Other
This blog post by Derek Lowe, who writes the In the Pipeline Blog, is best captured in terms of his opening sentence: "There's a truly disturbing paper out in PLoSONE with potential implications for a lot of assay data out there in the literature. "
Other
This mini-review discusses some of the most common issues with public domain biological data related to chemogenomic analysis. The errors in data can originate from problems with the experiments themselves and their interpretation, or from more mundane issues such as data extraction and annotation. These issues are not unique for a certain database but are shared by all the public domain databases and can plague commercial and in-house bioactivity databases as well.
Project
John Chodera from the Memorial Sloan-Kettering Cancer Center modeled one of the main features of the Echo. Its direct dispensing technology that allows a dilution series over several orders of magnitude in concentration to be created directly without the need for serial dilution. Could the observed discrepancy be explained by the difference in the accuracy with which a serial dilution can be created by these two technologies? His modeling work examines this question
Related content
A Drug Discovery Today Article reviewing our article and the questions "How do researchers know whether new molecules will have a positive or negative effect? How much does the technique for moving a liquid affect the results? What about testing compounds for their environmental or health impacts: Is one liquid handling process better than another when it comes to accuracy of the data? "
Presentation
SlideShare Presentation: Dispensing processes profoundly influence estimates of biological activity of compounds. In this study using published inhibitor data for the tyrosine kinase EphB4, we show that IC50 values obtained via disposable tip-based serial dilution and dispensing versus acoustic dispensing differ by orders of magnitude with no correlation or ranking of datasets.
Presentation
POSTER on Slideshare: Dispensing processes and the tools used have a profound influence on estimates of compound activity. Researchers have shown that leachates from plastic labware can profoundly affect biological assays. Data derived using disposable tip-based serial dilution and dispensing have shown a reduction in inhibition compared to acoustic dispensing with some compounds appearing hundreds of times more active with the acoustic process.
Related content
A blog post by Sean Ekins on the Collaborative Drug Discovery website.
The following have contributed to these resources: Antony Williams, Sean Ekins, and Joe Olechno