SpecAlign - processing and alignment of mass spectra datasets. - Jason W. H. Wong; Gerard Cagney; Hugh M. Cartwright (Bioinform., 2005)

Deterministic projection by growing cell structure networks for visualization of high-dimensionality datasets. - Jason W. H. Wong; Hugh M. Cartwright (J. Biomed. Informatics, 2005)

msmsEval: tandem mass spectral quality assignment for high-throughput proteomics. - Jason W. H. Wong; Matthew J. Sullivan; Hugh M. Cartwright; Gerard Cagney (BMC Bioinform., 2007)

Computational methods for the comparative quantification of proteins in label-free LCn-MS experiments. - Jason W. H. Wong; Matthew J. Sullivan; Gerard Cagney (Briefings Bioinform., 2008)

ETISEQ - an algorithm for automated elution time ion sequencing of concurrently fragmented peptides for mass spectrometry-based proteomics. - Jason W. H. Wong; Alexander B. Schwahn; Kevin M. Downard (BMC Bioinform., 2009)

An Overview of Label-Free Quantitation Methods in Proteomics by Mass Spectrometry. - Jason W. H. Wong; Gerard Cagney (Proteome Bioinformatics, 2010)

FluTyper-an algorithm for automated typing and subtyping of the influenza virus from high resolution mass spectral data. - Jason W. H. Wong; Alexander B. Schwahn; Kevin M. Downard (BMC Bioinform., 2010)

Signal analysis for genome-wide maps of histone modifications measured by ChIP-seq. - Dominik Beck; Miriam Brandl; Lies Boelen; Ashwin Unnikrishnan; John E. Pimanda; Jason W. H. Wong (Bioinform., 2012)

FluShuffle and FluResort: new algorithms to identify reassorted strains of the influenza virus by mass spectrometry. - Aaron T. L. Lun; Jason W. H. Wong; Kevin M. Downard (BMC Bioinform., 2012)

BloodChIP: a database of comparative genome-wide transcription factor binding profiles in human blood cells. - Diego Chacón; Dominik Beck; Dilmi Perera; Jason W. H. Wong; John E. Pimanda (Nucleic Acids Res., 2014)

Differential DNA repair underlies mutation hotspots at active promoters in cancer genomes. - Dilmi Perera; Rebecca C. Poulos; Anushi Shah; Dominik Beck; John E. Pimanda; Jason W. H. Wong (Nat., 2016)

Developing a named entity framework for thyroid cancer staging and risk level classification using large language models. - Matrix M. H. Fung; Eric H. M. Tang; Tingting Wu; Yan Luk; Ivan C. H. Au; Xiaodong Liu; Victor H. F. Lee; Chun Ka Wong; Zhili Wei; Wing Yiu Cheng; Isaac C. Y. Tai; Joshua W. K. Ho; et al. (npj Digit. Medicine, 2025)