Combining Gene Expression Profiles and Drug Activity Patterns Analysis: A Relational Clustering Approach

The combined analysis of tissue micro array and drug response datasets has the potential of revealing valuable knowledge about various relations among gene expressions and drug activity patterns in tumor cells. However, the amount and the complexity of biological data needs appropriate data mining models in order to extract interesting patterns and useful information. The ultimate goal of this paper is to define a model which, given the gene expression profile related to a specific tumor tissue, could help in selecting a set of most responsive drugs. This is accomplished through an integrated framework based on a constraint-based clustering algorithm, called Relational K-Means, which groups cell lines using drug response information and taking into account cell-to-cell relationships derived from their gene expression profiles.     

The Michael addition of indoles to alpha,beta-unsaturated ketones catalyzed by CeCl3.7H2O-NaI combination supported on silica gel

Alkylation of indoles by means of the Michael addition has been the subject of a number of investigation. It is well established that regioselectivity in the additions of indoles to electron-deficient alkenes is strongly controlled by the reaction medium. In a continuation of the work on developing greener and cleaner technologies, the cerium(III) chloride heptahydrate and sodium iodide combination supported on silica gel catalyzes the alkylation of various indoles with alpha,beta-unsaturated ketones giving 3-(3-oxoalkyl)indole derivatives in good yields. The substitution on the indole nucleus occurred exclusively at the 3-position, and N-alkylation products have not been observed.     

Phase transitions for random walk asymptotics on free products of groups

Suppose we are given finitely generated groups Γ₁,…,Γ_m equipped with irreducible random walks. Thereby we assume that the expansions of the corresponding Green functions at their radii of convergence contain only logarithmic or algebraic terms as singular terms up to sufficiently large order (except for some degenerate cases). We consider transient random walks on the free product Γ₁* … *Γ_m and give a complete classification of the possible asymptotic behaviour of the corresponding n‐step return probabilities. They either inherit a law of the form ?^nδn log n from one of the free factors Γ_i or obey a ?^nδn^?3/2‐law, where ? < 1 is the corresponding spectral radius and δ is the period of the random walk. In addition, we determine the full range of the asymptotic behaviour in the case of nearest neighbour random walks on free products of the form $\mathbb{Z}^{d_1}\ast \ldots \ast \mathbb{Z}^{d_m}Suppose we are given finitely generated groups Γ₁,…,Γ_m equipped with irreducible random walks. Thereby we assume that the expansions of the corresponding Green functions at their radii of convergence contain only logarithmic or algebraic terms as singular terms up to sufficiently large order (except for some degenerate cases). We consider transient random walks on the free product Γ₁* … *Γ_m and give a complete classification of the possible asymptotic behaviour of the corresponding n‐step return probabilities. They either inherit a law of the form ?^nδn log n from one of the free factors Γ_i or obey a ?^nδn^?3/2‐law, where ? < 1 is the corresponding spectral radius and δ is the period of the random walk. In addition, we determine the full range of the asymptotic behaviour in the case of nearest neighbour random walks on free products of the form $\mathbb{Z}^{d_1}\ast \ldots \ast \mathbb{Z}^{d_m}$. Moreover, we characterize the possible phase transitions of the non‐exponential types n log n in the case Γ₁ * Γ₂. © 2011 Wiley Periodicals, Inc. Random Struct. Alg., 2012     

Metastability and exponential approach to equilibrium for low-temperature stochastic Ising models

We present a proof of the exponential convergence to equilibrium of single-spin-flip stochastic dynamics for the two-dimensional Ising ferromagnet in the low-temperature case with not too small external magnetic fieldh uniformly in the volume and in the boundary conditions.     

Traceless solid-phase synthesis of 2,4,6-chlorodiamino and triaminopyrimidines

An effective traceless solid-phase synthesis of chloro-diaminopyrimidines via an amino-de-chlorination reaction of polymer-bound 4-alkoxycarbonylamino-2,6-dichloropyrimidines has been developed. After release from the polymer the target molecules were obtained in good to excellent purity, although with modest regiocontrol. Further reaction of solid-supported N-alkoxycarbonyl-chloro-diaminopyrimidines with secondary amines afforded triaminopyrimidines in good purity under mild conditions, whereas less nucleophilic primary amines did not perform well under the conditions explored so far.     

