Proteomics based biomarkers for clinical research

General info

Date from - to

01 Dec 2005 - 01 Jun 2010

Project leader(s)

Hoefsloot, Huub C.J. Dr. ir.

Participant(s)

Horvatovich, Peter Dr.

Prof. dr. R.M.A. Heeren

Dr. Theo M. Luider

Abstract

Finding biomarkers requires clean proteomics and metabolomics data. However: 1) very many compounds are measured, 2) each measured compound can be distributed over different instrumental channels, 3) different experimental designs are used, 4) the data can be time-resolved, 5) the noise levels can be considerable, 6) inherent biological variation, 7) usually few samples are available, 8) large fluctuations in dynamic range may occur. This calls for bioinformatics/biostatistics methods that are robust, simple and reliable.

Link to the end report of this project

Publications

• Simplicity, ideas and first results
• Genetic algorithm based two-mode clustering of metabolomics data
• Correlating MALDI and SIMS imaging mass spectrometric datasets of biological tissue surfaces
• Identification of differentially regulated splice variants and novel exons in glial brain tumors using exon expression arrays
• Optimized Time Alignment Algorithm for LC-MS Data: Correlation Optimized Warping Using Component Detection Algorithm-Selected Mass Chromatograms