id stringlengths 15 19 | document_id stringlengths 15 19 | passages list | entities list | events list | coreferences list | relations list |
|---|---|---|---|---|---|---|
split_0_train_0 | split_0_train_0 | [
{
"id": "split_0_train_0_passage",
"type": "progene_text",
"text": [
"NMD3 encodes an essential cytoplasmic protein required for stable 60S ribosomal subunits in Saccharomyces cerevisiae ."
],
"offsets": [
[
0,
118
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]
}
] | [
{
"id": "split_0_train_0_entity",
"type": "progene_text",
"text": [
"NMD3"
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[
0,
4
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_1 | split_0_train_1 | [
{
"id": "split_0_train_1_passage",
"type": "progene_text",
"text": [
"A mutation in NMD3 was found to be lethal in the absence of XRN1 , which encodes the major cytoplasmic exoribonuclease responsible for mRNA turnover ."
],
"offsets": [
[
0,
150
]
]
}
] | [] | [] | [] | [] |
split_0_train_2 | split_0_train_2 | [
{
"id": "split_0_train_2_passage",
"type": "progene_text",
"text": [
"Molecular genetic analysis of NMD3 revealed that it is an essential gene required for stable 60S ribosomal subunits ."
],
"offsets": [
[
0,
117
]
]
}
] | [
{
"id": "split_0_train_1_entity",
"type": "progene_text",
"text": [
"NMD3"
],
"offsets": [
[
30,
34
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_3 | split_0_train_3 | [
{
"id": "split_0_train_3_passage",
"type": "progene_text",
"text": [
"Cells bearing a temperature - sensitive allele of NMD3 had decreased levels of 60S subunits at the nonpermissive temperature which resulted in the formation of half - mer polysomes ."
],
"offsets": [
[
0,
... | [
{
"id": "split_0_train_2_entity",
"type": "progene_text",
"text": [
"NMD3"
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[
50,
54
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_4 | split_0_train_4 | [
{
"id": "split_0_train_4_passage",
"type": "progene_text",
"text": [
"Pulse - chase analysis of rRNA biogenesis indicated that 25S rRNA was made and processed with kinetics similar to wild - type kinetics ."
],
"offsets": [
[
0,
136
]
]
}
] | [] | [] | [] | [] |
split_0_train_5 | split_0_train_5 | [
{
"id": "split_0_train_5_passage",
"type": "progene_text",
"text": [
"However , the mature RNA was rapidly degraded , with a half - life of 4 min ."
],
"offsets": [
[
0,
77
]
]
}
] | [] | [] | [] | [] |
split_0_train_6 | split_0_train_6 | [
{
"id": "split_0_train_6_passage",
"type": "progene_text",
"text": [
"Nmd3p fractionated as a cytoplasmic protein and sedimented in the position of free 60S subunits in sucrose gradients ."
],
"offsets": [
[
0,
118
]
]
}
] | [
{
"id": "split_0_train_3_entity",
"type": "progene_text",
"text": [
"Nmd3p"
],
"offsets": [
[
0,
5
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_7 | split_0_train_7 | [
{
"id": "split_0_train_7_passage",
"type": "progene_text",
"text": [
"These results suggest that Nmd3p is a cytoplasmic factor required for a late cytoplasmic assembly step of the 60S subunit but is not a ribosomal protein ."
],
"offsets": [
[
0,
154
]
]
}... | [
{
"id": "split_0_train_4_entity",
"type": "progene_text",
"text": [
"Nmd3p"
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"offsets": [
[
27,
32
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_8 | split_0_train_8 | [
{
"id": "split_0_train_8_passage",
"type": "progene_text",
"text": [
"Putative orthologs of Nmd3p exist in Drosophila , in nematodes , and in archaebacteria but not in eubacteria ."
],
"offsets": [
[
0,
110
]
]
}
] | [
{
"id": "split_0_train_5_entity",
"type": "progene_text",
"text": [
"Nmd3p"
],
"offsets": [
[
22,
27
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],
"normalized": []
}
] | [] | [] | [] |
split_0_train_9 | split_0_train_9 | [
{
"id": "split_0_train_9_passage",
"type": "progene_text",
"text": [
"The Nmd3 protein sequence does not contain readily recognizable motifs of known function ."
],
"offsets": [
[
0,
90
]
]
}
] | [
{
"id": "split_0_train_6_entity",
"type": "progene_text",
"text": [
"Nmd3"
],
"offsets": [
[
4,
8
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_10 | split_0_train_10 | [
{
"id": "split_0_train_10_passage",
"type": "progene_text",
"text": [
"However , these proteins all have an amino - terminal domain containing four repeats of Cx2C , reminiscent of zinc - binding proteins , implicated in nucleic acid binding or protein oligomerization ."
],
"offsets": [
... | [] | [] | [] | [] |
split_0_train_11 | split_0_train_11 | [
{
"id": "split_0_train_11_passage",
"type": "progene_text",
"text": [
"Skeletal muscle type ryanodine receptor is involved in calcium signaling in human B lymphocytes ."
],
"offsets": [
[
0,
97
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]
}
] | [
{
"id": "split_0_train_7_entity",
"type": "progene_text",
"text": [
"Skeletal muscle type ryanodine receptor"
],
"offsets": [
[
0,
39
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],
"normalized": []
}
] | [] | [] | [] |
split_0_train_12 | split_0_train_12 | [
{
"id": "split_0_train_12_passage",
"type": "progene_text",
"text": [
"The regulation of intracellular free Ca2+ concentration ( [ Ca2+ ] i ) in B cells remains poorly understood and is presently explained almost solely by inositol 1,4,5-triphosphate ( IP3 ) - mediated Ca2+ release , followed by a... | [] | [] | [] | [] |
split_0_train_13 | split_0_train_13 | [
{
"id": "split_0_train_13_passage",
"type": "progene_text",
"text": [
"In fact , there are reports indicating that IP3 production does not always correlate with the magnitude of Ca2+ release ."
