P├ęTer Horvatovich

Manager of projects

BiomarkerFeatureSelection This project contains Matlab code of feature selection algorithms to identify biomarker candidates in pre-processed LC-MS data. It also contains two pre-processed LC-MS data sets with annotation of spiked-in peptides. Code and data sets are used in article "A critical assessment of feature selection methods for biomarker discovery in clinical proteomics" under revision at Molecular & Cellular Proteomics.
LCMS_time_alignment_algorithms Container of several different time alignment algorithms developed for LC-MS such as Correlation Optimized Warping, Dynamic Time Warping and Parametric Time Warping using preselected mass traces with COmponent Detection Algorithm (COW-CODA, DTW-CODA and PTW-CODA).
daf Data Analysis Framework that enables any computer program (i.e proteomics tools) to run on a Distributed Computing environment (Grid, Cloud, Cluster, Lightpath etc.). DAF provides Web Services to the end user.
msCompare Framework for the analysis of label-free LC-MS data for comparative profiling studies

Member of projects

Pre-alignment Time alignment for complex LC-MS datasets typically obtained from inter-laboratory studies. The developed application allows retention time alignment of diverse LC-MS datasets by first accurately identifying peak correspondences using Bi-variate 2D Kernel density estimation and then extracting a non-linear monotonic regression function from the retention time co-ordinates of these peak correspondences.
dafportal A Web Portal providing data analysis services for Life Science data using tools integrated in DAF. The portal is written using Dojo Toolkit while REST/HTTP base Web Services client written in PHP.