Molecular-Fingerprint Library Searching

The fact that mass, infra-red, NMR and ultra-violet spectra and, to a certain extent, also chromatographic retention data can be considered as molecular fingerprints , forms the basis of most computerised library search systems. Retrieval methods for characteristic chemical data and techniques for the comparison of human fingerprints have similar elements the first step is to clean up the raw data, then in many cases a data reduction is carried out by selection of prominent features. Finally, there is the comparison of unknown and reference data patterns, which, for a useful result, requires a statistical correlation to be established. In this paper no attention will be paid to feature selection. 

On the other hand, there is considerable interest to quantify the similarities between different molecules, in particular, in pharmacology [7], For instance, the search for a new drug may include a comparative analysis of an active molecule with a large molecular library by using combinatorial chemistry. A computational comparison based on the similarity of empirical data (structural parameters, molecular surfaces, thermodynamical data, etc.) is often used as a prescreening. Because the DFT reactivity descriptors measure intrinsic properties of a molecular moiety, they are in fact chemical fingerprints of molecules. These descriptors establish a useful scale of similarity between the members of a large molecular family (see in particular Chapter 15) [18-21],... 

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