],
"offsets": [
[
0,
121
]
]
}
] | [] | [] | [] | [] |
split_0_train_14 | split_0_train_14 | [
{
"id": "split_0_train_14_passage",
"type": "progene_text",
"text": [
"We demonstrate here that human B cells express a ryanodine receptor ( RYR ) that functions as a Ca2+ release channel during the B cell antigen receptor ( BCR ) - stimulated Ca2+ signaling process ."
],
"offsets": [
... | [
{
"id": "split_0_train_8_entity",
"type": "progene_text",
"text": [
"ryanodine receptor"
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[
49,
67
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"normalized": []
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{
"id": "split_0_train_9_entity",
"type": "progene_text",
"text": [
"RYR"
],
"offsets... | [] | [] | [] |
split_0_train_15 | split_0_train_15 | [
{
"id": "split_0_train_15_passage",
"type": "progene_text",
"text": [
"Immunoblotting studies showed that both human primary CD19 ( + ) B and DAKIKI cells express a 565 - kDa immunoreactive protein that is indistinguishable in molecular size and immunoreactivity from the RYR ."
],
"offsets... | [
{
"id": "split_0_train_12_entity",
"type": "progene_text",
"text": [
"CD19"
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[
54,
58
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],
"normalized": []
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{
"id": "split_0_train_13_entity",
"type": "progene_text",
"text": [
"RYR"
],
"offsets": [
[... | [] | [] | [] |
split_0_train_16 | split_0_train_16 | [
{
"id": "split_0_train_16_passage",
"type": "progene_text",
"text": [
"Selective reverse transcription - polymerase chain reaction , restriction fragment length polymorphism , and sequencing of cloned cDNA indicated that the major isoform of the RYR expressed in primary CD19 ( + ) B and DAKIKI cel... | [
{
"id": "split_0_train_14_entity",
"type": "progene_text",
"text": [
"RYR"
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"offsets": [
[
175,
178
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"normalized": []
},
{
"id": "split_0_train_15_entity",
"type": "progene_text",
"text": [
"CD19"
],
"offsets": [
... | [] | [] | [] |
split_0_train_17 | split_0_train_17 | [
{
"id": "split_0_train_17_passage",
"type": "progene_text",
"text": [
"Saturation analysis of [3H]ryanodine binding yielded Bmax = 150 fmol / mg of protein and Kd = 110 nM in DAKIKI cells ."
],
"offsets": [
[
0,
118
]
]
}
] | [] | [] | [] | [] |
split_0_train_18 | split_0_train_18 | [
{
"id": "split_0_train_18_passage",
"type": "progene_text",
"text": [
"In fluo-3-loaded CD19 ( + ) B and DAKIKI cells , 4-chloro-m-cresol , a potent activator of Ca2+ release mediated by the ryanodine - sensitive Ca2+ release channel , induced Ca2+ release in a dose - dependent and ryanodine - sen... | [
{
"id": "split_0_train_18_entity",
"type": "progene_text",
"text": [
"CD19"
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"offsets": [
[
17,
21
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_19 | split_0_train_19 | [
{
"id": "split_0_train_19_passage",
"type": "progene_text",
"text": [
"Furthermore , BCR - mediated Ca2+ release in CD19 ( + ) B cells was significantly altered by 4-chloro-m-cresol and ryanodine ."
],
"offsets": [
[
0,
126
]
]
}
] | [
{
"id": "split_0_train_19_entity",
"type": "progene_text",
"text": [
"BCR"
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"offsets": [
[
14,
17
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{
"id": "split_0_train_20_entity",
"type": "progene_text",
"text": [
"CD19"
],
"offsets": [
[... | [] | [] | [] |
split_0_train_20 | split_0_train_20 | [
{
"id": "split_0_train_20_passage",
"type": "progene_text",
"text": [
"These results indicate that RYR1 functions as a Ca2+ release channel during BCR - stimulated Ca2+ signaling and suggest that complex Ca2+ signals that control the cellular activities of B cells may be generated by cooperation o... | [
{
"id": "split_0_train_21_entity",
"type": "progene_text",
"text": [
"RYR1"
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"offsets": [
[
28,
32
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],
"normalized": []
},
{
"id": "split_0_train_22_entity",
"type": "progene_text",
"text": [
"BCR"
],
"offsets": [
[... | [] | [] | [] |
split_0_train_21 | split_0_train_21 | [
{
"id": "split_0_train_21_passage",
"type": "progene_text",
"text": [
"Myofibroblasts in schistosomal portal fibrosis of man ."
],
"offsets": [
[
0,
55
]
]
}
] | [] | [] | [] | [] |
split_0_train_22 | split_0_train_22 | [
{
"id": "split_0_train_22_passage",
"type": "progene_text",
"text": [
"Myofibroblasts , cells with intermediate features between smooth muscle cells and fibroblasts , have been described as an important cellular component of schistosomal portal fibrosis ."
],
"offsets": [
[
0... | [] | [] | [] | [] |
split_0_train_23 | split_0_train_23 | [
{
"id": "split_0_train_23_passage",
"type": "progene_text",
"text": [
"The origin , distribution and fate of myofibroblasts were investigated by means of light , fluorescent , immunoenzymatic and ultrastructural techniques in wedge liver biopsies from 68 patients with the hepatosplenic form of sch... | [] | [] | [] | [] |
split_0_train_24 | split_0_train_24 | [
{
"id": "split_0_train_24_passage",
"type": "progene_text",
"text": [
"Results demonstrated that the presence of myofibroblasts varied considerably from case to case and was always related to smooth muscle cell dispersion , which occurred around medium - sized damaged portal vein branches ."
