Bin Ma

Bin Ma
Professor, University Research Chair
David R. Cheriton School of Computer Science
University of Waterloo
Waterloo, ON, Canada N2L 3G1
Email:

Phone: (519) 888-4567x32747
Office: DC3345

Past Experience

07/2011-now Professor. Cheriton School of Computer Science, University of Waterloo.
07/2008-06/2011 Associate Professor. Cheriton School of Computer Science, University of Waterloo.
08/2000-06/2008 Assistant Professor, Associate Professor, Canada Research Chair. Dept. Computer Science , University of Western Ontario.
10/1999-07/2000 Postdoc. University of Waterloo.
09/1994-07/1999 Ph.D. degree. Beijing (Peking) University.
02/1998-01/1999 Research Assistant. City University of Hong Kong.

Courses

CS 482/682 Winter 2022: Computational Techniques in Biological Sequence Analysis. https://cs.uwaterloo.ca/~binma/cs482/

Hiring

A postdoc in computational proteomics. See job description of the postdoc position.
A bioinformatics software developer. See job description of the developer position.

Awards

Outstanding Young Computer Science Researcher prize, Canadian Association for Computer Science, 2010.
Premier's Catalyst Award for Best Young Innovator, Ontario, 2009.
Premier's Research Excellence Award, Ontario, 2003.

Selected Software

Novor. Novor is the first and only de novo peptide sequencing software with a speed that exceeds the throughput of today's fastest mass spectrometer. On a laptop computer, it can de novo sequence more than 300 spectra per second. The accuracy is also significantly better than other available software packages. It is free for academic usages.
PEAKS (versions 1.0 to 7.0): PEAKS is the most popularly used peptide de novo sequencing software from mass spectrometry data. Software was initially written by me and then has been developed at Bioinformatics Solutions Inc. under my direction since 2002. I have led the development of PEAKS from its version 1.0 to 7.0; but have moved on to the Novor project since Jan. 2015.
GlycoMaster DB: GlycoMaster DB identifies glycopeptides with their mass spectral data. Software was written by my former Ph.D. student Lin He.
CHAMPS: CHAMPS software sequences a protein's amino acid sequence from its tandem mass spectrometry data and a homologous protein. Software was written by my former postdoc Xiaowen Liu.