title: Clinical implications of recent advances in proteogenomics.
abstract: Proteogenomics, the alliance of proteomics, transcriptomics, genomics and bioinformatics, was first proposed for refining genome annotation using experimental data acquired on gene products. With high-throughput analysis of proteins made possible with next-generation tandem mass spectrometers, proteogenomics is greatly improving human genome annotation per se, and is helping to decrypt the numerous gene and protein modifications occurring during development, aging, illness and cancer progression. Further efforts are required to obtain a comprehensive picture of human genes, their products, functions, and drift over time or in reaction to microbiota and pathogen stimuli. This should be performed not only to obtain a general overview of the human population, but also to gain specific information at the individual level. This review focuses on the clinical implications of proteogenomics: novel biological insights into fundamental biology, better characterization of pathogens and parasites, discovery of novel diagnostic approaches for cancer, and personalized medicine.
authors.affiliation: a CNRS, IPBS (Institut de Pharmacologie et Biologie Structurale) , Toulouse , France.|b Université de Toulouse, UPS, IPBS , Toulouse , France.
authors.forename: Marie
authors.initials: M
authors.lastname: Locard-Paulet
authors.affiliation: c Laboratory 'Innovative technologies for Detection and Diagnostics' , CEA-Marcoule, DSV/IBITEC-S/SPI/Li2D , Bagnols-sur-Cèze , France.
authors.forename: Olivier
authors.initials: O
authors.lastname: Pible
authors.affiliation: a CNRS, IPBS (Institut de Pharmacologie et Biologie Structurale) , Toulouse , France.|b Université de Toulouse, UPS, IPBS , Toulouse , France.
authors.forename: Anne
authors.initials: A
authors.lastname: Gonzalez de Peredo
authors.affiliation: c Laboratory 'Innovative technologies for Detection and Diagnostics' , CEA-Marcoule, DSV/IBITEC-S/SPI/Li2D , Bagnols-sur-Cèze , France.
authors.forename: Béatrice
authors.initials: B
authors.lastname: Alpha-Bazin
authors.affiliation: c Laboratory 'Innovative technologies for Detection and Diagnostics' , CEA-Marcoule, DSV/IBITEC-S/SPI/Li2D , Bagnols-sur-Cèze , France.
authors.forename: Christine
authors.initials: C
authors.lastname: Almunia
authors.affiliation: a CNRS, IPBS (Institut de Pharmacologie et Biologie Structurale) , Toulouse , France.|b Université de Toulouse, UPS, IPBS , Toulouse , France.
authors.forename: Odile
authors.initials: O
authors.lastname: Burlet-Schiltz
authors.affiliation: c Laboratory 'Innovative technologies for Detection and Diagnostics' , CEA-Marcoule, DSV/IBITEC-S/SPI/Li2D , Bagnols-sur-Cèze , France.
authors.forename: Jean
authors.initials: J
authors.lastname: Armengaud
mesh_terms: D023281:Genomics; D006801:Humans; D010449:Peptide Mapping; D040901:Proteomics; D053719:Tandem Mass Spectrometry
keywords: Proteogenomics; cancer; onco-proteogenomics; pathogens; personalized medicine; shotgun proteomics; virulence factors