]... | [] | [] | [] | [] |
split_0_train_25 | split_0_train_25 | [
{
"id": "split_0_train_25_passage",
"type": "progene_text",
"text": [
"By sequential observation of several cases , it was evident that myofibroblasts derived by differentiation of vascular smooth muscle and gradually tended to disappear , some of them further differentiating into fibroblasts ."
... | [] | [] | [] | [] |
split_0_train_26 | split_0_train_26 | [
{
"id": "split_0_train_26_passage",
"type": "progene_text",
"text": [
"Thus , in schistosomal pipestem fibrosis myofibroblasts appear as transient cells , focally accumulated around damaged portal vein branches , and do not seem to have by themselves any important participation in the pathogenesis... | [] | [] | [] | [] |
split_0_train_27 | split_0_train_27 | [
{
"id": "split_0_train_27_passage",
"type": "progene_text",
"text": [
"Ski is a component of the histone deacetylase complex required for transcriptional repression by Mad and thyroid hormone receptor ."
],
"offsets": [
[
0,
131
]
]
}
] | [
{
"id": "split_0_train_25_entity",
"type": "progene_text",
"text": [
"Ski"
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"offsets": [
[
0,
3
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],
"normalized": []
},
{
"id": "split_0_train_26_entity",
"type": "progene_text",
"text": [
"histone deacetylase"
],
"offset... | [] | [] | [] |
split_0_train_28 | split_0_train_28 | [
{
"id": "split_0_train_28_passage",
"type": "progene_text",
"text": [
"The N-CoR / SMRT complex containing mSin3 and histone deacetylase ( HDAC ) mediates transcriptional repression by nuclear hormone receptors and Mad ."
],
"offsets": [
[
0,
149
]
]
}
] | [
{
"id": "split_0_train_29_entity",
"type": "progene_text",
"text": [
"N-CoR"
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"offsets": [
[
4,
9
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],
"normalized": []
},
{
"id": "split_0_train_30_entity",
"type": "progene_text",
"text": [
"SMRT"
],
"offsets": [
[... | [] | [] | [] |
split_0_train_29 | split_0_train_29 | [
{
"id": "split_0_train_29_passage",
"type": "progene_text",
"text": [
"The proteins encoded by the ski proto - oncogene family directly bind to N-CoR / SMRT and mSin3A , and forms a complex with HDAC ."
],
"offsets": [
[
0,
130
]
]
}
] | [
{
"id": "split_0_train_36_entity",
"type": "progene_text",
"text": [
"ski proto - oncogene family"
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"offsets": [
[
28,
55
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],
"normalized": []
},
{
"id": "split_0_train_37_entity",
"type": "progene_text",
"text": [
"N-CoR"
],... | [] | [] | [] |
split_0_train_30 | split_0_train_30 | [
{
"id": "split_0_train_30_passage",
"type": "progene_text",
"text": [
"c-Ski and its related gene product Sno are required for transcriptional repression by Mad and thyroid hormone receptor ( TRbeta ) ."
],
"offsets": [
[
0,
131
]
]
}
] | [
{
"id": "split_0_train_41_entity",
"type": "progene_text",
"text": [
"c-Ski"
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"offsets": [
[
0,
5
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{
"id": "split_0_train_42_entity",
"type": "progene_text",
"text": [
"Sno"
],
"offsets": [
[
... | [] | [] | [] |
split_0_train_31 | split_0_train_31 | [
{
"id": "split_0_train_31_passage",
"type": "progene_text",
"text": [
"The oncogenic form , v-Ski , which lacks the mSin3A - binding domain , acts in a dominant - negative fashion , and abrogates transcriptional repression by Mad and TRbeta ."
],
"offsets": [
[
0,
171... | [
{
"id": "split_0_train_46_entity",
"type": "progene_text",
"text": [
"v-Ski"
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"offsets": [
[
21,
26
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],
"normalized": []
},
{
"id": "split_0_train_47_entity",
"type": "progene_text",
"text": [
"mSin3A"
],
"offsets": [
... | [] | [] | [] |
split_0_train_32 | split_0_train_32 | [
{
"id": "split_0_train_32_passage",
"type": "progene_text",
"text": [
"In ski - deficient mouse embryos , the ornithine decarboxylase gene , whose expression is normally repressed by Mad - Max , is expressed ectopically ."
],
"offsets": [
[
0,
150
]
]
}
] | [
{
"id": "split_0_train_50_entity",
"type": "progene_text",
"text": [
"ski"
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"offsets": [
[
3,
6
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{
"id": "split_0_train_51_entity",
"type": "progene_text",
"text": [
"ornithine decarboxylase"
],
"of... | [] | [] | [] |
split_0_train_33 | split_0_train_33 | [
{
"id": "split_0_train_33_passage",
"type": "progene_text",
"text": [
"These results show that Ski is a component of the HDAC complex and that Ski is required for the transcriptional repression mediated by this complex ."
],
"offsets": [
[
0,
149
]
]
}
] | [
{
"id": "split_0_train_54_entity",
"type": "progene_text",
"text": [
"Ski"
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"offsets": [
[
24,
27
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],
"normalized": []
},
{
"id": "split_0_train_55_entity",
"type": "progene_text",
"text": [
"HDAC"
],
"offsets": [
[... | [] | [] | [] |
split_0_train_34 | split_0_train_34 | [
{
"id": "split_0_train_34_passage",
"type": "progene_text",
"text": [
"The involvement of c-Ski in the HDAC complex indicates that the function of the HDAC complex is important for oncogenesis ."
