acid_contribution: Calculate contributions of respiration and glycolysis to...

In jdreyf/sybilxf: R package for integration of Seahorse extracellular flux (XF) data with metabolic modeling.

Description

Calculate contributions of respiration and glycolysis to extracellular acid production from Mookerjee et al. (2015a), equation 3.

Usage

acid_contribution(PPR_total, OCR_total, OCR_nonmit, mho = 1, pH = 7.4,
  pK1 = 6.093)

Arguments

PPR_total	Proton Production Rate = ECAR / buffering power, from Mookerjee et al. (2015b), equation 3.
OCR_total	Oxygen Consumption Rate (pmol O2/min).
OCR_nonmit	Non-mitochondrial OCR remaining after complete mitochondrial inhibition, eg with rotenone.
mho	maximum H+/O2. 1.0 for glucose and glycogen, 0.8 for pyruvate, 0.65 for palmitate.
pH	pH of the experiment.
pK1	Overall pK for CO2(aq) + H2O -> HCO3<e2><88><92> + H+, which is 6.093 at 37 Celsius.

Author(s)

Jonathan Dreyfuss

References

Mookerjee SA, Goncalves RL, Gerencser AA, Nicholls DG, Brand MD. The contributions of respiration and glycolysis to extracellular acid production. Biochim Biophys Acta. 2015 Feb;1847(2):171-81.

Mookerjee SA, Brand MD. Measurement and Analysis of Extracellular Acid Production to Determine Glycolytic Rate. J Vis Exp. 2015 Dec 12;(106):e53464.

jdreyf/sybilxf documentation built on May 22, 2019, 4:41 p.m.