Synthesis of polymers containing regularly distributed tetrathia‐[7]‐elicene units along the backbone

A tetrathia‐[7]‐helicene bearing in the 2 and 13 positions cyanovinyl groups was used as comonomer in the Michael‐type polyaddition reaction with N,N′‐bis(β‐mercaptoethyl)piperazine. This led to a new polymer bearing tetrathia‐[7]‐helicene units regularly distributed along the polymer backbone, which may be regarded as the first example of a new family of potentially useful nonlinear optical materials. All products were structurally characterized by ¹H and ¹³C NMR spectroscopy. Differential scanning calorimetry characterizations revealed the presence, in both monomeric and polymeric helicenes, of glass‐transition like temperatures, associated to some conformational variation of the helicene units. The optical properties, the film formation and the morphology of the polymer‐containing tetratia‐[7]‐helicenes were also investigated. © 2010 Wiley Periodicals, Inc. J Polym Sci Part A: Polym Chem, 2010     

Evaluation of the interaction parameter for poly(ε‐caprolactone)/poly(styrene‐co‐acrylonitrile) blends

In this article, the miscibility of poly(ε‐caprolactone) (PCL) with poly(styrene‐co‐acrylonitrile) (SAN) containing 25 wt % of acrylonitrile is studied from both a qualitative and a quantitative point of view. The evidences coming from thermal analysis (differential scanning calorimetry) demonstrate that PCL and SAN are miscible in the whole range of composition. The Flory interaction parameter χ_1,2 was calculated by the Patterson approximation and the melting point depression of the crystalline phase in the blends; in both cases, negative values of χ_1,2 were found, confirming that the system is miscible. The interaction parameter evaluated within the framework of the mean field theory demonstrates that the miscibility of PCL/SAN blends is due to the repulsive interaction between the styrene and acrylonitrile segments in SAN. © 2010 Wiley Periodicals, Inc. J Polym Sci Part B: Polym Phys, 2010     

Achillea moschata Wulfen: From Ethnobotany to Phytochemistry,Morphology, and Biological Activity

A multidisciplinary investigation on Achillea moschata Wulfen (Asteraceae) is outlined herein. This work, part of the European Interreg Italy–Switzerland B-ICE project, originated from an ethnobotanical survey performed in Chiesa in Valmalenco (Sondrio, Lombardy, Northern Italy) in 2019–2021 which highlighted this species’ relevance of use in folk medicine to treat gastrointestinal diseases. In addition, this contribution included analyses of the: (a) phytochemical profile of the aqueous and methanolic extracts of the dried flower heads using LC-MS/MS; (b) morpho-anatomy and histochemistry of the vegetative and reproductive organs through Light, Fluorescence, and Scanning Electron Microscopy; (c) biological activity of the aqueous extract concerning the antioxidant and anti-inflammatory potential through cell-based in vitro models. A total of 31 compounds (5 phenolic acids, 13 flavonols, and 13 flavones) were detected, 28 of which included in both extracts. Covering and secreting trichomes were observed: the biseriate 10-celled glandular trichomes prevailing on the inflorescences represented the main sites of synthesis of the polyphenols and flavonoids detected in the extracts, along with volatile terpenoids. Finally, significant antioxidant and anti-inflammatory activities of the aqueous extract were documented, even at very low concentrations; for the first time, the in vitro tests allowed us to formulate hypotheses about the mechanism of action. This work brings an element of novelty due to the faithful reproduction of the traditional aqueous preparation and the combination of phytochemical and micromorphological research approaches.     

Investigation into the Use of Encorafenib to Develop Potential PROTACs Directed against BRAFV600E Protein

BRAF is a serine/threonine kinase frequently mutated in human cancers. BRAF^V600E mutated protein is targeted through the use of kinase inhibitors which are approved for the treatment of melanoma; however, their long-term efficacy is hampered by resistance mechanisms. The PROTAC-induced degradation of BRAF^V600E has been proposed as an alternative strategy to avoid the onset of resistance. In this study, we designed a series of compounds where the BRAF kinase inhibitor encorafenib was conjugated to pomalidomide through different linkers. The synthesized compounds maintained their ability to inhibit the kinase activity of mutated BRAF with IC₅₀ values in the 40–88 nM range. Selected compounds inhibited BRAF^V600E signaling and cellular proliferation of A375 and Colo205 tumor cell lines. Compounds 10 and 11, the most active of the series, were not able to induce degradation of mutated BRAF. Docking and molecular dynamic studies, conducted in comparison with the efficient BRAF degrader P5B, suggest that a different orientation of the linker bearing the pomalidomide substructure, together with a decreased mobility of the solvent-exposed part of the conjugates, could explain this behavior.