],
"offsets": [
[
0,
123
]
]
}
] | [
{
"id": "split_0_train_57_entity",
"type": "progene_text",
"text": [
"c-Ski"
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"offsets": [
[
19,
24
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{
"id": "split_0_train_58_entity",
"type": "progene_text",
"text": [
"HDAC"
],
"offsets": [
... | [] | [] | [] |
split_0_train_35 | split_0_train_35 | [
{
"id": "split_0_train_35_passage",
"type": "progene_text",
"text": [
"Physical and transcriptional map of a 3-Mb region of mouse chromosome 1 containing the gene for the neural tube defect mutant loop - tail ( Lp ) ."
],
"offsets": [
[
0,
146
]
]
}
] | [] | [] | [] | [] |
split_0_train_36 | split_0_train_36 | [
{
"id": "split_0_train_36_passage",
"type": "progene_text",
"text": [
"The Lp mouse mutant provides a model for the severe human neural tube defect ( NTD ) , cranio - rachischisis ."
],
"offsets": [
[
0,
110
]
]
}
] | [] | [] | [] | [] |
split_0_train_37 | split_0_train_37 | [
{
"id": "split_0_train_37_passage",
"type": "progene_text",
"text": [
"To identify the Lp gene , a positional cloning approach has been adopted ."
],
"offsets": [
[
0,
74
]
]
}
] | [] | [] | [] | [] |
split_0_train_38 | split_0_train_38 | [
{
"id": "split_0_train_38_passage",
"type": "progene_text",
"text": [
"Previously , linkage analysis in a large intraspecific backcross was used to map the Lp locus to distal mouse chromosome 1 ."
],
"offsets": [
[
0,
124
]
]
}
] | [] | [] | [] | [] |
split_0_train_39 | split_0_train_39 | [
{
"id": "split_0_train_39_passage",
"type": "progene_text",
"text": [
"Here we report a detailed physical map of this region ."
],
"offsets": [
[
0,
55
]
]
}
] | [] | [] | [] | [] |
split_0_train_40 | split_0_train_40 | [
{
"id": "split_0_train_40_passage",
"type": "progene_text",
"text": [
"The interval surrounding Lp has been cloned in a yeast artificial chromosome ( YAC ) contig consisting of 63 clones spanning approximately 3.2 Mb ."
],
"offsets": [
[
0,
147
]
]
}
] | [] | [] | [] | [] |
split_0_train_41 | split_0_train_41 | [
{
"id": "split_0_train_41_passage",
"type": "progene_text",
"text": [
"Fifty sequence tagged sites ( STSs ) have been used to construct the contig and establish marker order across the interval ."
],
"offsets": [
[
0,
124
]
]
}
] | [] | [] | [] | [] |
split_0_train_42 | split_0_train_42 | [
{
"id": "split_0_train_42_passage",
"type": "progene_text",
"text": [
"Based on the high level of conserved synteny between distal mouse chromosome 1 and human 1q21 - q24 , many of these STSs were designed from expressed sequences identified by cross - screening human and mouse databases of expres... | [] | [] | [] | [] |
split_0_train_43 | split_0_train_43 | [
{
"id": "split_0_train_43_passage",
"type": "progene_text",
"text": [
"Added to other known genes in the region , a total of 29 genes were located and ordered within the contig ."
],
"offsets": [
[
0,
107
]
]
}
] | [] | [] | [] | [] |
split_0_train_44 | split_0_train_44 | [
{
"id": "split_0_train_44_passage",
"type": "progene_text",
"text": [
"Seven novel polymorphisms were identified within the region , allowing refinement of the genetic map and a reduction in the size of the physical interval containing the Lp gene ."
],
"offsets": [
[
0,
... | [] | [] | [] | [] |
split_0_train_45 | split_0_train_45 | [
{
"id": "split_0_train_45_passage",
"type": "progene_text",
"text": [
"The Lp interval , between D1Mit113 and Tagln2 , can be spanned by two nonchimeric overlapping YACs that define a physical distance of approximately 1 Mb ."
],
"offsets": [
[
0,
154
]
]
... | [] | [] | [] | [] |
split_0_train_46 | split_0_train_46 | [
{
"id": "split_0_train_46_passage",
"type": "progene_text",
"text": [
"Within this region , 10 potential candidate genes have been mapped ."
],
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[
0,
68
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]
}
] | [] | [] | [] | [] |
split_0_train_47 | split_0_train_47 | [
{
"id": "split_0_train_47_passage",
"type": "progene_text",
"text": [
"The materials and genes described here will provide a resource for the identification and further study of the mutated Lp gene that causes this severe neural tube defect and will provide candidates for other defects known to ma... | [] | [] | [] | [] |
split_0_train_48 | split_0_train_48 | [
{
"id": "split_0_train_48_passage",
"type": "progene_text",
"text": [
"The SH2 domain - containing inositol 5'-phosphatase ( SHIP ) recruits the p85 subunit of phosphoinositide 3-kinase during FcgammaRIIb1 - mediated inhibition of B cell receptor signaling ."
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[
... | [
{
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... | [] | [] | [] |
split_0_train_49 | split_0_train_49 | [
{
"id": "split_0_train_49_passage",
"type": "progene_text",
"text": [
"Coligation of FcgammaRIIb1 with the B cell receptor ( BCR ) or FcepsilonRI on mast cells inhibits B cell or mast cell activation ."
