Applications of proteochemometrics - from species extrapolation to cell line sensitivity modelling

Medicinal Chemistr

Improved large-scale prediction of growth inhibition patterns using the NCI60 cancer cell line panel

Medicinal Chemistr

Improved large-scale prediction of growth inhibition patterns using the NCI60 cancer cell line panel

An improved methodology is reported for the regioselective nitration of the phenyl groups of meso-tetraphenylporphyrin 1, using NaNO2 and TFA. The degree of nitration is easily controlled by the equivalent amount of NaNO2 used and the reaction time. The nitroporphyrins are reduced to the corresponding aminoporphyrins under standard SnCl2/HCl conditions. Reaction of tri-aminoporphyrin 9 with 1-formyl-o-carborane followed by reduction using NaBH4 gave a novel tri-carboranylporphyrin bearing amine linkages between the porphyrin and the carborane groups. © 2004 Elsevier Ltd. All rights reserved

Polypharmacology modelling using proteochemometrics (PCM): recent methodological developments, applications to target families, and future prospects

Proteochemometric (PCM) modelling is a computational method to model the bioactivity of multiple ligands against multiple related protein targets simultaneously. Hence it has been found to be particularly useful when exploring the selectivity and promiscuity of ligands on different proteins. In this review, we will firstly provide a brief introduction to the main concepts of PCM for readers new to the field. The next part focuses on recent technical advances, including the application of support vector machines (SVMs) using different kernel functions, random forests, Gaussian processes and collaborative filtering. The subsequent section will then describe some novel practical applications of PCM in the medicinal chemistry field, including studies on GPCRs, kinases, viral proteins (e.g.from HIV) and epigenetic targets such as histone deacetylases. Finally, we will conclude by summarizing novel developments in PCM, which we expect to gain further importance in the future. These developments include adding three-dimensional protein target information, application of PCM to the prediction of binding energies, and application of the concept in the fields of pharmacogenomics and toxicogenomics. This review is an update to a related publication in 2011 and it mainly focuses on developments in the field since then

CASD-NMR: critical assessment of automated structure determination by NMR.

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