title: Retention time prediction and protein identification.
abstract: Proteins are commonly identified through enzymatic digestion and generation of short sequence tags or fingerprints of peptide masses by mass spectrometry. Separation methods, such as liquid chromatography and electrophoresis, are often used to fractionate complex protein or peptide mixtures and these separations also provide information on the different species, such as molecular weight and isoelectric point from electrophoresis and hydrophobicity in reversed-phase chromatography. These are also properties that can be predicted from amino acid sequences derived from genomic sequences and used in protein identification. This chapter reviews recently introduced methods based on retention time prediction to extract information from chromatographic separations and the applications to protein identification in organisms with small and large genomes. Novel data on retention time prediction of posttranslationally modified peptides is also presented.
authors.affiliation: The BioCentre, University of Reading, UK.
authors.forename: Magnus
authors.initials: M
authors.lastname: Palmblad
mesh_terms: D000595:Amino Acid Sequence; D000653:Amniotic Fluid / Q000737:chemistry; D002853:Chromatography, Liquid; D005656:Fungal Proteins / Q000032:analysis / Q000737:chemistry; D016014:Linear Models; D013058:Mass Spectrometry; D008969:Molecular Sequence Data; D010363:Pattern Recognition, Automated; D011506:Proteins / Q000032:analysis* / Q000737:chemistry; D015203:Reproducibility of Results; D012984:Software; D013997:Time Factors
chemical_list: D005656:Fungal Proteins; D011506:Proteins