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{
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"text": [
"B cell receptor"
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... | [] | [] | [] |
split_0_train_50 | split_0_train_50 | [
{
"id": "split_0_train_50_passage",
"type": "progene_text",
"text": [
"Activity of the inositol phosphatase SHIP is required for this negative signal ."
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0,
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{
"id": "split_0_train_70_entity",
"type": "progene_text",
"text": [
"SHIP"
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"of... | [] | [] | [] |
split_0_train_51 | split_0_train_51 | [
{
"id": "split_0_train_51_passage",
"type": "progene_text",
"text": [
"In vitro , SHIP catalyzes the conversion of the phosphoinositide 3-kinase ( PI3K ) product phosphatidylinositol 3,4 , 5-trisphosphate ( PIP3 ) into phosphatidylinositol 3,4-bisphosphate ."
],
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[
... | [
{
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{
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"type": "progene_text",
"text": [
"phosphoinositide 3-kinase"
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... | [] | [] | [] |
split_0_train_52 | split_0_train_52 | [
{
"id": "split_0_train_52_passage",
"type": "progene_text",
"text": [
"Recent data demonstrate that coligation of FcgammaRIIb1 with BCR inhibits PIP3 - dependent Btk ( Bruton 's tyrosine kinase ) activation and the Btk - dependent generation of inositol trisphosphate that regulates sustained calci... | [
{
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{
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"text": [
"BCR"
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split_0_train_53 | split_0_train_53 | [
{
"id": "split_0_train_53_passage",
"type": "progene_text",
"text": [
"In this study , we provide evidence that coligation of FcgammaRIIb1 with BCR induces binding of PI3K to SHIP ."
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0,
110
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{
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{
"id": "split_0_train_80_entity",
"type": "progene_text",
"text": [
"BCR"
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split_0_train_54 | split_0_train_54 | [
{
"id": "split_0_train_54_passage",
"type": "progene_text",
"text": [
"This interaction is mediated by the binding of the SH2 domains of the p85 subunit of PI3K to a tyrosine - based motif in the C - terminal region of SHIP ."
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0,
154
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... | [
{
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{
"id": "split_0_train_84_entity",
"type": "progene_text",
"text": [
"SHIP"
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"off... | [] | [] | [] |
split_0_train_55 | split_0_train_55 | [
{
"id": "split_0_train_55_passage",
"type": "progene_text",
"text": [
"Furthermore , the generation of phosphatidylinositol 3,4-bisphosphate was only partially reduced during coligation of BCR with FcgammaRIIb1 despite a drastic reduction in PIP3 ."
],
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[
0,
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{
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{
"id": "split_0_train_86_entity",
"type": "progene_text",
"text": [
"FcgammaRIIb1"
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"offsets":... | [] | [] | [] |
split_0_train_56 | split_0_train_56 | [
{
"id": "split_0_train_56_passage",
"type": "progene_text",
"text": [
"In contrast to the complete inhibition of Tec kinase - dependent calcium signaling , activation of the serine / threonine kinase Akt was partially preserved during BCR and FcgammaRIIb1 coligation ."
],
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... | [
{
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42,
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{
"id": "split_0_train_88_entity",
"type": "progene_text",
"text": [
"kinase"
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... | [] | [] | [] |
split_0_train_57 | split_0_train_57 | [
{
"id": "split_0_train_57_passage",
"type": "progene_text",
"text": [
"The association of PI3K with SHIP may serve to activate PI3K and to regulate downstream events such as B cell activation - induced apoptosis ."
],
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[
0,
142
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]
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] | [
{
"id": "split_0_train_93_entity",
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19,
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{
"id": "split_0_train_94_entity",
"type": "progene_text",
"text": [
"SHIP"
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"offsets": [
... | [] | [] | [] |
split_0_train_58 | split_0_train_58 | [
{
"id": "split_0_train_58_passage",
"type": "progene_text",
"text": [
"Non-LTR retrotransposons ( LINEs ) as ubiquitous components of plant genomes ."
],
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[
0,
78
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]
}
] | [] | [] | [] | [] |
split_0_train_59 | split_0_train_59 | [
{
"id": "split_0_train_59_passage",
"type": "progene_text",
"text": [
"During the course of work aimed at isolating a rice gene from Oryza australiensis by PCR , the oligonucleotide primers used were found to generate a fragment that showed sequence homology to the endonuclease ( EN ) region of th... | [
{
"id": "split_0_train_96_entity",
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195,
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{
"id": "split_0_train_97_entity",
"type": "progene_text",
"text": [
"EN"
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"offsets": ... | [] | [] | [] |
split_0_train_60 | split_0_train_60 | [
{
"id": "split_0_train_60_passage",
"type": "progene_text",
"text": [
"We carried out further PCRs using oligonucleotide primers that hybridized to these sequences , and found that they amplified several fragments , each with homology to the EN regions , from Oryza sativa cv. Nipponbare as well as... | [
{
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"EN"
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171,
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}
] | [] | [] | [] |
split_0_train_61 | split_0_train_61 | [
{
"id": "split_0_train_61_passage",
"type": "progene_text",
"text": [
"We mapped the approximate locations of two rice LINE homologues by screening clones in a YAC library made from a rice ( O. sativa ) genome , and found that each homologue was present in a low copy number apparently at nonspecif... | [] | [] | [] | [] |
split_0_train_62 | split_0_train_62 | [
{
"id": "split_0_train_62_passage",
"type": "progene_text",
"text": [
"We then carried out PCR using degenerate oligonucleotide primers which hybridized to the rice LINE homologues and Cin4 to ascertain whether LINE homologues are present in a variety of members of the plant kingdom , including an... | [] | [] | [] | [] |
split_0_train_63 | split_0_train_63 | [
{
"id": "split_0_train_63_passage",
"type": "progene_text",
"text": [
"Cloning and nucleotide sequencing revealed that 53 clones obtained from 27 out of 33 plant species contained LINE homologues ."
