PBPK_public/models/humanHG.json

{
   "timeUnit":"min",
   "compartments":[
      "redBloodCells","plasma","venous","kidney","urine",
      "richlyPerfused","fat","slowlyPerfused","hair",
      "brainBlood","brain","placenta",
      "liver","gut","intestine","feces","inorganicMercury"],
   "commentParameters":"every parameter must have a value, name is optional and used in SE computation",
   "volumeComment":"in a compartment w/o volume, value is mass",
   "volumes":{
      "plasma":"plasmaVolume",
      "venous":"plasmaVolume",
      "kidney":"kidneyVolume",
      "richlyPerfused":"richlyPerfusedVolume",
      "fat":"fatVolume",
      "slowlyPerfused":"slowlyPerfusedVolume",
      "brainBlood":"brainBloodVolume",
      "placenta":"placentaVolume",
      "gut":"gutVolume",
      "intestine":"intestineVolume",
      "redBloodCells":"redBloodCellsVolume",
      "hair":"hairVolume",
      "brain":"brainVolume",
      "liver":"liverVolume"
      },
   "flows":{
      "(plasma,venous):kidney":"kidneyFlow",
      "(plasma,venous):richlyPerfused":"richlyPerfusedFlow",
      "(plasma,venous):fat":"fatFlow",
      "(plasma,venous):slowlyPerfused":"slowlyPerfusedFlow",
      "(plasma,venous):brainBlood":"brainBloodFlow",
      "(plasma,venous):placenta":"placentaFlow",
      "plasma:liver":"liverInFlow",
      "liver:venous":"liverOutFlow",
      "(plasma,liver):gut":"gutFlow",
      "plasma:venous":"plasmaFlow"},
   "commentSources":"constants in concentration units per s",
   "commentHeavyside":"value is mass of exogene/volume of container/duration",
   "sources":{
      "intestine":{"name":"constant","value":0.0486,"unit":"ug/min"}},
   "commentBindings":"split to flow and diffusion dominated",
   "bindings": {
      "flowComments":"group common sources or targets with brackets",
      "flow":[
         "(kidney,richlyPerfused,fat,slowlyPerfused,brainBlood,placenta,liver)->venous",
         "gut->liver",
         "plasma->(kidney,richlyPerfused,fat,slowlyPerfused,brainBlood,placenta,liver,gut)",
         "venous->plasma"],
      "diffusion":{
         "plasma->redBloodCells":"kRBC",
         "redBloodCells->plasma":"kRBC",
         "kidney->urine":"kU",
         "slowlyPerfused->hair":"kH",
         "hair->slowlyPerfused":"kH",
         "brainBlood->brain":"kBR",
         "liver->intestine":"kB",
         "liver->inorganicMercury":"kI",
         "intestine->gut":"kR",
         "intestine->inorganicMercury":"kD",
         "intestine->feces":"kF",
         "inorganicMercury->feces":"kF1"}},
    "pcComments":"always related to outflow of organs", 
    "partitionCoefficients":{
       "kidney":"kidneyPC",
       "richlyPerfused":"richlyPerfusedPC",
       "fat":"fatPC",
       "slowlyPerfused":"slowlyPerfusedPC",
       "brainBlood":"brainBloodPC",
       "placenta":"placentaPC",
       "liver":"liverPC",
       "gut":"gutPC",
       "brainBlood->brain":"brainPC",
       "hair->slowlyPerfused":"hairPC",
       "redBloodCells->plasma":"rbcPC"},
     "parameters":{
        "kidneyPC":{"value":4.0},
        "richlyPerfusedPC":{"value":1},
        "fatPC":{"value":0.15},
        "slowlyPerfusedPC":{"value":2},
        "brainBloodPC":{"value":1},
        "brainPC":{"value":3},
        "hairPC":{"value":248.7},
        "placentaPC":{"value":2},
	     "liverPC":{"value":5},
        "gutPC":{"value":1},
        "rbcPC":{"value":12},
        "flowNotes":"assuming 70kg individual, fetus at 0.1kg",
        "plasmaFlow":{"value":8.067,"unit":"l/min"},
        "kidneyFlow":{"value":1.412,"unit":"l/min"},
        "richlyPerfusedFlow":{"value":1.484,"unit":"l/min"},
        "fatFlow":{"value":0.419,"unit":"l/min"},
        "slowlyPerfusedFlow":{"value":2.01,"unit":"l/min"},
        "brainBloodFlow":{"value":0.920,"unit":"l/min"},
        "placentaFlow":{"value":0.173,"unit":"l/min"},
        "liverInFlow":{"value":0.391,"unit":"l/min"},
        "liverOutFlow":{"value":1.928,"unit":"l/min"},
        "gutFlow":{"value":1.538,"unit":"l/min"},
        "plasmaVolume":{"value":1.64,"unit":"kg"},
        "redBloodCellsVolume":{"value":1.64,"unit":"kg"},
        "kidneyVolume":{"value":0.28,"unit":"kg"},
        "richlyPerfusedVolume":{"value":7,"unit":"kg"},
        "fatVolume":{"value":19.11,"unit":"kg"},
        "hairVolume":{"value":0.14,"unit":"kg"},
        "slowlyPerfusedVolume":{"value":24.5,"unit":"kg"},
        "brainBloodVolume":{"value":0.49,"unit":"kg"},
        "brainVolume":{"value":1.4,"unit":"kg"},
        "placentaVolume":{"value":0.0431,"unit":"kg"},
        "liverVolume":{"value":1.82,"unit":"kg"},
        "gutVolume":{"value":1.19,"unit":"kg"},
        "intestineVolume":{"value":0.98,"unit":"kg"},
        "kRBC":{"value":0.60,"unit":"l/min"},
        "kU":{"value":0,"unit":"l/min"},
        "kH":{"value":2.823e-6,"unit":"l/min"},
        "kBR":{"value":4.033e-3,"unit":"l/min"},
        "kI":{"value":4.033e-6,"unit":"l/min"},
        "kB":{"value":4.033e-5,"unit":"l/min"},
        "kD":{"value":4.033e-5,"unit":"l/min"},
        "kF":{"value":8.066e-5,"unit":"l/min"},
        "kF1":{"value":0,"unit":"l/min"},
        "kR":{"value":2.016e-3,"unit":"l/min"}}
}