Sequential interval motif search: unrestricted database surveys of global MS/MS data sets for detection of putative post-translational modifications.

Tandem mass spectrometry is the prevailing approach for large-scale peptide sequencing in high-throughput proteomic profiling studies. Effective database search engines have been developed to identify peptide sequences from MS/MS fragmentation spectra. Since proteins are polymorphic and subject to post-translational modifications (PTM), however, computational methods for detecting unanticipated variants are also needed to achieve true proteome-wide coverage.

A comparison of anatomy-based inverse planning with simulated annealing and graphical optimization for high-dose-rate prostate brachytherapy.

Background And Purpose: Dose distribution in a high-dose-rate (HDR) brachytherapy implant is optimized by adjusting source dwell positions and dwell times along the implanted catheters. Inverse planning with fast simulated annealing (IPSA) is a recently developed algorithm for anatomy-based inverse planning, capable of generating an optimized plan in less than 1min. The purpose of this study is to compare dose distributions achieved using IPSA to those obtained with a graphical optimization (GrO) algorithm for prostate HDR brachytherapy.