],
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[
0,
126
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]
}
] | [] | [] | [] | [] |
split_0_train_64 | split_0_train_64 | [
{
"id": "split_0_train_64_passage",
"type": "progene_text",
"text": [
"In addition to these homologues , we identified four homologues with EN regions in the Arabidopsis thaliana genome by a computer search of databases ."
],
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[
0,
150
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]
}
] | [
{
"id": "split_0_train_99_entity",
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"text": [
"EN"
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69,
71
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],
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}
] | [] | [] | [] |
split_0_train_65 | split_0_train_65 | [
{
"id": "split_0_train_65_passage",
"type": "progene_text",
"text": [
"The nucleotide sequences of almost all the LINE homologues were greatly diverged , but the derived amino acid sequences were well conserved , and all contained glutamic acid and tyrosine residues at almost the same relative pos... | [
{
"id": "split_0_train_100_entity",
"type": "progene_text",
"text": [
"AP ( apurinic / apyrimidinic ) - endonucleases"
],
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[
271,
317
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],
"normalized": []
}
] | [] | [] | [] |
split_0_train_66 | split_0_train_66 | [
{
"id": "split_0_train_66_passage",
"type": "progene_text",
"text": [
"The EN regions in the LINE homologues from closely related plant species show a closer phylogenetic relationship , indicating that sequence divergence during vertical transmission has been a major influence upon the evolution o... | [
{
"id": "split_0_train_101_entity",
"type": "progene_text",
"text": [
"EN"
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[
4,
6
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],
"normalized": []
}
] | [] | [] | [] |
split_0_train_67 | split_0_train_67 | [
{
"id": "split_0_train_67_passage",
"type": "progene_text",
"text": [
"[ The effect of NO - like relaxing factor on vascular reactivity in tourniquet shock rat ]"
],
"offsets": [
[
0,
90
]
]
}
] | [] | [] | [] | [] |
split_0_train_68 | split_0_train_68 | [
{
"id": "split_0_train_68_passage",
"type": "progene_text",
"text": [
"This work was done on rat tourniquet shock ( ToS ) model ."
],
"offsets": [
[
0,
58
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]
}
] | [] | [] | [] | [] |
split_0_train_69 | split_0_train_69 | [
{
"id": "split_0_train_69_passage",
"type": "progene_text",
"text": [
"It was found that reactivity of isolated perfused aortic ring to noradrenaline decreased , while cGMP content of the aortic tissue increased ."
],
"offsets": [
[
0,
142
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]
}
] | [] | [] | [] | [] |
split_0_train_70 | split_0_train_70 | [
{
"id": "split_0_train_70_passage",
"type": "progene_text",
"text": [
"These changes could be potentiated by perfusion with L-arginine ( NO-precursor ) ."
],
"offsets": [
[
0,
82
]
]
}
] | [] | [] | [] | [] |
split_0_train_71 | split_0_train_71 | [
{
"id": "split_0_train_71_passage",
"type": "progene_text",
"text": [
"On the other side , when the aortic ring was perfused with L-NNA ( NO-synthesis inhibitor ) or methylene blue ( soluble cGMPase inhibitor ) , the changes could be attenuated ."
],
"offsets": [
[
0,
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{
"id": "split_0_train_102_entity",
"type": "progene_text",
"text": [
"cGMPase"
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[
120,
127
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],
"normalized": []
}
] | [] | [] | [] |
split_0_train_72 | split_0_train_72 | [
{
"id": "split_0_train_72_passage",
"type": "progene_text",
"text": [
"The effect of these drugs are independent of the presence of vascular endothelium ."
],
"offsets": [
[
0,
83
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]
}
] | [] | [] | [] | [] |
split_0_train_73 | split_0_train_73 | [
{
"id": "split_0_train_73_passage",
"type": "progene_text",
"text": [
"The results suggest that non - endothelium - derived NO - like relaxing factor may be one of the factors causing low vascular reactivity of the ToS animals ."
],
"offsets": [
[
0,
157
]
]... | [] | [] | [] | [] |
split_0_train_74 | split_0_train_74 | [
{
"id": "split_0_train_74_passage",
"type": "progene_text",
"text": [
"Systematic identification , classification , and characterization of the open reading frames which encode novel helicase - related proteins in Saccharomyces cerevisiae by gene disruption and Northern analysis ."
],
"off... | [
{
"id": "split_0_train_103_entity",
"type": "progene_text",
"text": [
"helicase"
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[
112,
120
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],
"normalized": []
}
] | [] | [] | [] |
split_0_train_75 | split_0_train_75 | [
{
"id": "split_0_train_75_passage",
"type": "progene_text",
"text": [
"Helicase - related proteins play important roles in various cellular processes incuding DNA replication , DNA repair , RNA processing and so on ."
],
"offsets": [
[
0,
145
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]
}
] | [
{
"id": "split_0_train_104_entity",
"type": "progene_text",
"text": [
"Helicase"
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"offsets": [
[
0,
8
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],
"normalized": []
}
] | [] | [] | [] |
split_0_train_76 | split_0_train_76 | [
{
"id": "split_0_train_76_passage",
"type": "progene_text",
"text": [
"It has been well known that the amino acid sequences of these proteins contain several conserved motifs , and that the open reading frames ( ORFs ) which encode helicase - related proteins make up several gene families ."
