Biomedical subjects

Yuan H Zhao

Publications and source records attributed to Yuan H Zhao.

10 recordsLinked to original sources

PubMed2005

Characterisation of the water/o-nitrophenyl octyl ether system in terms of the partition of nonelectrolytes and of ions.

The Abraham linear free energy relationship, or solvation equation, has been applied to literature data on the partition of nonelectrolytes in the water to o-nitrophenyl octyl ether (NPOE) system. The resulting equation is compared to equations for other water to solvent systems using the D-parameter of Abraham and Martins and the theta-parameter of Ishihama and Asakawa. It is shown that as a solvent in partitioning systems, NPOE quite resembles nitrobenzene and 1,2-dichloroethane, and that the latter does not resemble an alkane-like solvent. Using descriptors for simple ions that we have previously obtained, we show that ions and nonelectrolytes can be included in the same linear free energy relationship.

Journal Article↗

PubMed2005

Octanol/water partition of ionic species, including 544 cations.

[structure: see text] Partition coefficients of single ions in the octanol/water system (log P(oct)) have been assigned on the (Ph4As+, Ph4P+) = Ph4B- assumption. The log P(oct) values of Cl-, Br-, and I- ions are then used to obtain the partition coefficients of cations from partition coefficients of the neutral combination of anion and cation. Partition coefficients of 544 cations derived from 585 organic salts from the MedChem database have been studied. The contributions of the aliphatic charge N+ and aromatic charge n+ in these cations have been investigated. The results show that the contributions of N+ and n+ in different homologous series are affected by the attached functional groups and are not constant, although the effect of the central cation is constant along any given homologous series. The latter can be accounted for qualitatively and semiquantitatively by the electrostatic theory of ionic solvation of Abraham and Liszi. A number of regression equations have been established between partition coefficients of ions and partition coefficients of the corresponding neutral species. These equations can be used to estimate octanol/water partition coefficients for additional cations to about 0.5 log unit.

Journal Article↗

PubMed2004

Determination of solvation descriptors for ionic species: hydrogen bond acidity and basicity.

Literature values of Gibbs energies of transfer of ions from water to other solvents have been used in conjunction with our solvation equation to obtain descriptors for univalent ions. It is suggested that descriptors used for nonelectrolytes are not adequate to describe transfers of single ions, and that two specific ionic descriptors (J(+) and J(-)) for cations and anions, respectively, are required. The ions studied include the alkali metal and tetraalkylammonium cations, halide and other anions, and the tetraphenylarsonium, tetraphenylphosphonium, and tetraphenylborate ions. It is shown that simple cations such as Na(+) act as very strong hydrogen bond acids and that the R(4)N(+) ions are only weak hydrogen bond acids. The halide anions are very strong hydrogen bond bases, as is also the acetate anion. Other anions, such as azide, cyanide, and nitrate, are again very strong hydrogen bond bases. The tetraphenylarsonium, tetraphenylphosphonium, and tetraphenylborate ions have no hydrogen bond acidity but are quite strong hydrogen bond bases. It is suggested that this is due to the basic properties of the phenyl groups.

Journal Article↗

PubMed2003

Fast calculation of van der Waals volume as a sum of atomic and bond contributions and its application to drug compounds.

The van der Waals volume is a widely used descriptor in modeling physicochemical properties. However, the calculation of the van der Waals volume (V(vdW)) is rather time-consuming, from Bondi group contributions, for a large data set. A new method for calculating van der Waals volume has been developed, based on Bondi radii. The method, termed Atomic and Bond Contributions of van der Waals volume (VABC), is very simple and fast. The only information needed for calculating VABC is atomic contributions and the number of atoms, bonds, and rings. Then, the van der Waals volume (A(3)/molecule) can be calculated from the following formula: V(vdW) = summation operator all atom contributions - 5.92N(B) - 14.7R(A) - 3.8R(NR) (N(B) is the number of bonds, R(A) is the number of aromatic rings, and R(NA) is the number of nonaromatic rings). The number of bonds present (N(B)) can be simply calculated by N(B) = N - 1 + R(A) + R(NA) (where N is the total number of atoms). A simple Excel spread sheet has been made to calculate van der Waals volumes for a wide range of 677 organic compounds, including 237 drug compounds. The results show that the van der Waals volumes calculated from VABC are equivalent to the computer-calculated van der Waals volumes for organic compounds.

Journal Article↗

PubMed2003

Evaluation of rat intestinal absorption data and correlation with human intestinal absorption.

