Two new approaches to improve the analysis of BALB/c 3T3 cell transformation assay data

Validation activities of the BALB/c 3T3 cell transformation assay (CTA) – a test method used for the assessment of the carcinogenic potential of compounds – have revealed the need for statistical analysis tailored to specific features of BALB/c 3T3 CTA data. Whereas a standard statistical approach for the Syrian hamster embryo (SHE) CTA was considered sufficient, an international expert group was gathered by the European Centre for the Validation of Alternative Methods (ECVAM) to review commonly applied statistical approaches for BALB/c 3T3 CTA. As it was concluded that none of the commonly applied approaches is entirely appropriate, two novel statistical approaches were found to be recommended for the evaluation of BALB/c 3T3 CTA data accounting for possible non-monotone concentration–response relationship and variance heterogeneity: a negative binomial generalised linear model with William's-type downturn-protected trend tests and a normalisation of the data by a specific transformation allowing for application of a general linear model that estimates effects assuming a normal distribution with William's-type protected tests. Both approaches are described in this article and their performance and the quality of the results they generate is demonstrated using exemplary data. Our work confirmed that both approaches are suitable for the statistical analysis of BALB/c 3T3 CTA data and that each of them is superior to commonly used methods. Furthermore, a procedure dichotomising data into negatives and positives is proposed which allows re-testing in cases where inconclusive data are encountered. The scripts of the statistical evaluation programs written in R – a freely available statistical software – are appended including exemplary outputs

Two-vibron bound states in alpha-helix proteins : the interplay between the intramolecular anharmonicity and the strong vibron-phonon coupling

The influence of the intramolecular anharmonicity and the strong vibron-phonon coupling on the two-vibron dynamics in an $\alpha$-helix protein is studied within a modified Davydov model. The intramolecular anharmonicity of each amide-I vibration is considered and the vibron dynamics is described according to the small polaron approach. A unitary transformation is performed to remove the intramolecular anharmonicity and a modified Lang-Firsov transformation is applied to renormalize the vibron-phonon interaction. Then, a mean field procedure is realized to obtain the dressed anharmonic vibron Hamiltonian. It is shown that the anharmonicity modifies the vibron-phonon interaction which results in an enhancement of the dressing effect. In addition, both the anharmonicity and the dressing favor the occurrence of two different bound states which the properties strongly depend on the interplay between the anharmonicity and the dressing. Such a dependence was summarized in a phase diagram which characterizes the number and the nature of the bound states as a function of the relevant parameters of the problem. For a significant anharmonicity, the low frequency bound states describe two vibrons trapped onto the same amide-I vibration whereas the high frequency bound states refer to the trapping of the two vibrons onto nearest neighbor amide-I vibrations.Comment: may 2003 submitted to Phys. Rev.

Application of Experimental Design to Hydrogen Storage: Optimisation of Lignin-Derived Carbons

Lignin is a significant by-product of the paper pulping and biofuel industries. Upgrading lignin to a high-value product is essential for the economic viability of biorefineries for bioethanol production and environmentally benign pulping processes. In this work, the feasibility of lignin-derived activated carbons for hydrogen storage was studied using a Design of Experiments methodology, for a time and cost-efficient exploration of the synthesis process. Four factors (carbonisation temperature, activation temperature, carbonisation time, and activation time) were investigated simultaneously. Development of a mathematical model allowed the factors with the greatest impact to be identified using regression analysis for three responses: surface area, average pore size, and hydrogen uptake at 77 K and 1 bar. Maximising the surface area required activation conditions using the highest settings, however, a low carbonisation temperature was also revealed to be integral to prevent detrimental and excessive pore widening. A small pore size, vital for efficient hydrogen uptake, could be achieved by using low carbonisation temperature but also low activation temperatures. An optimum was achieved using the lowest carbonisation conditions (350 °C for 30 min) to retain a smaller pore size, followed by activation under the severest conditions (1000 °C for 60 min) to maximise surface area and hydrogen uptake. These conditions yielded a material with a high surface area of 1400 m2 g−1 and hydrogen uptake of 1.9 wt.% at 77 K and 1 bar

Influence of Aromatic Structure on the Thermal Behaviour of Lignin

Lignin, a natural biopolymer and abundant by-product, is a particularly promising feedstock for carbon-based materials and a potentially sustainable alternative to phenolic resins, which are typically derived from crude oil. The source and method used to isolate lignin have a large impact on the thermal properties of the polymer, and can affect resultant materials prepared from lignin. Previous investigations into lignin characterisation often utilise a variety of feedstocks and isolation methods, which can make robust comparisons challenging. We present a systematic investigation into the chemical composition of lignins extracted using an identical Organosolv isolation method but from different biomass feedstocks: hemp hurds, eucalyptus chips, flax straw, rice husk and pine. We show how the aromatic structure of lignin can affect the thermal behaviour of the polymer, which correlates to the structure of resulting carbons. Carbons from lignins with a high syringyl unit content display a pronounced foaming behaviour which, on activation, results in a high-surface area material with hierarchical porosity

Surfactant behavior of sodium dodecylsulfate in deep eutectic solvent choline chloride/urea

Deep eutectic solvents (DES) resemble ionic liquids but are formed from an ionic mixture instead of being a single ionic compound. Here we present some results that demonstrate that surfactant sodium dodecyl sulfate (SDS) remains surface-active and shows self-assembly phenomena in the most commonly studied DES, choline chloride/urea. X-ray reflectivity (XRR) and small angle neutron scattering (SANS) suggest that the behavior is significantly different from that in water. Our SANS data supports our determination of the critical micelle concentration using surface-tension measurements and suggests that the micelles formed in DES do not have the same shape and size as those seen in water. Reflectivity measurements have also demonstrated that the surfactants remain surface-active below this concentration