Pharmacokinetics and the analytical chemist

A prerequisite in pharmacokinetic studies is the development of analytical methods to assay the parent drug and its metabolites in biological fluids. For method development and application, a detailed knowledge of pharmacokinetics is not essential, but familiarity with its fundamental principles and terminology is necessary and helps in interpreting assay results and in interacting more effectively with colleagues who may be specialists in medical or related fields. The purpose of this article is to introduce the basic concepts of pharmacokinetics and some of the biological processes associated with it. Areas relevant to the needs of analytical chemists are discussed.     

Multivariate calibration: What is in chemometrics for the analytical chemist?

Chemometrics has been used for some 30 years but there is still need for disseminating the potential benefits to a wider audience. In this paper, we claim that proper analytical chemistry (1) must in fact incorporate a chemometric approach and (2) that there are several significant advantages of doing so. In order to explain this, an indirect route will be taken, where the most important benefits of chemometric methods are discussed using small illustrative examples. Emphasis will be on multivariate data analysis (for example calibration), whereas other parts of chemometrics such as experimental design will not be treated here. Four distinct aspects are treated in detail: noise reduction; handling of interferents; the exploratory aspect and the possible outlier control. Additionally, some new developments in chemometrics are described.     

The task of the analytical chemist in industry

The duties of analytical chemists extend over a wide field, covering many branches of science, and in industry, too, a considerable part of the work consists of analytical determinations. The analytical chemist himself can do much to derive more satisfaction from his more or less subservient task and at the same time to meet more appreciation of his work.Analytical work in a large laboratory consists of: testing of materials and operating control analyses, analyses required for research work, standardisation of analytical methods and analytical research. Decentralisation of this work is often recommendable, especially as regards daily control analyses. However, there should be a central department which is thoroughly acquainted with all the analytical work in the whole laboratory, which sees to it that this work is done as efficiently as possible, which gives advice as to when and where existing methods are to be applied and which tests and developes new methods. Such an “analytical centre” is the source of analytical information for the whole staff.The large number of methods for the determination of the same magnitude and the many variations in procedure for one and the same method sometimes call for standardisation, to facilitate comparison of the results of various investigators.The analytical chemists in a laboratory should also be enabled to carry out analytical research work, so as to retain the necessary freshness and keep abreast of modern developments in their field.     

Chemical sensing in the environment: The challenge to the analytical chemist

A contemporary appraisal of chemical sensing in the environment reveals that there are few sound applications. This situation arises from the current state of sensor technology, rather than a lack of demand. A more strategic approach to the development of chemical sensors should lead to the production of useful devices.     

Quantitative proteomics for cancer biomarker discovery

The mass spectrometry (MS)-based quantitative proteomics is powerful to discover disease biomarkers that can provide diagnostic, prognostic and therapeutic targets, and it also can address important problems in clinical and translational medical research. The current status of MS-based quantification strategy and technical advances of several main quantitative assays (two-dimensional (2-D) gel-based methods, stable isotope labeling with amino acids in cell culture (SILAC), isotope-coded affinity tag (ICAT), the isobaric tags for relative and absolute quantification (iTRAQ), 1?O labeling, absolute quantitation and label-free quantitation) have been summarized and reviewed. At present, except 2-D gel-based methods, several stable isotope labeling quantitative techniques, including SILAC, ICAT and iTRAQ, etc, have been widely applied in identification of differential expression of proteins, post-translational modifications and protein-protein interactions in order to look for novel candidate cancer biomarkers from different physiological states of cells, body fluids or tissue samples. Also, the advantages and challenges of different quantitative proteomic approaches are discussed in identification and validation of candidate targets.     

Targeting cancer treatment: the challenge of anatomical pathology to the analytical chemist

Anatomical pathology involves the scrutiny of specimens of human tissue for the diagnosis of disease. Included in this field is cytopathology which addresses the evaluation of small groups of cells. Doug Demetrick of the Department of Pathology of the University of Calgary argues that analytical chemistry has had minimal impact in such medical diagnostic endeavours, unlike the situation for hematology, microbiology and molecular genetics. Furthermore, it is stressed that new strategies are required for sample handling, increasing the cost effectiveness of instrumentation, and decreasing the subjectiveness of data processing. In tandem with drug development, it is more important to predict the response of disease to treatment than to concentrate on new methods for diagnosis.     

Atomic weights and isotopic abundances of the elements: A future concern for the analytical chemist

Summary The recent evolution and present status of the atomic weights of the elements is reviewed. Attention is drawn upon a number of rather unknown characteristics of these values: the accuracy of a considerable number of atomic weights has been decreased due to lack of justification of the number of significant figures in published values. Furthermore geological and artificial variations in isotopic composition start to influence atomic weights of some elements being circulated in the reagents market; the analytical chemist should be aware of it.The concept of atomic weights and natural isotopic abundances being fundamental constants of nature should be abandoned.

