Resolution and uniqueness of estimated parameters of a model of thin filament regulation in solution

The estimation of chemical kinetic rate constants for any non-trivial model is complex due to the nonlinear effects of second order chemical reactions. We developed an algorithm to accomplish this goal based on the Damped Least Squares (DLS) inversion method and then tested the effectiveness of this method on the McKillop–Geeves (MG) model of thin filament regulation. The kinetics of MG model is defined by a set of nonlinear ordinary differential equations (ODEs) that predict the evolution of troponin–tropomyosin–actin and actin–myosin states. The values of the rate constants are estimated by integrating these ODEs numerically and fitting them to a series of stopped-flow pyrene fluorescence transients of myosin-S1 fragment binding to regulated actin in solution. The accuracy and robustness of the estimated rate constants are evaluated for DLS and two other methods, namely quasi-Newton (QN) and simulated annealing (SA). The comparison of these methods revealed that SA provides the best estimates of the model parameters because of its global optimization scheme. However it converges slowly and does quantify the uniqueness of the estimated parameters. On the other hand the QN method converges rapidly but only if the initial guess of the parameters is close to the optimum values, otherwise it diverges. Overall, the DLS method proves to be the most convenient method. It converges fast and was able to provide excellent estimates of kinetic parameters. Furthermore, DLS provides the model resolution matrix, which quantifies the interdependence of model parameters thereby evaluating the uniqueness of their estimated values. This property is essential for estimating of the dependence of the model parameters on experimental conditions (e.g. Ca²⁺ concentration) when it is assessed from noisy experimental data such as pyrene fluorescence from stopped-flow transients. The advantages of the DLS method observed in this study should be further examined in other physicochemical systems to firmly establish the observed effectiveness of DSL vs. the other parameter estimation methods.     

Living star polymer formation (RAFT) studied via electrospray ionization mass spectrometry

A mass spectrometry analysis has been performed on complex architecture polymeric material produced during reversible addition fragmentation chain transfer (RAFT) polymerizations yielding star polymers. Para‐acetoxystyrene (AcOSty) has been polymerized at 60 °C, using azobisisobutyronitrile (AIBN) as the thermally decomposing initiator, in the presence of the R‐group approach tetrafunctional RAFT agent (1,2,4,5‐tetrakis‐(2‐phenyl‐thioacetyl‐sulfanylmethyl)‐benzene). In addition to ideal star material, a variety of products unique to this mode of polymerization have been identified. These include star–star couples, stars terminated with initiator fragments, star–star couples terminated with initiator fragments and linear polymers, supporting the notion that these species are responsible for the structured molecular‐weight distributions measured for these systems when analyzed via gel permeation chromatography. The analysis begins with a study of AcOSty polymerizing (i) in the absence of any mediating agent and (ii) in the presence of a monofunctional RAFT agent, revealing the mode of termination of propagating poly(AcOSty) radicals as combination and that some ionization biases exist among variants of poly (AcOSty). The interpretation of the mass spectrometry data has been aided by a novel kinetic model of star polymerizations, allowing the rationalization of experimental observations with theoretical expectations. © 2008 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem 46: 1873–1892, 2008     

Fluctuations in the mean of Euler’s phi function

We consider the error term in the mean value estimate of Euler’s phi function ψ(n), and show that it is Ω_+- (x(log log x)^1/2). This improves on the earlier results of Pillai and Chowla, and of Erdös and Shapiro.     

Singlet and Triplet State Properties and Singlet Oxygen Yield of an Amino-Acyl-Quinoxalinone Yellow Dye

Amino-acyl-quinoxalinone yellow dyes are cyclised analogues of the yellow azomethine dyes developed for, and still used in, silver halide colour photography. Unlike image azomethine dyes, which are rapidly deactivated in their excited states by torsion about the azomethine bond, amino-acyl-quinoxalinone dyes have an interesting photophysics because torsion is not possible due to their cyclised structure. We report results from studies on singlet and triplet state properties, and singlet oxygen yields, of the yellow dye, 7-diethylamino-3-(2,2-dimethyl-propionyl)-5-methyl-1-phenyl-1H-quinoxalin-2-one, in polar and nonpolar solvents. The dye photophysics is characterised by a weak fluorescence, with a solvent dependent emission yield (Φ_F?≈?0.002–0.004), and short singlet state lifetime (τ_expt?≈?20–50 ps), both increasing by a factor of ≈2 in going from polar acetonitrile to non-polar dioxane as solvent. DFT ZINDO calculations show a transition involving significant electron transfer from the diethyl-amino group into the carbonyl region of the molecule. In solution, in the presence of oxygen, the triplet state decays almost exclusively by oxygen quenching, and singlet oxygen is produced in high yield (Φ_??≈?0.5–0.55). The triplet state absorbs across the 450–750 nm region with maxima around 480 and 650 nm, and moderate molar absorption coefficients (ca. 6000–8000 M^?1 cm^?1). In a glass at 77 K, triplet decay gives a red phosphorescence, with λ_max?≈?640–650 nm, and a ?≈?0.25 s lifetime. If singlet oxygen yields are a good indication of triplet yields, then internal conversion and intersystem crossing occur with roughly equal efficiency.

     

Evaluation of Raman probe for oesophageal cancer diagnostics

Early detection of (pre-)cancerous changes improves prognosis, therefore in the UK patients at high risk of developing gastrointestinal cancers are enrolled on endoscopic surveillance programmes or the Bowel Cancer Screening Programme. The current gold standard technique for the detection of pre-cancerous changes in the gastrointestinal tract is histopathological analysis of biopsy tissue collected at endoscopy. This relies upon subjective assessment of morphological changes within the excised tissue samples and poor targeting of pre-malignant lesions. Raman spectroscopy offers a number of potential advantages for in vivo assessment of tissue at endoscopy. The performance of a custom built Raman probe as a biopsy targeting tool has been evaluated using excised biopsy material. Multivariate classification models have been used to demonstrate the likely ability of a miniature, confocal, fibre optic Raman probe to be used as an optical biopsy tool at endoscopy to provide spectral information in clinically practicable timescales. This technique could facilitate improved targeting of excisional biopsy with associated clinical benefits.     

Evaluation of the potential of Raman microspectroscopy for prediction of chemotherapeutic response to cisplatin in lung adenocarcinoma

The study of the interaction of anticancer drugs with mammalian cells in vitro is important to elucidate the mechanisms of action of the drug on its biological targets. In this context, Raman spectroscopy is a potential candidate for high throughput, non-invasive analysis. To explore this potential, the interaction of cis-diamminedichloroplatinum(II) (cisplatin) with a human lung adenocarcinoma cell line (A549) was investigated using Raman microspectroscopy. The results were correlated with parallel measurements from the MTT cytotoxicity assay, which yielded an IC(50) value of 1.2 ± 0.2 μM. To further confirm the spectral results, Raman spectra were also acquired from DNA extracted from A549 cells exposed to cisplatin and from unexposed controls. Partial least squares (PLS) multivariate regression and PLS Jackknifing were employed to highlight spectral regions which varied in a statistically significant manner with exposure to cisplatin and with the resultant changes in cellular physiology measured by the MTT assay. The results demonstrate the potential of the cellular Raman spectrum to non-invasively elucidate spectral changes that have their origin either in the biochemical interaction of external agents with the cell or its physiological response, allowing the prediction of the cellular response and the identification of the origin of the chemotherapeutic response at a molecular level in the cell.