tissue.data: Tissue composition and species-specific physiology parameters

tissue.dataR Documentation

Tissue composition and species-specific physiology parameters

Description

This data set contains values from Schmitt (2008) and Ruark et al. (2014) describing the composition of specific tissues and from Birnbaum et al. (1994) describing volumes of and blood flows to those tissues, allowing parameterization of toxicokinetic models for human, mouse, rat, dog, or rabbit. Tissue volumes were calculated by converting the fractional mass of each tissue with its density (both from ICRP), lumping the remaining tissues into the rest-of-body, excluding the mass of the gastrointestinal contents.

Usage

tissue.data

Format

A data.frame containing 406 rows and 5 columns.

Column Description
Tissue The tissue being described
Species The species being described
Reference The reference for the value reported
variable The aspect of the tissue being characterized
value The value for the variable for the given tissue and species

Details

Many of the parameters were compiled initially in Table 2 of Schmitt (2009). The full list of tissue variables described is:

Variable Description Units
Fcell Cellular fraction of total tissue volume fraction
Fint Interstitial fraction of total tissue volume fraction
FWc Fraction of cell volume that is water fraction
FLc Fraction of cell volume that is lipid fraction
FPc Fraction of cell volume that is protein fraction
Fn_Lc Fraction of cellular lipid tht is neutral lipid fraction
Fn_PLc Fraction of cellular lipid tht is neutral phospholipid fraction
Fa_PLc Fraction of cellular lipid tht is acidic phospholipid fraction
pH Negative logarithm of H+ ion concentration unitless
Density Tissue density g/cm^3
Vol Tissue volume L/kg
Flow Blood flow to tissue mL/min/kg^(3/4)

New tissues can be added to this table to generate their partition coefficients.

Author(s)

John Wambaugh, Robert Pearce, and Nisha Sipes

References

\insertRef

birnbaum1994physiologicalhttk

\insertRef

ruark2014predictinghttk

\insertRef

schmitt2008generalhttk

\insertRef

snyder1974reporthttk

\insertRef

wambaugh2015toxicokinetichttk

See Also

predict_partitioning_schmitt

Examples

# We can add thyroid to the tissue data by making a row containing
# its data, subtracting the volumes and flows from the rest-of-body, 
# and binding the row to tissue.data. Here we assume it contains the same 
# partition coefficient data as the spleen and a tenth of the volume and  
# blood flow:
new.tissue <- subset(tissue.data,Tissue == "spleen")
new.tissue[, "Tissue"] <- "thyroid"
new.tissue[new.tissue$variable %in% c("Vol (L/kg)",
"Flow (mL/min/kg^(3/4))"),"value"] <- new.tissue[new.tissue$variable
%in% c("Vol (L/kg)","Flow (mL/min/kg^(3/4))"),"value"] / 10
tissue.data[tissue.data$Tissue == "rest", "value"] <-
tissue.data[tissue.data$Tissue == "rest", "value"] -
new.tissue[new.tissue$variable %in% c("Vol (L/kg)",
"Flow (mL/min/kg^(3/4))"),"value"]
tissue.data <- rbind(tissue.data, new.tissue)


httk documentation built on Sept. 11, 2024, 9:32 p.m.