httk: lump_tissues – R documentation

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lump_tissues

Lump tissue parameters

Description

This function takes the parameters from predict_partitioning_schmitt and lumps the partition coefficients along with the volumes and flows based on the given tissue list. It is useful in Monte Carlo simulation of individual partition coefficients when calculating the rest of body partition coefficient.

Usage

lump_tissues(
  Ktissue2pu.in,
  parameters = NULL,
  tissuelist = NULL,
  species = "Human",
  tissue.vols = NULL,
  tissue.flows = NULL
)

Arguments

`Ktissue2pu.in`	List of partition coefficients from predict_partitioning_schmitt.
`parameters`	A list of physiological parameters including flows and volumes for tissues in `tissuelist`
`tissuelist`	Specifies compartment names and tissues groupings. Remaining tissues in tissue.data are lumped in the rest of the body.
`species`	Species desired (either "Rat", "Rabbit", "Dog", "Mouse", or default "Human").
`tissue.vols`	A list of volumes for tissues in `tissuelist`
`tissue.flows`	A list of flows for tissues in `tissuelist`

Details

This function returns the flows, volumes, and partition coefficients for the lumped tissues specified in tissue list Ktissue2plasma – tissue to free plasma concentration partition coefficients for every tissue specified by Schmitt (2008) (the tissue.data table) tissuelist – a list of character vectors, the name of each entry in the list is a lumped tissue, the words in the vector are the Schmitt (2008) tissues that are to be lumped, for example: tissuelist<-list(Rapid=c("Brain","Kidney")) species specifies the flow.col and vol.col in the tissuedata.table

Value

`Krbc2pu`	Ratio of concentration of chemical in red blood cells to unbound concentration in plasma.
`Krest2pu`	Ratio of concentration of chemical in rest of body tissue to unbound concentration in plasma.
`Vrestc`	Volume of the rest of the body per kg body weight, L/kg BW.
`Vliverc`	Volume of the liver per kg body weight, L/kg BW.
`Qtotal.liverf`	Fraction of cardiac output flowing to the gut and liver, i.e. out of the liver.
`Qgutf`	Fraction of cardiac output flowing to the gut.
`Qkidneyf`	Fraction of cardiac output flowing to the kidneys.

Author(s)

John Wambaugh and Robert Pearce

References

Pearce, Robert G., et al. "Evaluation and calibration of high-throughput predictions of chemical distribution to tissues." Journal of pharmacokinetics and pharmacodynamics 44.6 (2017): 549-565.

Examples

pcs <- predict_partitioning_schmitt(chem.name='bisphenola')
tissuelist <- list(liver=c("liver"),kidney=c("kidney"),lung=c("lung"),gut=c("gut")
,muscle.bone=c('muscle','bone'))
lump_tissues(pcs,tissuelist=tissuelist)

httk

High-Throughput Toxicokinetics

v2.0.4

GPL-3

Authors

John Wambaugh [aut, cre] (<https://orcid.org/0000-0002-4024-534X>), Robert Pearce [aut] (<https://orcid.org/0000-0003-3168-4049>), Caroline Ring [aut] (<https://orcid.org/0000-0002-0463-1251>), Greg Honda [aut] (<https://orcid.org/0000-0001-7713-9850>), Mark Sfeir [aut], Matt Linakis [aut] (<https://orcid.org/0000-0003-0526-2395>), Sarah Davidson [aut] (<https://orcid.org/0000-0002-2891-9380>), Miyuki Breen [ctb] (<https://orcid.org/0000-0001-8511-4653>), Shannon Bell [ctb], Xiaoqing Chang [ctb] (<https://orcid.org/0000-0003-0752-1848>), Jimena Davis [ctb], James Sluka [ctb] (<https://orcid.org/0000-0002-5901-1404>), Nisha Sipes [ctb] (<https://orcid.org/0000-0003-4203-6426>), Barbara Wetmore [ctb] (<https://orcid.org/0000-0002-6878-5348>), Woodrow Setzer [ctb] (<https://orcid.org/0000-0002-6709-9186>)

Initial release

2021-05-07