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Atomgewichte und Isotopenhäufigkeiten der Elemente: ein künftiges Problem für den Analytiker

Zusammenfassung Ein Überblick wird gegeben über die jüngste Entwicklung und den gegenwärtigen Stand. Auf eine Anzahl ziemlich unbekannter Charakteristica dieser Daten wird hingewiesen. So hat z.B. die Genauigkeit vieler Atomgewichte abgenommen, da die Angabe der in den Veröffentlichungen angegebenen Dezimalstellen nicht mehr gerechtfertigt ist. Außerdem beginnen geologische und künstliche Veränderungen in der Isotopenzusammensetzung die Atomgewichte einiger Elemente, die in Reagentien verwendet werden, zu beeinflussen. Der Analytiker sollte darauf achten. Die Vorstellung von Atomgewichten und natürlichen Isotopenhäufigkeiten als grundlegenden Naturkonstanten sollte aufgegeben werden.

Associate Member of the IUPAC International Commission on Atomic Weights.     

Bioanalytical challenges for analytical chemists

Analytical chemistry contributes significantly to the life sciences through developing measurement techniques that provide quantitative chemical information. Developments in biological research present new challenges for analytical chemistry and call for revolutionary methods and new thinking. Dana Spence outlines here some key and unique challenges encountered when making measurements on samples of a biological nature, supported with real examples from his own research.     

Plasma proteomics for biomarker discovery: a study in blue

The performance of Cibacron Blue dye (HiTrapBlue or Affigel Blue) in depleting albumin from plasma, as a pre-treatment for biomarker searching in the low-abundance proteome, is here assessed. It is shown that (i) co-depletion of non-albumin species is an ever-present hazard; (ii) the only proper eluant able to release quantitatively the proteins bound to the dye is boiling 4% SDS-25 mM DTT, an ion shock (2 M NaCl) being quite ineffective in releasing the low-abundance species tightly bound to the dye moiety; (iii) the mechanism of dye-protein interaction, after an initial ion-ion docking, is a robust hydrophobic interaction, which progressively augments at lower and lower pH values; (iv) at pH 2.2 in the presence of 0.1% TFA, the blue resin behaves, for all practical purposes, just as a reverse-phase chromatography column, since all residual proteins present in plasma are completely harvested. However Cibacron Blue technology should not necessarily be discarded: As long as also the plasma fraction adsorbed is properly released and analyzed, together with the flow through, one should be able to perform a viable analysis of the low-abundance proteome.     

Quality, not quantity: the role of natural products and chemical proteomics in modern drug discovery

Chemical genetics and reverse chemical genetics parallel classical genetics but target genes at the protein level and have proven useful in recent years for screening combinatorial libraries for compounds of biological interest. However, the performance of combinatorial chemistry in filling pharmaceutical pipelines has been lower than anticipated and the tide may be turning back to Nature in the search for new drug candidates. Even though diversity oriented synthesis is now producing molecules that are natural product-like in terms of size and complexity, these molecules have not evolved to interact with biomolecules. Natural products, on the other hand, have evolved to interact with biomolecules, which is why so many can be found in pharmacopoeias. However, the cellular targets and modes of action of these fascinating compounds are seldom known, hindering the drug development process. This review focuses on the emergence of chemical proteomics and reverse chemical proteomics as tools for the discovery of cellular receptors for natural products, thereby generating protein/ligand pairs that will prove useful in identifying new drug targets and new biologically active small molecule scaffolds. Such a system-wide approach to identifying new drugable targets and their small molecule ligands will help unblock the pharmaceutical product pipelines by speeding the process of target and lead identification.     

Biomarker discovery in rat plasma for estrogen receptor-alpha action

To support in vivo screening efforts for estrogen receptor (ER) subtype selective therapeutic agents, we initiated work to discover surrogate markers (biomarkers) in blood plasma that would change in response to ER subtype-specific action. We used a proteomic approach employing strong anion exchange chromatography (SAX), PAGE, and MS to identify potential plasma markers for selective ER-alpha action. The methodology was used to compare blood from vehicle-treated rats to blood from rats treated with either 17beta-estradiol (an ER-alpha/ER-beta agonist) or compound 1 (17alpha-ethynyl-[3,2-c]pyrazolo-19-nor-4-androstene-17beta-ol, an ER-alpha-selective agonist). Blood samples were first fractionated by SAX to separate fractions containing dominant common plasma proteins from fractions enriched for less-abundant plasma proteins. 1-D PAGE analysis of fractions depleted of dominant plasma proteins revealed treatment-specific changes in protein profiles. Protein bands that changed reproducibly in response to ER-alpha action were excised from the gel, separated by capillary LC, and identified by microspray ESI-MS. Using this method, the plasma levels of two proteins, transthyretin and apolipoprotein E, were shown to decrease in response to ER-alpha agonism. The method lacked the sensitivity to identify the known, 1000-fold less-abundant, estrogenic marker prolactin (PRL). However, using a commercial RIA and immunoblots, we showed that PRL levels increase significantly in response to treatment with the ER-alpha selective agonist, compound 1.     

Two-dimensional difference gel electrophoresis applied for analytical proteomics: fundamentals and applications to the study of plant proteomics

The present review reports the principles, fundamentals and some applications of two-dimensional difference gel electrophoresis for analytical proteomics based on plant proteome analysis, also emphasizing some advantages of 2-D DIGE over 2-D PAGE techniques. Some fluorescent protein labeling reagents, methods of protein labeling, models of 2-D DIGE experiments, and some limitations of this technique are presented and discussed in terms of 2-D DIGE plant proteomes. Finally, some practical applications of this technique are pointed out, emphasizing its potentialities in plant proteomics.