4882
|
[
{
"id": "split_0_train_4882_passage",
"type": "progene_text",
"text": [
"Sp1 , which binds to both promoters specifically transactivates the proximal promoter ."
],
"offsets": [
[
0,
87
]
]
}
] |
[
{
"id": "split_0_train_7856_entity",
"type": "progene_text",
"text": [
"Sp1"
],
"offsets": [
[
0,
3
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4883
|
split_0_train_4883
|
[
{
"id": "split_0_train_4883_passage",
"type": "progene_text",
"text": [
"Treatment of transfected cells with PMA , cholera toxin A subunit , and calcium ionophore showed that only PMA led to a substantial activation of the distal promoter ."
],
"offsets": [
[
0,
167
]
]
}
] |
[
{
"id": "split_0_train_7857_entity",
"type": "progene_text",
"text": [
"cholera toxin A subunit"
],
"offsets": [
[
42,
65
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4884
|
split_0_train_4884
|
[
{
"id": "split_0_train_4884_passage",
"type": "progene_text",
"text": [
"MUC5B 5' - flanking region having a high GC content , influence of methylation on the MUC5B expression was assessed ."
],
"offsets": [
[
0,
117
]
]
}
] |
[
{
"id": "split_0_train_7858_entity",
"type": "progene_text",
"text": [
"MUC5B"
],
"offsets": [
[
0,
5
]
],
"normalized": []
},
{
"id": "split_0_train_7859_entity",
"type": "progene_text",
"text": [
"MUC5B"
],
"offsets": [
[
86,
91
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4885
|
split_0_train_4885
|
[
{
"id": "split_0_train_4885_passage",
"type": "progene_text",
"text": [
"Our results indicate that repression of MUC5B expression visualized in AGS cells is due in part to the presence of numerous methylated cytosine residues throughout the 5' - flanking region ."
],
"offsets": [
[
0,
190
]
]
}
] |
[
{
"id": "split_0_train_7860_entity",
"type": "progene_text",
"text": [
"MUC5B"
],
"offsets": [
[
40,
45
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4886
|
split_0_train_4886
|
[
{
"id": "split_0_train_4886_passage",
"type": "progene_text",
"text": [
"Altogether these results demonstrate that MUC5B expression in gastric cancer cells is governed by a highly active distal promoter that is up - regulated by protein kinase C and that repression is under the influence of methylation ."
],
"offsets": [
[
0,
232
]
]
}
] |
[
{
"id": "split_0_train_7861_entity",
"type": "progene_text",
"text": [
"MUC5B"
],
"offsets": [
[
42,
47
]
],
"normalized": []
},
{
"id": "split_0_train_7862_entity",
"type": "progene_text",
"text": [
"protein kinase C"
],
"offsets": [
[
156,
172
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4887
|
split_0_train_4887
|
[
{
"id": "split_0_train_4887_passage",
"type": "progene_text",
"text": [
"Structural polymorphism of the major capsid protein of rotavirus ."
],
"offsets": [
[
0,
66
]
]
}
] |
[
{
"id": "split_0_train_7863_entity",
"type": "progene_text",
"text": [
"major capsid protein"
],
"offsets": [
[
31,
51
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4888
|
split_0_train_4888
|
[
{
"id": "split_0_train_4888_passage",
"type": "progene_text",
"text": [
"Rotaviruses are important human pathogens with a triple - layered icosahedral capsid ."
],
"offsets": [
[
0,
86
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4889
|
split_0_train_4889
|
[
{
"id": "split_0_train_4889_passage",
"type": "progene_text",
"text": [
"The major capsid protein VP6 is shown here to self - assemble into spherical or helical particles mainly depending upon pH ."
],
"offsets": [
[
0,
124
]
]
}
] |
[
{
"id": "split_0_train_7864_entity",
"type": "progene_text",
"text": [
"major capsid protein VP6"
],
"offsets": [
[
4,
28
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4890
|
split_0_train_4890
|
[
{
"id": "split_0_train_4890_passage",
"type": "progene_text",
"text": [
"Assembly is inhibited either by low pH ( < 3.0 ) or by a high concentration ( > 100 mM ) of divalent cations ( Ca ( 2 + ) and Zn ( 2 + ) ) ."
],
"offsets": [
[
0,
140
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4891
|
split_0_train_4891
|
[
{
"id": "split_0_train_4891_passage",
"type": "progene_text",
"text": [
"The structures of two types of helical tubes were determined by electron cryomicroscopy and image analysis to a resolution of 2.0 and 2.5 nm ."
