Database on Demand - An online tool for the custom generation of FASTA-formatted sequence databases

摘要

In mass spectrometry-based proteomics, most conventional search engines match spectral data to sequence databases. These search databases thus play a crucial role in the identifi-cation process. While search engines can derive peptides in silico from protein sequences, this is usually limited to standard digestion algorithms. Customized search databases that provide detailed control over the search space can vastly outperform such standard strategies, especially in gel-free proteomics experiments. Here we present Database on Demand, an easy-touse web tool that can quickly produce a wide variety of customized search databases.