]... | [
{
"id": "split_0_train_105_entity",
"type": "progene_text",
"text": [
"helicase"
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"offsets": [
[
161,
169
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_77 | split_0_train_77 | [
{
"id": "split_0_train_77_passage",
"type": "progene_text",
"text": [
"In this study , we have identified 134 ORFs that encode helicase - like proteins in the Saccharomyces genome , based on similarity with the ORFs of authentic helicase and helicase - related proteins ."
],
"offsets": [
... | [
{
"id": "split_0_train_106_entity",
"type": "progene_text",
"text": [
"helicase"
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[
56,
64
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},
{
"id": "split_0_train_107_entity",
"type": "progene_text",
"text": [
"helicase"
],
"offsets"... | [] | [] | [] |
split_0_train_78 | split_0_train_78 | [
{
"id": "split_0_train_78_passage",
"type": "progene_text",
"text": [
"Multiple alignment of the ORF sequences resulted in the 134 ORFs being classified to 11 clusters ."
],
"offsets": [
[
0,
98
]
]
}
] | [] | [] | [] | [] |
split_0_train_79 | split_0_train_79 | [
{
"id": "split_0_train_79_passage",
"type": "progene_text",
"text": [
"Seven out of 21 previously uncharacterized ORFs ( YDL031w , YDL070w , YDL084w , YGL150c , YKL078w , YLR276c , and YMR128w ) were identified by systematic gene disruption , to be essential for vegetative growth ."
],
"of... | [
{
"id": "split_0_train_109_entity",
"type": "progene_text",
"text": [
"YDL031w"
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50,
57
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},
{
"id": "split_0_train_110_entity",
"type": "progene_text",
"text": [
"YDL070w"
],
"offsets": ... | [] | [] | [] |
split_0_train_80 | split_0_train_80 | [
{
"id": "split_0_train_80_passage",
"type": "progene_text",
"text": [
"Three ( YDR332w , YGL064c , and YOL095c ) out of the remaining 14 dispensable ORFs exhibited the slow - growth phenotype at 30 degrees C and 37 degrees C ."
],
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[
0,
155
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]
... | [
{
"id": "split_0_train_116_entity",
"type": "progene_text",
"text": [
"YDR332w"
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8,
15
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},
{
"id": "split_0_train_117_entity",
"type": "progene_text",
"text": [
"YGL064c"
],
"offsets": [... | [] | [] | [] |
split_0_train_81 | split_0_train_81 | [
{
"id": "split_0_train_81_passage",
"type": "progene_text",
"text": [
"Furthermore , the expression profiles of transcripts from 43 ORFs were examined under seven different growth conditions by Northern analysis and reverse transcription - polymerase chain reaction , indicating that all of the 43 ... | [] | [] | [] | [] |
split_0_train_82 | split_0_train_82 | [
{
"id": "split_0_train_82_passage",
"type": "progene_text",
"text": [
"Interestingly , we found that the level of transcript from 34 helicase - like genes was markedly increased by heat shock ."
],
"offsets": [
[
0,
122
]
]
}
] | [
{
"id": "split_0_train_119_entity",
"type": "progene_text",
"text": [
"helicase"
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"offsets": [
[
62,
70
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_83 | split_0_train_83 | [
{
"id": "split_0_train_83_passage",
"type": "progene_text",
"text": [
"This suggests that helicase - like genes may be involved in the biosynthesis of nucleic acids and proteins , and that the genes can be transcriptionally activated by heat shock to compensate for the repressed synthesis of mRNA ... | [
{
"id": "split_0_train_120_entity",
"type": "progene_text",
"text": [
"helicase"
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"offsets": [
[
19,
27
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],
"normalized": []
}
] | [] | [] | [] |
split_0_train_84 | split_0_train_84 | [
{
"id": "split_0_train_84_passage",
"type": "progene_text",
"text": [
"A novel ubiquitin - specific protease , UBP43 , cloned from leukemia fusion protein AML1 - ETO - expressing mice , functions in hematopoietic cell differentiation ."
],
"offsets": [
[
0,
164
... | [
{
"id": "split_0_train_121_entity",
"type": "progene_text",
"text": [
"ubiquitin"
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[
8,
17
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},
{
"id": "split_0_train_122_entity",
"type": "progene_text",
"text": [
"protease"
],
"offsets"... | [] | [] | [] |
split_0_train_85 | split_0_train_85 | [
{
"id": "split_0_train_85_passage",
"type": "progene_text",
"text": [
"Using PCR - coupled subtractive screening - representational difference analysis , we have cloned a novel gene from AML1 - ETO knockin mice ."
],
"offsets": [
[
0,
141
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]
}
] | [
{
"id": "split_0_train_126_entity",
"type": "progene_text",
"text": [
"AML1"
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116,
120
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},
{
"id": "split_0_train_127_entity",
"type": "progene_text",
"text": [
"ETO"
],
"offsets": [
... | [] | [] | [] |
split_0_train_86 | split_0_train_86 | [
{
"id": "split_0_train_86_passage",
"type": "progene_text",
"text": [
"This gene is highly expressed in the yolk sac and fetal liver of the knockin mice ."
],
"offsets": [
[
0,
83
]
]
}
] | [] | [] | [] | [] |
split_0_train_87 | split_0_train_87 | [
{
"id": "split_0_train_87_passage",
"type": "progene_text",
"text": [
"Nucleotide sequence analysis indicates that its cDNA contains an 1,107-bp open reading frame encoding a 368 - amino - acid polypeptide ."
],
"offsets": [
[
0,
136
]
]
}
] | [] | [] | [] | [] |
split_0_train_88 | split_0_train_88 | [
{
"id": "split_0_train_88_passage",
"type": "progene_text",
"text": [
"Further protein sequence and protein translation analysis shows that it belongs to a family of ubiquitin - specific proteases ( UBP ) , and its molecular mass is 43 kDa ."
