While considering ways to disseminate RNAi screening data, I found out that PubChem now contains two RNAi screening datasets – AIDs 1622 and 1904. These screens reuse the PubChem bioaassay formats – which is both good and bad. For example, while there are a few standardized columns (such as PUBCHEM_ACTIVITY_SCORE), the bulk of the user […]
I’ve been working on a project in which I needed to generate logP values using ChemDraw 12, for thousands of molecules. Since I didn’t have access to the ChemScript module, I needed a way to automate this procedure. After fiddling around with Visual Studio and various debuggers, I came across the Windows Application Testing Using […]
Recently there have been two papers asking whether cheminformatics or virtual screening in general, have really helped drug discovery, in terms of lead discovery. The first paper from Muchmore et al focuses on the utility of various cheminformatics tools in drug discovery. Their report is retrospective in nature where they note that while much research […]
I’ve put out an updated version (1.0.1) of the CDK descriptor calculator that now supports drag ‘n drop of the input file – just drag an appropriate file onto the UI and the input file text field should be automatically populated. In addition, all file dialogs let OS X users specify a file name manually. […]
I’ve put out a new version (0.98) of the CDK descriptor calculator interface which uses the latest CDK master and also updates the save dialog for the descriptor selections to let the user specify a file name.