get_lit_css

This function retrieves a steady-state plasma concentration as a result of
infusion dosing from the Wetmore et al. (2012) and (2013) publications and
other literature.

Monte-Carlo

Literature

Pre-made models that can be rapidly tailored to various chemicals
and species using chemical-specific in vitro data and physiological
information. These tools allow incorporation of chemical
toxicokinetics ("TK") and in vitro-in vivo extrapolation ("IVIVE")
into bioinformatics, as described by Pearce et al. (2017)
(<doi:10.18637/jss.v079.i04>). Chemical-specific
in vitro data characterizing toxicokinetics have been obtained
from relatively high-throughput experiments. The
chemical-independent ("generic") physiologically-based ("PBTK") and empirical
(for example, one compartment) "TK" models included here can be
parameterized with in vitro data or in silico predictions which are
provided for thousands of chemicals, multiple exposure routes,
and various species. High throughput toxicokinetics ("HTTK") is the
combination of in vitro data and generic models. We establish the
expected accuracy of HTTK for chemicals without in vivo data
through statistical evaluation of HTTK predictions for chemicals
where in vivo data do exist. The models are systems of ordinary
differential equations that are developed in MCSim and solved
using compiled (C-based) code for speed. A Monte Carlo sampler is
included for simulating human biological variability
(Ring et al., 2017 <doi:10.1016/j.envint.2017.06.004>)
and propagating parameter uncertainty
(Wambaugh et al., 2019 <doi:10.1093/toxsci/kfz205>).
Empirically calibrated methods are included for predicting
tissue:plasma partition coefficients and volume of distribution
(Pearce et al., 2017 <doi:10.1007/s10928-017-9548-7>).
These functions and data provide a set of tools for using IVIVE to
convert concentrations from high-throughput screening experiments
(for example, Tox21, ToxCast) to real-world exposures via reverse
dosimetry (also known as "RTK")
(Wetmore et al., 2015 <doi:10.1093/toxsci/kfv171>).

John Wambaugh

httk

High-Throughput Toxicokinetics

Sarah Davidson-Fritz

Robert Pearce

Caroline Ring

Greg Honda

Mark Sfeir

Matt Linakis

Dustin Kapraun

Kimberly Truong

Colin Thomson

Miyuki Breen

Shannon Bell

Xiaoqing Chang

Todor Antonijevic

Jimena Davis

Elaina Kenyon

Gilberto Padilla Mercado

Katie Paul Friedman

Nathan Pollesch

Celia Schacht

Meredith Scherer

James Sluka

Noelle Sinski

Nisha Sipes

Barbara Wetmore

Lily Whipple

Woodrow Setzer

get_lit_css function

<dl><dt>chem.cas</dt>
<dd>Either the cas number or the chemical name must be
specified.</dd>
<dt>chem.name</dt>
<dd>Either the chemical name or the CAS number must be
specified.</dd>
<dt>daily.dose</dt>
<dd>Total daily dose infused in units of mg/kg BW/day.
Defaults to 1 mg/kg/day.</dd>
<dt>which.quantile</dt>
<dd>Which quantile from the SimCYP Monte Carlo simulation
is requested. Can be a vector.</dd>
<dt>species</dt>
<dd>Species desired (either "Rat" or default "Human").</dd>
<dt>clearance.assay.conc</dt>
<dd>Concentration of chemical used in measureing
intrinsic clearance data, 1 or 10 uM.</dd>
<dt>output.units</dt>
<dd>Returned units for function, defaults to mg/L but can
also be uM (specify units = "uM").</dd>
<dt>suppress.messages</dt>
<dd>Whether or not the output message is suppressed.</dd></dl>

Arguments

Author

Get literature Css — get_lit_css

<dl>

<dt>chem.cas</dt>
<dd>Either the cas number or the chemical name must be
specified.</dd>


<dt>chem.name</dt>
<dd>Either the chemical name or the CAS number must be
specified.</dd>


<dt>daily.dose</dt>
<dd>Total daily dose infused in units of mg/kg BW/day.
Defaults to 1 mg/kg/day.</dd>


<dt>which.quantile</dt>
<dd>Which quantile from the SimCYP Monte Carlo simulation
is requested. Can be a vector.</dd>


<dt>species</dt>
<dd>Species desired (either "Rat" or default "Human").</dd>


<dt>clearance.assay.conc</dt>
<dd>Concentration of chemical used in measureing
intrinsic clearance data, 1 or 10 uM.</dd>


<dt>output.units</dt>
<dd>Returned units for function, defaults to mg/L but can
also be uM (specify units = "uM").</dd>


<dt>suppress.messages</dt>
<dd>Whether or not the output message is suppressed.</dd>

</dl>

Get literature Css

get_lit_css: Get literature Css

Description

Usage

Value

Arguments

Author

References

Examples