Cancer Proteomics

Group Leader

Peter James, Ph.D. Professor of Protein Technology
peter.james [at] immun.lth.se

Contact Information

Protein Technology Laboratory , Department of Immunotechnology,
Lund University, BMC D13, SE 221 84 Lund, Sweden
Web: www.immun.lth.se.
Phone:  ++46 46 222 1496

Description of the Research

Proteomics Technology for the Study of Human Disease

We are working on the development of proteomics technologies to enable large-scale studies of disease mechanisms with a focus on breast cancer. We develop software for evaluating and storing proteomics data and hardware for the automation of data accumulation. Our focus has been on developing chemical modifications to facilitate proteome-wide analysis of post-translational modifications such as phosphorylation, acylation and glycosylation.

The aim is to take advantage of the large collections of biological tissues in Sweden (>10,000 fresh-frozen breast tumours at Lund University Hospital alone) and to translate findings into tests that can be implemented in a clinical setting. We are working on creating an index and an atlas of proteins and their modifications in breast and creating MS-based assays for following the changes occurring during: chemo- and radiotherapy; tumour development and metastasis; and the various subtypes of cancer cell in a tumour and how these interact with the stromal components.

More information
http://www.immun.lth.se

Funding

The Knut and Alice Wallenberg Foundation, the Swedish Research Council, Vetenskapsrådet, VINNOVA, Cancerfonden and the Swedish Strategic Research Council to CREATE Health.

Selected Publications (1989-2012)

James, P.H.,  Inui, M.,  Tada, M.,  Chiesi M.  and Carafoli, E.(1989)  Nature,  342, 90-92.  The nature and site of regulation of the SR ATPase by Phospholamban

James, P.H.,  Cohen, P.,  and Carafoli, E. (1991) J.Biol.Chem.,  266, 7087-91.  The isolation and sequencing of the CaM binding domains of Phosphorylase b Kinase

James, P.,  Quadroni, M,  Carafoli, E., and  Gonnet, G. (1993) Biochem.Biophys.Res.Comm. 195, 58-64.  Protein identification by mass profile fingerprinting

James, P.,  Vorherr, T., and  Carafoli, E. (1995) Trends Biochem Sci, 20, 39-42. Calmodulin binding domains, -just two faced or multi-faceted

Dainese, P.,  Staudenmann, W.,  Quadroni, M.,  Korostensky, C.,  Gonnet, G., Kertesz, M.,  and James, P. (1997)  Electrophoresis, 18, 432-443. Probing protein function by gene knockout and proteome analysis

Münchbach, M.,  Quadroni, M.,  Miotto, G., and James, P.  (2000) Anal. Chem.  72, 4047-4057.  Quantitation and de novo sequencing of peptides using isotopic N-terminal tagging with a fragmentation-directing highly basic moiety

Levander,  F.,  Rögnvaldsson, T.,  Samuelsson, J. and James, P. (2004) Proteomics 4(9):2594-601.  Automated methods for improved protein identification by peptide mass fingerprinting

Arrigoni, G.,  Resjö S.,  Levander, F.,  Nilsson, R.,  Degerman, E.,  Quadroni, M.,  Pinna, L.,  and James, P.  (2006) Proteomics. 6(3):757-66.  Chemical derivatisation of phospho-serine and -threonine containing peptides to increase sensitivity for MALDI based analysis and for selectivity of MS/MS analysis

Bengtsson, S.,  Krogh, M.,  Al-Khalili Szigyarto, C.,  Uhlen, M.,  Schedvins, K.,  Silfversward, C.,  Linder, S.,  Auer, G., Alaiya, A.  and James, P.  (2007) ) J. Proteome Res. 6(4):1440-50.  Large-Scale Proteomics Analysis of Human Ovarian Cancer for Biomarkers
Mathivanan, S., et al. (2008) Nature Biotechnology. 26(2): 164-7.  Human Proteinpedia: A portal for sharing and integration of human protein data

Bendz, M.,  Carlsson Möller, M.,  Arrigoni, G.,  Wåhlander, Å.,  Stella, R.,  Cappadona,. S.,  Levander, F.,  Hederstedt, L.  and James, P. (2009) J. Proteome. Res.  8(12): 5666-73. Quantification of membrane proteins using non-specific protease digestions

Stella, R., Cifani, P., Peggion, C., Hansson, K., Lazzari, C., Bendz, M., Levander, F., Sorgato, M-C., Bertoli, A. and James, P.  (2012) J. Proteome Res. 11(2): 523-36 Relative Quantification of Membrane Proteins in Wild-type and PrP-knockout Cerebellar Granule Neurons

Waldemarson, S., Krogh, M., Alaiya, A., Kirik, U., Schedvins, K., Auer, G., Hansson, K.M., Ossola, R., Aebersold, R., Lee, H., Malmström, J. and James, P. (2012) J. Proteome Res. 11(5):2644-52. Protein expression changes in ovarian cancer during the transition from benign to malignant