Council for Scientific and Industrial Research

Proteomics represents an important new phase in the post-genomics era, providing the opportunity to analyze the entire protein complement of a cell under different physiological conditions.

Researchers in the Proteomics section of the Systems Biology group at CSIR apply techniques that allow global analysis of the state of proteins in biological systems. This ability to probe expression, posttranslational modifications and interaction of proteins at any given time is an important component of the systems biology approach. The ultimate goal is to integrate proteomics data with genomic, transcriptomic, metabolomic, and structural bioinformatics data to get a more complete view of the biological system. This represents a vital tool in the search for new drug targets, which may provide opportunities for rational drug design, as well as providing links between methods of identifying the genetic predisposition to disease.

The ACGT proteomics facility is equipped with the following equipment:

  • 1x Dionex nanoRSLC with UV detector and fraction collector

  • 1x Dionex proflow nanoRSLC (funded by DIPLOMICS)

  • 1x AB Sciex 6600 TripleTOF mass spectrometer

  • 1x Bruker Autoflex MALDI TOF mass spectrometer

  • 3x Thermofisher King Fisher Duo magnetic handling stations

  • 1x CentriVap Proteomics vacuum concentrator system (funded by DIPLOMICS)

  • 1x Agilent 2D HPLC

  • 1x LEAP HDx-3 PAL hydrogen deuterium exchange preparatory system

  • 1x Applied Photophysics Chirascan circular dichroism spectrophotometer

  • 1x Shimadzu Fluorescence spectrophotometer

  • 1x BioTek PowerWave HT UV-Vis plate reader

  • 1x Pressure Biosciences PCT barocyler

Software:

  • AB Sciex Protein Pilot and Peak View database search and spectra integration software

  • AB Sciex Biopharmaview intact protein deconvolution software

  • Peaks v6 database search software

  • Biognosys QuiC quality control software for DDA and DIA data

  • Skyline and MSStats targeted proteomics data extraction software

  • MaxQuant and Perseus quantitative proteomics software

  • SearchGui and Peptide Shaker database search and visualization software

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