Institute of Cancer Research

2 ARTICLES PUBLISHED IN JoVE

Biochemistry

Resolving Affinity Purified Protein Complexes by Blue Native PAGE and Protein Correlation Profiling

Mercedes Pardo¹, Daniel Bode¹, Lu Yu¹, Jyoti S. Choudhary¹

¹Proteomic Mass Spectrometry, Wellcome Trust Sanger Institute

Here we present protocols for affinity purification of protein complexes and their separation by blue native PAGE, followed by protein correlation profiling using label free quantitative mass spectrometry. This method is useful to resolve interactomes into distinct protein complexes.

Genetics

A Fast and Quantitative Method for Post-translational Modification and Variant Enabled Mapping of Peptides to Genomes

Christoph N. Schlaffner^1,2,3, Georg J. Pirklbauer², Andreas Bender³, Judith A.J. Steen¹, Jyoti S. Choudhary^2,4

¹Department of Neurobiology, F. M. Kirby Neurobiology Center, Boston Children's Hospital, Harvard Medical School, ²Proteomic Mass Spectrometry, Wellcome Trust Sanger Institute, Wellcome Genome Campus, ³Centre for Molecular Informatics, Department of Chemistry, University of Cambridge, ⁴Functional Proteomics Group, Chester Beatty Laboratories, Institute of Cancer Research

Here we present the proteogenomic tool PoGo and protocols for fast, quantitative, post-translational modification and variant enabled mapping of peptides identified through mass spectrometry onto reference genomes. This tool is of use to integrate and visualize proteogenomic and personal proteomic studies interfacing with orthogonal genomics data.