Please note: This PhD seminar will be given online.
Fatema Tuz Zohora, PhD candidate
David R. Cheriton School of Computer Science
Supervisor: Professor Ming Li
A promising technique of discovering disease biomarkers is to measure the relative protein abundance in multiple biofluid samples through liquid chromatography with tandem mass spectrometry (LC-MS/MS) based quantitative proteomics. The key step involves peptide feature detection in the LC-MS map, along with its charge and intensity. Existing heuristic algorithms suffer from inaccurate parameters and human errors. As a solution, we propose PointIso, the first point cloud based arbitrary-precision deep learning network to address this problem. It consists of attention based scanning step for segmenting the multi-isotopic pattern of 3D peptide features along with the charge, and a sequence classification step for grouping those isotopes into potential peptide features. PointIso achieves 98% detection of high-quality MS/MS identified peptide features in a benchmark dataset. Besides contributing to the proteomics study, our novel segmentation technique should serve the general object detection domain as well.
To join this PhD seminar on Zoom, please go to https://zoom.us/j/9072366909?pwd=RlRnOFRQSEhLblI1NlhwVnI5a05BZz09.
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