Biomedical subjects

D Beule

Publications and source records attributed to D Beule.

3 recordsLinked to original sources

PubMed2001

Isentropes and Hugoniot curves for dense hydrogen and deuterium.

Multiple-shock experiments with fluid hydrogen have shown that a transition from semiconducting behavior to metal-like conductivity occurs at pressures (p) of about 140 GPa and temperatures (T) near 3000 K. We model the p-T pathway by Hugoniot curves (initial shock) and isentropes (subsequent shocks). For the calculation of these curves we apply an expression for the free energy developed recently for dense hydrogen and deuterium plasma in the regions of partial dissociation and partial ionization. Furthermore, we discuss the relations between Hugoniot curves, isentropes and the coexistence line of the plasma phase transition.

Journal Article↗

PubMed2001

Combining frequency and positional information to predict transcription factor binding sites.

MOTIVATION: Even though a number of genome projects have been finished on the sequence level, still only a small proportion of DNA regulatory elements have been identified. Growing amounts of gene expression data provide the possibility of finding coregulated genes by clustering methods. By analysis of the promoter regions of those genes, rather weak signals of transcription factor binding sites may be detected. RESULTS: We introduce the new algorithm ITB, an Integrated Tool for Box finding, which combines frequency and positional information to predict transcription factor binding sites in upstream regions of coregulated genes. Motifs are extracted by exhaustive analysis of regular expression-like patterns and by estimating probabilities of positional clusters of motifs. ITB detects consensus sequences of experimentally verified transcription factor binding sites of the yeast Saccharomyces cerevisiae. Moreover, a number of new binding site candidates with significant scores are predicted. Besides applying ITB on yeast upstream regions, the program is run on human promoter sequences. AVAILABILITY: ITB is available upon request.

Algorithms↗

PubMed2000

Normalization strategies for cDNA microarrays.

Multiple Arabidopsis thaliana clones from an experimental series of cDNA microarrays are evaluated in order to identify essential sources of noise in the spotting and hybridization process. Theoretical and experimental strategies for an improved quantitative evaluation of cDNA microarrays are proposed and tested on a series of differently diluted control clones. Several sources of noise are identified from the data. Systematic and stochastic fluctuations in the spotting process are reduced by control spots and statistical techniques. The reliability of slide to slide comparison is critically assessed within the statistical framework of pattern matching and classification.

Arabidopsis↗