Generation of ENSEMBL-based proteogenomics databases boosts the identification of non-canonical peptides

Most non-canonical proteins uniquely populate the proteome or immunopeptidome

(2021) Maria Virginia Ruiz Cuevas et al.   Cell Reports

Spritz: A Proteogenomic Database Engine

(2020) Anthony J. Cesnik et al.   JOURNAL OF PROTEOME RESEARCH

Discovery of coding regions in the human genome by integrated proteogenomics analysis workflow

(2018) Yafeng Zhu et al.   Nature Communications

ProteomeGenerator: A Framework for Comprehensive Proteomics Based on de Novo Transcriptome Assembly and High-Accuracy Peptide Mass Spectral Matching

(2018) Paolo Cifani et al.   JOURNAL OF PROTEOME RESEARCH

The PRIDE database and related tools and resources in 2019: improving support for quantification data

(2018) Yasset Perez-Riverol et al.   NUCLEIC ACIDS RESEARCH

CanProVar 2.0: An Updated Database of Human Cancer Proteome Variation

(2016) Menghuan Zhang et al.   JOURNAL OF PROTEOME RESEARCH

An Analysis of the Sensitivity of Proteogenomic Mapping of Somatic Mutations and Novel Splicing Events in Cancer

(2015) Kelly V. Ruggles et al.   MOLECULAR & CELLULAR PROTEOMICS

HiRIEF LC-MS enables deep proteome coverage and unbiased proteogenomics

(2013) Rui M M Branca et al.   NATURE METHODS