The advent of tandem mass spectrometry (MS/MS) also known as
shotgun proteomics has enabled the identification of large numbers of proteins
in a biological sample and had become an indispensable tool for academic researchers
as well as pharmaceutical and molecular diagnostic companies around the world.
Currently, the field of tandem mass spectroscopy represents the biggest share
(36%) of the mass spectroscopy market. However, the analysis of large amount
data produced by proteomics experiments in addition to the advances in speed of
modern instrument and growing interest in protein-drug, protein-protein
interaction as well a post-translation modification has produced a significant
challenge. While computer clusters are an option to provide additional
processing power, but due to their expense, difficulty to maintain, and limited
lifespan, there is a need for alternative methods to combat this problem.
Graphic Processing Unit based database searching in MS/MS analysis
The present technology presents a novel peptide identification algorithm that operates on inexpensive and faster Graphic Processing Unit (GPU). The algorithm performs ~150X faster than existing methods and can identify peptide modifications in the sample through in silico digestion. This technology can also be applied to a wide variety of applications like high throughput screening, drug discovery and molecular diagnostics that require similar computations analysis.
* Peptide identification from MS/MS data
* Protein-drug interaction in high throughput screening
* Protein-protein interaction in cellular pathways
* Biomarker analysis from patient’s blood samples
* Reduces computational cost, turnaround time for proteomic analysis and false positives
* Provides cluster level performance on personal workstation and can consider all post-translation modifications