],
"offsets": [
[
0,
142
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4892
|
split_0_train_4892
|
[
{
"id": "split_0_train_4892_passage",
"type": "progene_text",
"text": [
"In both reconstructions , the molecular envelope of VP6 fits the atomic model determined by X - ray crystallography remarkably well ."
],
"offsets": [
[
0,
133
]
]
}
] |
[
{
"id": "split_0_train_7865_entity",
"type": "progene_text",
"text": [
"VP6"
],
"offsets": [
[
52,
55
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4893
|
split_0_train_4893
|
[
{
"id": "split_0_train_4893_passage",
"type": "progene_text",
"text": [
"The 3 - fold symmetry of the VP6 trimer , being incompatible with the helical symmetry , is broken at the level of the trimer contacts ."
],
"offsets": [
[
0,
136
]
]
}
] |
[
{
"id": "split_0_train_7866_entity",
"type": "progene_text",
"text": [
"VP6"
],
"offsets": [
[
29,
32
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4894
|
split_0_train_4894
|
[
{
"id": "split_0_train_4894_passage",
"type": "progene_text",
"text": [
"One type of contact is maintained within all VP6 particles ( tubes and virus ) , strongly suggesting that VP6 assemblies arise from different packings of a unique dimer of trimers ."
],
"offsets": [
[
0,
181
]
]
}
] |
[
{
"id": "split_0_train_7867_entity",
"type": "progene_text",
"text": [
"VP6"
],
"offsets": [
[
45,
48
]
],
"normalized": []
},
{
"id": "split_0_train_7868_entity",
"type": "progene_text",
"text": [
"VP6"
],
"offsets": [
[
106,
109
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4895
|
split_0_train_4895
|
[
{
"id": "split_0_train_4895_passage",
"type": "progene_text",
"text": [
"Our data show that the protonation state and thus the charge distribution are important switches governing the assembly of macromolecular assemblies ."
],
"offsets": [
[
0,
150
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4896
|
split_0_train_4896
|
[
{
"id": "split_0_train_4896_passage",
"type": "progene_text",
"text": [
"Molecular characterization of tomato 3-dehydroquinate dehydratase - shikimate : NADP oxidoreductase ."
],
"offsets": [
[
0,
101
]
]
}
] |
[
{
"id": "split_0_train_7869_entity",
"type": "progene_text",
"text": [
"3-dehydroquinate dehydratase - shikimate : NADP oxidoreductase"
],
"offsets": [
[
37,
99
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4897
|
split_0_train_4897
|
[
{
"id": "split_0_train_4897_passage",
"type": "progene_text",
"text": [
"Analysis of cDNAs encoding the bifunctional 3-dehydroquinate dehydratase - shikimate : NADP oxidoreductase ( DHQase - SORase ) from tomato ( Lycopersicon esculentum ) revealed two classes of cDNAs that differed by 57 bp within the coding regions , but were otherwise identical ."
],
"offsets": [
[
0,
278
]
]
}
] |
[
{
"id": "split_0_train_7870_entity",
"type": "progene_text",
"text": [
"3-dehydroquinate dehydratase - shikimate : NADP oxidoreductase"
],
"offsets": [
[
44,
106
]
],
"normalized": []
},
{
"id": "split_0_train_7871_entity",
"type": "progene_text",
"text": [
"DHQase - SORase"
],
"offsets": [
[
109,
124
]
],
"normalized": []
}
] |
[] |
[] |
[] |
split_0_train_4898
|
split_0_train_4898
|
[
{
"id": "split_0_train_4898_passage",
"type": "progene_text",
"text": [
"Comparison of these cDNA sequences with the sequence of the corresponding single gene unequivocally proved that the primary transcript is differentially spliced , potentially giving rise to two polypeptides that differ by 19 amino acids ."
],
"offsets": [
[
0,
238
]
]
}
] |
[] |
[] |
[] |
[] |
split_0_train_4899
|
split_0_train_4899
|
[
{
"id": "split_0_train_4899_passage",
"type": "progene_text",
"text": [
"Quantitative real - time polymerase chain reaction revealed that the longer transcript constitutes at most 1 % to 2 % of DHQase - SORase transcripts ."
],
"offsets": [
[
0,
150
]
]
}
] |
[
{
"id": "split_0_train_7872_entity",
"type": "progene_text",
"text": [
"DHQase - SORase"
],
"offsets": [
[
121,
136
]
],
"normalized": []
}
] |
[] |
[] |
[] |
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