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- In proteomics, repeatability and reproducibility has long been one of the largest problematic issue which is holding back the field, and in clinical proteomics. Repeatability defined as variation in repeated measurements on the same sample analyzed by the same instrument by the same researcher. Reproducibility was defined as "the variation observed for an analytical technique when operator, instrumentation, time, experimental conditions or location is changed."
The complexity of proteomic instrumentation for LC-MS/MS introduces many possible sources of variability such as chromatography, electrospray and mass spectrometry. Those variations impact the identification of peptides, their relative signal strengths and proteomic identifications. And also variations affect in targeted selected reaction monitoring methods. Understanding and measuring this variability is essential for firmly establishing proteomics as a competitive technology for tomorrow's health care. For this reasons, I have interested to study the detailed analysis of LC-MS signal intensity variations for both simple and complex protein digests by changing the sample preparation conditions, chromatography conditions and instrument parameters. And also check the reproducibility of quantitative proteomics which is using by MRM methods.
- Study the peptide ion fragmentation mechanism by tandem mass spectrometry using different kind of mass spectrometry platforms since, peptide sequence is useful in database search to identify the proteins in proteomic experiments. The peptide fragmentation is depending on the collision energy and the collision energy depending on the internal energy of the peptide ion. The main goal is establish a good peptide fragmentation by changing the instrument conditions. And comparing the fragmentation results of different mass spectrometry platforms, i.e., iontrap, triplequad and tof instruments.
- To study the interaction of metal ions with proteins and peptides in gas phase and finding the site of metal ion present in protein or peptide by using the MS/MS studies.