],
"offsets": [
[
0,
170
... | [
{
"id": "split_0_train_128_entity",
"type": "progene_text",
"text": [
"family of ubiquitin - specific proteases"
],
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[
85,
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]
],
"normalized": []
},
{
"id": "split_0_train_129_entity",
"type": "progene_text",
"text": [
... | [] | [] | [] |
split_0_train_89 | split_0_train_89 | [
{
"id": "split_0_train_89_passage",
"type": "progene_text",
"text": [
"Therefore , we have named this gene UBP43 ."
],
"offsets": [
[
0,
43
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]
}
] | [
{
"id": "split_0_train_130_entity",
"type": "progene_text",
"text": [
"UBP43"
],
"offsets": [
[
36,
41
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_90 | split_0_train_90 | [
{
"id": "split_0_train_90_passage",
"type": "progene_text",
"text": [
"Like other ubiquitin proteases , the UBP43 protein has deubiquitinating enzyme activity ."
],
"offsets": [
[
0,
89
]
]
}
] | [
{
"id": "split_0_train_131_entity",
"type": "progene_text",
"text": [
"ubiquitin proteases"
],
"offsets": [
[
11,
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],
"normalized": []
},
{
"id": "split_0_train_132_entity",
"type": "progene_text",
"text": [
"UBP43"
],
"... | [] | [] | [] |
split_0_train_91 | split_0_train_91 | [
{
"id": "split_0_train_91_passage",
"type": "progene_text",
"text": [
"Protein ubiquitination has been implicated in many important cellular events ."
],
"offsets": [
[
0,
78
]
]
}
] | [] | [] | [] | [] |
split_0_train_92 | split_0_train_92 | [
{
"id": "split_0_train_92_passage",
"type": "progene_text",
"text": [
"In wild - type adult mice , UBP43 is highly expressed in the thymus and in peritoneal macrophages ."
],
"offsets": [
[
0,
99
]
]
}
] | [
{
"id": "split_0_train_133_entity",
"type": "progene_text",
"text": [
"UBP43"
],
"offsets": [
[
28,
33
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_93 | split_0_train_93 | [
{
"id": "split_0_train_93_passage",
"type": "progene_text",
"text": [
"Among nine different murine hematopoietic cell lines analyzed , UBP43 expression is detectable only in cell lines related to the monocytic lineage ."
],
"offsets": [
[
0,
148
]
]
}
] | [
{
"id": "split_0_train_134_entity",
"type": "progene_text",
"text": [
"UBP43"
],
"offsets": [
[
64,
69
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_94 | split_0_train_94 | [
{
"id": "split_0_train_94_passage",
"type": "progene_text",
"text": [
"Furthermore , its expression is regulated during cytokine - induced monocytic cell differentiation ."
],
"offsets": [
[
0,
100
]
]
}
] | [
{
"id": "split_0_train_135_entity",
"type": "progene_text",
"text": [
"cytokine"
],
"offsets": [
[
49,
57
]
],
"normalized": []
}
] | [] | [] | [] |
split_0_train_95 | split_0_train_95 | [
{
"id": "split_0_train_95_passage",
"type": "progene_text",
"text": [
"We have investigated its function in the hematopoietic myeloid cell line M1 ."
],
"offsets": [
[
0,
77
]
]
}
] | [] | [] | [] | [] |
split_0_train_96 | split_0_train_96 | [
{
"id": "split_0_train_96_passage",
"type": "progene_text",
"text": [
"UBP43 was introduced into M1 cells by retroviral gene transfer , and several high - expressing UBP43 clones were obtained for further study ."
],
"offsets": [
[
0,
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]
}
] | [
{
"id": "split_0_train_136_entity",
"type": "progene_text",
"text": [
"UBP43"
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[
0,
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"normalized": []
},
{
"id": "split_0_train_137_entity",
"type": "progene_text",
"text": [
"UBP43"
],
"offsets": [
... | [] | [] | [] |
split_0_train_97 | split_0_train_97 | [
{
"id": "split_0_train_97_passage",
"type": "progene_text",
"text": [
"Morphologic and cell surface marker examination of UBP43 / M1 cells reveals that overexpression of UBP43 blocks cytokine - induced terminal differentiation of monocytic cells ."
],
"offsets": [
[
0,
... | [
{
"id": "split_0_train_138_entity",
"type": "progene_text",
"text": [
"UBP43"
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[
51,
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],
"normalized": []
},
{
"id": "split_0_train_139_entity",
"type": "progene_text",
"text": [
"UBP43"
],
"offsets": [
... | [] | [] | [] |
split_0_train_98 | split_0_train_98 | [
{
"id": "split_0_train_98_passage",
"type": "progene_text",
"text": [
"These data suggest that UBP43 plays an important role in hematopoiesis by modulating either the ubiquitin - dependent proteolytic pathway or the ubiquitination state of another regulatory factor(s) during myeloid cell different... | [
{
"id": "split_0_train_140_entity",
"type": "progene_text",
"text": [
"UBP43"
],
"offsets": [
[
24,
29
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],
"normalized": []
},
{
"id": "split_0_train_141_entity",
"type": "progene_text",
"text": [
"ubiquitin"
],
"offsets": ... | [] | [] | [] |
split_0_train_99 | split_0_train_99 | [
{
"id": "split_0_train_99_passage",
"type": "progene_text",
"text": [
"Reduced inotropic support after aprotinin therapy during pediatric cardiac operations ."
],
"offsets": [
[
0,
87
]
]
}
] | [] | [] | [] | [] |
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