Reconfigurable computing solution for Peptide Mass Fingerprinting

Author

Bogdan, I. ; Beynon, R.J. ; Coca, D.

Author_Institution

Dept. of Autom. Control & Syst. Eng., Univ. of Sheffield, Sheffield

fYear

2008

fDate

22-24 May 2008

Firstpage

57

Lastpage

62

Abstract

The paper describes a high-performance rcconfigurable computing solution for real-time peptide mass fingerprinting. The FPGA system can process the raw mass spectrum generated by a MALDI-ToF mass spectrometer and perform a search against the entire MSDB database in 240 ms. This represents an almost 2000 fold speed up compared with an equivalent software implementation in C, running on a single 3 GHz Xeon workstation.

Keywords

biology computing; biomolecular electronics; field programmable gate arrays; proteins; reconfigurable architectures; time of flight mass spectrometers; FPGA system; MALDI-ToF mass spectrometer; MSDB database; Xeon workstation; equivalent software implementation; high-performance rcconfigurable computing; raw mass spectrum; real-time peptide mass fingerprinting; reconfigurable computing; Data processing; Databases; Field programmable gate arrays; Fingerprint recognition; Hardware; Instruments; Mass spectroscopy; Peptides; Proteins; Proteomics;

fLanguage

English

Publisher

ieee

Conference_Titel

Optimization of Electrical and Electronic Equipment, 2008. OPTIM 2008. 11th International Conference on

Conference_Location

Brasov

Print_ISBN

978-1-4244-1544-1

Electronic_ISBN

978-1-4244-1545-8

Type

conf

DOI

10.1109/OPTIM.2008.4602499

Filename

4602499