Richard Pelikan

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As technology improves, the amount of information we collect about the world increases. Sensor networks collect traffic or weather information in real-time, documents and news articles are distributed and searched on-line, information in medical records is collected and stored in electronic form. All of this information can be mined so that the relations(More)
Peptide profiles generated using SELDI/MALDI time of flight mass spectrometry provide a promising source of patient-specific information with high potential impact on the early detection and classification of cancer and other diseases. The new profiling technology comes, however, with numerous challenges and concerns. Particularly important are concerns of(More)
MOTIVATION The 'reproducibility' of mass spectrometry proteomic profiling has become an intensely controversial topic. The mere mention of concern over the 'reproducibility' of data generated from any particular platform can lead to the anxiety over the generalizability of its results and its role in the future of discovery proteomics. In this study, we(More)
The purpose of this study was to provide a univariate and multivariate analysis of genomic microbial data and salivary mass-spectrometry proteomic profiles for dental caries outcomes. In order to determine potential useful biomarkers for dental caries, a multivariate classification analysis was employed to build predictive models capable of classifying(More)
The paper presents a new approach to tuning a control loop. It uses a gradual iterative way to adapt settling- time and overshoot of a controlled variable. The algorithm exploits the virtual reference feedback tuning methodology - a direct method for controller design. Results are demonstrated using simulation experiments on a system from a test batch of(More)
Whole-sample mass spectrometry (MS) proteomics allows for a parallel measurement of hundreds of proteins present in a variety of biospecimens. Unfortunately, the association between MS signals and these proteins is not straightforward. The need to interpret mass spectra demands the development of methods for accurate labeling of ion species in such(More)
The differentiation of BK virus-associated renal allograft nephropathy (BKVAN) from acute allograft rejection (AR) in renal transplant recipients is an important clinical problem because the treatment can be diametrically opposite for the two conditions. The aim of this discovery-phase biomarker development study was to examine feasibility of developing a(More)
Mutations in transforming growth factor beta (TGFβ) receptor type II (TGFBR2) cause Loeys-Dietz syndrome, characterized by craniofacial and cardiovascular abnormalities. Mice with a deletion of Tgfbr2 in cranial neural crest cells (Tgfbr2(fl/fl);Wnt1-Cre mice) develop cleft palate as the result of abnormal TGFβ signaling activation. However, little is known(More)
Finding reliable, meaningful patterns in data with high numbers of attributes can be extremely difficult. Feature selection helps us to decide what attributes or combination of attributes are most important for finding these patterns. In this chapter, we study feature selection methods for building classification models from high-throughput genomic(More)
Mass spectrometry proteomic profiling has potential to be a useful clinical screening tool. One obstacle is providing a standardized method for preprocessing the noisy raw data. We have developed a system for automatically determining a set of preprocessing methods among several candidates. Our system's automated nature relieves the analyst of the need to(More)