What is the Proteome?:
What is the Proteome? DNA RNA Protein Modified Proteins Transcription The collection of proteins in a cell Translation Post-translational modification (PTM)
What is Proteomics?:
What is Proteomics? The qualitative and/or quantitative comparison of proteomes under different conditions to further unravel biological processes Normal Cancerous Identify and quantify proteins Identify and quantify proteins Compare List of proteins , , =
Being Realistic:
Being Realistic Whole proteomes can be analyzed, at best, at the level of bacteria (and maybe yeast), but not including PTM analysis Moving towards more complex systems is a goal ( cells, tissue , serum ) Currently, simple to mildly complex protein mixtures or subproteomes of complex systems are studied Combining proteomics data with genomics and metabolomic data to create a “systems view” is the holy grail
Components of a Mass Spectrometer:
Components of a Mass Spectrometer 1. Source – produces gas-phase ions from the sample 2. Mass analyzer – resolves ions based on their m/z ratio 3. Detector – detects ions resolved by the mass analyzer Sample Input Ionization Source Mass Analyzer Detector m/z Intensity Size of arrows indicates the size of the ions, not the flight order or order of detection
Mass Spectrometers at FHCRC:
Mass Spectrometers at FHCRC Electrospray Ionization Ion trap – Fourier transformer MALDI TOF MALDI TOF-TOF Contact Proteomics for information about different ionization and mass analyzers and their uses or view the slide shows from the Proteomics course .
Uses of Mass Spectrometry:
Uses of Mass Spectrometry Identify a purified protein Identify proteins in mixture Quantify the amount of a specific protein present Study the distribution of modified (PTM) proteins