In collaboration with the Helix group of Inria Rhône-Alpes and the Cogenics society, the Exploring the Dynamics of Proteomes team in our laboratory has created the PepLine software that can transform the mass information contained in MS/MS spectra into a mixed sequence information of amino acids and mass.
Then PepLine maps this information on the genomic DNA according to a vicinity method based on the distance.
PepLine was designed to be able of detecting the exon-intron boundaries of a gene and is consequently suitable to syntactic annotation of eukaryotic genomes.