Cambridgesoft Chem

Figure 2.22 Zinc-finger-DNA interactions for PDB IZAA as described in reference 31 and the text. Visualized using The PyMOL Molecular Graphics System and Chem-Draw Ultra, version 10.0. (Printed with permission of Delano Scientific, LLC and CambridgeSoft Corporation.) (See color plate)...

Figure 6.8 A group I intron transition state stabilized by two magnesium ions (PDB IZZN). Visualized using CambridgeSoft Chem3D Ultra 10.0 with notations in Chem-Draw Ultra 10.0. (Printed with permission of CambridgeSoft Corporation.)...

To effectively mine the literature for gene versus active chemical compounds (inhibitors or activators), one must tag all of the chemical compound references in the literature and disambiguate all the gene names. After this is done, both NLP and statistical text-mining applications will be much more accurate in both precision and recall.There are currently three commercial efforts to provide chemical compound entity extraction IBM [55], MAI Chem in conjunction with CambridgeSoft [56], and ReelTwo s SureChem [57]. At this time, MDL probably has the best system for extracting not only chemical entities but also reactions however, at this time, it is not known whether the system will be available commercially (personal communication, Helmut Grotz, MDL, 2004). 

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