Quantitative structure-activity studies QSAR

Quantitative Structure—Activity Relationships (QSAR). Quantitative Stmcture—Activity Relationships (QSAR) is the name given to a broad spectmm of modeling methods which attempt to relate the biological activities of molecules to specific stmctural features, and do so in a quantitative manner (see Enzyme INHIBITORS). The method has been extensively appHed. The concepts involved in QSAR studies and a brief overview of the methodology and appHcations are given here. 

In 1868 two Scottish scientists, Crum Brown and Fraser [4] recognized that a relation exists between the physiological action of a substance and its chemical composition and constitution. That recognition was in effect the birth of the science that has come to be known as quantitative structure-activity relationship (QSAR) studies a QSAR is a mathematical equation that relates a biological or other property to structural and/or physicochemical properties of a series of (usually) related compounds. Shortly afterwards, Richardson [5] showed that the narcotic effect of primary aliphatic alcohols varied with their molecular weight, and in 1893 Richet [6] observed that the toxicities of a variety of simple polar chemicals such as alcohols, ethers, and ketones were inversely correlated with their aqueous solubilities. Probably the best known of the very early work in the field was that of Overton [7] and Meyer [8], who found that the narcotic effect of simple chemicals increased with their oil-water partition coefficient and postulated that this reflected the partitioning of a chemical between the aqueous exobiophase and a lipophilic receptor. This, as it turned out, was most prescient, for about 70% of published QSARs contain a term relating to partition coefficient [9]. 

Benigni R, Giuliani A. Quantitative structure-activity relationship (QSAR) studies of mutagens and carcinogens. Med Res Rev 1996 16 267-84. 

A httle number of works performing Bfx and Fx quantitative structure-activity relationship (QSAR) studies have been described. On the other hand, to gain insight into the biological behavior of Bfxs and Fxs some studies... 

The increased interest in 3D aspects of organic chemistry and quantitative structure-activity relationship (QSAR) studies has caused an increasing need for a much broader access to 3D molecular structures from experiment or calculation. 

Certain computational methodologies such as some approaches to quantitative structure-activity relationship (QSAR) studies use 3D ligand structures [37, 38]. These methods generally assume that a bioactive conformation has been estab-Hshed for a set of molecules and that these conformers can be ahgned in a maimer that reflects the relative orientation they would adopt in a binding site. It is thus... 

The CHI index is reportedly a relevant parameter in quantitative structure-activity relationship (QSAR) studies [41]. With this approach, log P could be determined in the range -0.45more than 25000 compounds with excellent reproducibility (within 2 index units) and reported in a GlaxoSmithKline database [11]. Two main drawbacks were identified using this approach (i) the assumptions used in Ref [7], i.e. that S is constant for all compounds and that the system dwell volume is excluded in calculations, yield some discrepancies in the resulting log P, and (ii) the set of gradient calibration... 

Lipophilicity is the measure of the partitioning of a compound between a lipidic and an aqueous phase [1]. The terms lipophilicity and hydrophobicity are often used inconsistently in the literature. Lipophilicity encodes most of the intramolecular forces that can take place between a solute and a solvent. Hydrophobicity is a consequence of attractive forces between nonpolar groups and thereby is a component of lipophilicity [2]. Lipophilicity is one of the most informative physicochemical properties in medicinal chemistry and since long successfully used in quantitative structure-activity relationship (QSAR) studies. Its... 

Frequent contacts with the manufacturer of verapamil, the Knoll company in Ludwigshafen, enabled an intense communication with Hugo Kubinyi, working at that time as a medicinal chemist for Knoll. As a consequence of frequent fruitful discussions with Hugo I included quantitative structure-activity relationship (QSAR) studies on verapamil congeners in my PhD work and continued working in the QSAR field till the present. 

In a study by Andersson et al. [30], the possibilities to use quantitative structure-activity relationship (QSAR) models to predict physical chemical and ecotoxico-logical properties of approximately 200 different plastic additives have been assessed. Physical chemical properties were predicted with the U.S. Environmental Protection Agency Estimation Program Interface (EPI) Suite, Version 3.20. Aquatic ecotoxicity data were calculated by QSAR models in the Toxicity Estimation Software Tool (T.E.S.T.), version 3.3, from U.S. Environmental Protection Agency, as described by Rahmberg et al. [31]. To evaluate the applicability of the QSAR-based characterization factors, they were compared to experiment-based characterization factors for the same substances taken from the USEtox organics database [32], This was done for 39 plastic additives for which experiment-based characterization factors were already available. 

Although traditional octanol/water distribution coefficients are still widely used in quantitative structure-activity relationships (QSAR) and in ADME/ pharmacokinetic (PK) studies, alternatives have been proposed. To cover the variability in biophysical characteristics of different membrane types, a set of four solvents has been suggested - sometimes called the critical quartet [49-51], The 1,2-dichloroethane (DCE)/water system has been promoted as a good alternative to alkane/water due to its far better dissolution properties [50, 51], but it may be used only rarely due to its carcinogenic properties. 

Thiadiazole 1 and its derivatives were used as model compounds for the calculation of molecular parameters related to physical properties for their use in quantitative structure-activity relationship (QSAR) and quantitative structure-property relationship (QSPR) studies <1999EJM41, 2003IJB2583, 2005JMT27>. 

Laughlin, R.B., Jr. 1987. Quantitative structure-activity studies of di- and triorganotin compounds. Pages 198-206 in K.L.E. Kaiser (ed.). QSAR in Environmental Toxicology — II. D. Reidel Publ., Dordrecht, The Netherlands. 

QEKIRVRLSA antimicrobial peptide, 26 799-800 Qiana, 19 764 QikProp, 6 18 Qinghai Lake, 5 784 Q parameter, impeller, 16 676 QSAR analysis, 10 327t, 328-329. See also Quantitative structure—activity relationship (QSAR) studies 3D QSAR models... 

Lipophilicity appears in several Quantitative Structure-Activity Relationships (QSAR) studies [16], emphasizing its importance. Different in vitro assays have been reported to measure lipophilicity from the classical shake-flask technique that still remains the reference for lipophilicity measurements to more actual methodologies. The first procedure is time-consuming, sensitive to impurities and the measurable log Poct range restricted to -3 to 3 [17]. 

The chemometric basic tools may be divided into the following typologies of study data exploration, modelling, prediction and validation, design of experiments (DOE), process analytical technology (PAT), quantitative structure-activity relationship (QSAR). Details and relevant literature are reported in the following paragraphs. 

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