-
Notifications
You must be signed in to change notification settings - Fork 0
/
submission-metadata.json
67 lines (67 loc) · 3.66 KB
/
submission-metadata.json
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
{
"name" : "Adlung2021 - Cell-to-cell variability in JAK2/STAT5 pathway",
"description" : "<notes xmlns=\"http://www.sbml.org/sbml/level2/version4\">\n <body xmlns=\"http://www.w3.org/1999/xhtml\">\n <p>A mathematical model for cell-to-cell variability in JAK2/STAT5 pathway components and cytoplasmic volumes defines survival threshold in erythroid progenitor cells</p>\n </body>\n </notes>",
"format" : {
"name" : "SBML",
"version" : "L2V4"
},
"readme_submission": "This is the first sumbmission done via API. The correct modelling approach could be something else. I use machine learning for the simplicity.",
"other_info": "SBML Model Format",
"isMetadataSubmission": false,
"isAmend": false,
"submissionId": "MODEL2406090008",
"comment": "Tried to parse the publication details and persist them into DB.",
"publication" : {
"type": "PubMed ID",
"accession": "34380040",
"journal" : "Cell reports",
"title" : "Cell-to-cell variability in JAK2/STAT5 pathway components and cytoplasmic volumes defines survival threshold in erythroid progenitor cells.",
"affiliation" : "Division Systems Biology of Signal Transduction, German Cancer Research Center (DKFZ), 69120 Heidelberg, Germany; Department of Medicine, University Medical Center Hamburg-Eppendorf, 20246 Hamburg, Germany; Hamburg Center for Translational Immunology (HCTI), University Medical Center Hamburg-Eppendorf, 20246 Hamburg, Germany.",
"synopsis" : "Survival or apoptosis is a binary decision in individual cells. However, at the cell-population level, a graded increase in survival of colony-forming unit-erythroid (CFU-E) cells is observed upon stimulation with erythropoietin (Epo). To identify components of Janus kinase 2/signal transducer and activator of transcription 5 (JAK2/STAT5) signal transduction that contribute to the graded population response, we extended a cell-population-level model calibrated with experimental data to study the behavior in single cells. The single-cell model shows that the high cell-to-cell variability in nuclear phosphorylated STAT5 is caused by variability in the amount of Epo receptor (EpoR):JAK2 complexes and of SHP1, as well as the extent of nuclear import because of the large variance in the cytoplasmic volume of CFU-E cells. 24-118 pSTAT5 molecules in the nucleus for 120 min are sufficient to ensure cell survival. Thus, variability in membrane-associated processes is sufficient to convert a switch-like behavior at the single-cell level to a graded population-level response.",
"year" : 2021,
"month" : "8",
"volume" : "36",
"issue" : "6",
"pages" : "109507",
"link" : "http://identifiers.org/pubmed/34380040",
"authors" : [ {
"name" : "Adlung L"
}, {
"name" : "Stapor P"
}, {
"name" : "Tönsing C"
}, {
"name" : "Schmiester L"
}, {
"name" : "Schwarzmüller LE"
}, {
"name" : "Postawa L"
}, {
"name" : "Wang D"
}, {
"name" : "Timmer J"
}, {
"name" : "Klingmüller U"
}, {
"name" : "Hasenauer J"
}, {
"name" : "Schilling M"
} ]
},
"files" : {
"main" : [ {
"name" : "Adlung2021_model_jakstat_pa.xml",
"description": "SBML L2V4 file for the curated model"
} ],
"additional" : [ {
"name" : "Adlung2021_model_jakstat_pa.sedml",
"description" : "SEDML file for the curated model"
}, {
"name" : "Adlung2021_model_jakstat_pa.cps",
"description" : "COPASI file for the curated model"
}, {
"name" : "model_jakstat_pa.xml",
"description" : "Population-average mathematical model of Epo-induced JAK2/STAT5 signal transduction in CFU-E cells"
} ]
}
}