biostudies-literatureUnknownZhu CCanadian Research Chair programUCLA Jonsson Comprehensive Cancer Center Fellowship AwardCIHR Doctoral AwardCanadian Cancer SocietyOntario Graduate ScholarshipNCI NIH HHSCIHR Vanier FellowshipNational Institutes of HealthCanadian Institutes of Health ResearchProteogenomics is limited by challenges of modeling the complexities of gene expression. We create moPepGen, a graph-based algorithm that comprehensively generates non-canonical peptides in linear time. moPepGen works with multiple technologies, in multiple species and on all types of genetic and transcriptomic data. In human cancer proteomes, it enumerates previously unobservable noncanonical peptides arising from germline and somatic genomic variants, noncoding open reading frames, RNA fusions and RNA circularization.bioRxiv : the preprint server for biology2024.03.28.587261https://www.ebi.ac.uk/biostudies/studies/S-EPMC10996593biostudies-literatureIdentification of non-canonical peptides with moPepGen.PMC10996593P30CA016042U01 CA214194U01CA214194R01 CA244729P50CA092131705649U24CA248265U24 CA248265P50 CA092131U2CCA271894P30 CA016042R01CA244729PJT156357U2C CA271894Hugh-White RKislinger TLiu LYHa ABoutros PCYamaguchi TNPatel YZhu HLivingstone JZhu CfalseIdentification of non-canonical peptides with moPepGen.Proteogenomics is limited by challenges of modeling the complexities of gene expression. We create moPepGen, a graph-based algorithm that comprehensively generates non-canonical peptides in linear time. moPepGen works with multiple technologies, in multiple species and on all types of genetic and transcriptomic data. In human cancer proteomes, it enumerates previously unobservable noncanonical peptides arising from germline and somatic genomic variants, noncoding open reading frames, RNA fusions and RNA circularization.2025-01-01T00:00:00Z2025 May2026-07-03T03:15:31.643Z2024-11-19T19:42:34.838ZS-EPMC109965933858594610.1101/2024.03.28.587261