Activity cliffs (ACs) are defined as pairs of structurally similar compounds sharing the same biological activity but having a large difference in potency. Therefore, ACs are often studied to rationalize structure-activity relationships (SARs) and aid in lead optimization. Hence, the AC concept plays an important role in compound development. For compound… (More)
Activity cliffs (ACs) are formed by structurally similar compounds with large differences in activity. Accordingly, ACs are of high interest for the exploration of structure-activity relationships (SARs). ACs reveal small chemical modifications that result in profound biological effects. The ability to foresee such small chemical changes with significant… (More)
Compound optimization generally requires considering multiple properties in concert and reaching a balance between them. Computationally, this process can be supported by multi-objective optimization methods that produce numerical solutions to an optimization task. Since a variety of comparable multi-property solutions are usually obtained further… (More)
Matched molecular pairs (MMPs) are widely used in medicinal chemistry to study changes in compound properties including biological activity, which are associated with well-defined structural modifications. Herein we describe up-to-date versions of three MMP-based data sets that have originated from in-house research projects. These data sets include… (More)
Matched molecular pairs (MMPs) consist of pairs of compounds that are transformed into each other by a substructure exchange. If MMPs are formed by compounds sharing the same biological activity, they encode a potency change. If the potency difference between MMP compounds is very small, the substructure exchange (chemical transformation) encodes a… (More)
We have searched for chemical transformations that improve drug development-relevant properties within a given class of active compounds, regardless of the compounds they are applied to. For different compound data sets, varying numbers of frequently occurring data set-dependent transformations were identified that consistently induced favorable changes of… (More)
The whole-genome shotgun sequence of Rhodococcus ruber strain Chol-4 is presented here. This organism was shown to be able to grow using many steroids as the sole carbon and energy sources. These sequence data will help us to further explore the metabolic abilities of this versatile degrader.
The design of activity landscape representations is challenging when compounds are active against multiple targets. Going beyond three or four targets, the complexity of underlying activity spaces is difficult to capture in conventional activity landscape views. Previous attempts to generate multitarget activity landscapes have predominantly utilized… (More)