The absorption of 111 drug and drug-like compounds was evaluated from 111 references based on the ratio of urinary excretion of drugs following oral and intravenous administration to intact rats and biliary excretion of bile duct-cannulated rats. Ninety-eight drug compounds for which both human and rat absorption data were available were selected for correlation analysis between the human and rat absorption. The result shows that the extent of absorption in these two species is similar. For 94% of the drugs the absorption difference between humans and rats is less than 20% and for 98% of drugs the difference is less than 30%. There is only one drug for which human absorption is significantly different from rat absorption. The standard deviation is 11% between human and rat absorption. The linear relationship between human and rat absorption forced through the origin, as determined by least squares regression, is %Absorption (human)=0.997%Absorption (rat) (n=98, SD=11). It is suggested that the absorption in rats could be used as an alternative method to human absorption in pre-clinical oral absorption studies.

Algorithms↗

PubMed2002

Application of hydrogen bonding calculations in property based drug design.

A drug can be characterized by "descriptors" that include size (volume) and H-bond acidity and H-bond basicity. These descriptors can be rapidly estimated from structure by a fragment scheme and used to predict physicochemical and transport properties of drug candidates (e.g. logP, solubility, gastrointestinal absorption, permeability and blood-brain distribution). The solvation equations can be interpreted to provide a qualitative chemical insight into biological partition and transport mechanisms. Applications to blood-brain partition and human intestinal absorption (HIA) are discussed.

Animals↗

PubMed2002

On the mechanism of human intestinal absorption.

In order to investigate whether the main step in intestinal absorption in humans is dominated by partition or by diffusion, we have transformed % human intestinal absorption into a first-order rate constant, and have regressed the latter, as logk, against our solvation parameters. The obtained regression coefficients are compared with those for diffusion and partition processes. The coefficients in the logk equation are completely different to those for water/solvent partitions, but are very similar to those for processes (not involving transport through membranes) in which diffusion is the major step. It is suggested that the main step in the absorption process is diffusion through a stagnant mucus layer, together with transfer across the mucusmid R:membrane interface. It is further shown that for strong Bronsted acids and bases, the rate constant for absorption of ionic species is close to that for absorption of the corresponding neutral species, so that to a first approximation the % intestinal absorption can be calculated from properties of the neutral species.

Biological Transport↗

PubMed2002

Rate-limited steps of human oral absorption and QSAR studies.

PURPOSE: To classify the dissolution and diffusion rate-limited drugs and establish quantitative relationships between absorption and molecular descriptors. METHODS: Absorption consists of kinetic transit processes in which dissolution, diffusion, or perfusion processes can become the rate-limited step. The absorption data of 238 drugs have been classified into either dissolution or diffusion rate-limited based on an equilibrium method developed from solubility, dose, and percentage of absorption. A nonlinear absorption model derived from first-order kinetics has been developed to identify the relationship between percentage of drug absorption and molecular descriptors. RESULTS: Regression analysis was performed between percentage of absorption and molecular descriptors. The descriptors used were ClogP, molecular polar surface area, the number of hydrogen-bonding acceptors and donors, and Abraham descriptors. Good relationships were found between absorption and Abraham descriptors or ClogP. CONCLUSIONS: The absorption models can predict the following three BCS (Biopharmaceutics Classification Scheme) classes of compounds: class I, high solubility and high permeability; class III, high solubility and low permeability; class IV, low solubility and low permeability. The absorption models overpredict the absorption of class II, low solubility and high permeability compounds because dissolution is the rate-limited step of absorption.

Administration, Oral↗

PubMedDate not supplied

Quantitative relationship between rat intestinal absorption and Abraham descriptors.

Literature data on the intestinal absorption of 158 drug and drug-like compounds in rats have been collected, and Abraham descriptors for the set of drugs have been calculated using the method of Platts and Abraham et al. Results show that there is a significant relationship between rat intestinal absorption and the Abraham descriptors. In agreement with the human intestinal absorption model, the dominant descriptors in the rat model are the drug hydrogen bond acidity and basicity. In order to compare the absorption models in humans and rats, the absorption model developed from rats was used to predict the absorption in humans. The rat intestinal absorption model is similar to the human absorption model, and data on rats can effectively be used to predict human intestinal absorption.

Animals↗

PubMedDate not supplied

Determination of McGowan volumes for ions and correlation with van der Waals volumes.

The McGowan volume has been widely used for the analysis of physicochemical and biochemical properties in chemistry and drug industry. Because McGowan volumes are not available for ions, its application is limited to only neutral compounds. Pauling radii of metallic ions have been collected and studied to obtain McGowan volumes for ions. Regression analysis was carried out between Pauling radii (R(p)) and McGowan radii (R(x)) for a wide range of compounds. It was found that Pauling radii and McGowan radii derived from McGowan volumes by using a volume-radius formula are linearly related (R(x) = 1.115R(p) + 0.0623, r(2) = 0.995). This equation is then used to calculate McGowan volumes for various ions and charged groups. McGowan volumes have been calculated for inorganic, organic, and organometallic compounds and correlated with van der Waals volumes. Results show that McGowan volumes (V(x)) are entirely equivalent to computer-calculated van der Waals volumes.

Journal Article↗