Proteomics Facility at the CSIR

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. Currently, core technologies used include two-dimensional gels and mass spectrometry. 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:

Ettan IPGphor I/II IEF (GE Amersham)
Rotofor Cell (Bio-Rad)
Dalt II Separation Unit (GE Amersham)
Protean Plus DodecaCell (Bio-Rad)
Ettan SE600 Ruby gel electrophoresis system with auto gel stainer
Ettan DALTtwelve, running 12 large format gels in parallel

PharosFX (Bio-Rad)
EXQuest automated spotcutter (Bio-Rad)
PDQuest (Bio-Rad)
Image Master 2D scanner and software

1100 nanoHPLC (Agilent Technologies)

Mass spectrometry
MAPII AutoPrep MALDI Robot system (Bruker Daltonics)
Bruker autoflex® Daltonics MALDI-TOF mass spectrometer with post-source decay
QStar Elite (ESI/MALDI) (Applied Biosystems)
Qtrap (ESI) (Applied Biosystems)

Biocore 3000 (GE Amersham)


The Proteomics facility is used for a range of research programmes within the ACGT. In addition, Proteomics services are available to internal and external customers. The following services are available:

Biomarker & Drug-target discovery and validation

Gel-based proteomics

Solution-based (gel-free) proteomics

  • Off-line and on-line fractionation:
  • Mass spectrometry (iTRAQTM, peptide identification, peptide sequence identification, glycan analysis, posttranslational modification analysis)
  • Protein characterisation (protein-protein / ligand interaction)

Microarrays (cDNA oligo)

  •     Sample preparation and hybridisation
  •     Conventional and high-resolution scanning*
  •     Expression analysis
  •     Quantitative Real-Time PCR

Contact information
Dr Stoyan Stoychev, Tel: +27 12 841 2270/3001, Fax: +27 12 841 2388