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D V Ramana

Publications and source records attributed to D V Ramana.

6 recordsLinked to original sources
PubMed1999

Evaluation of gene prediction software using a genomic data set: application to Arabidopsis thaliana sequences.

MOTIVATION: The annotation of the Arabidopsis thaliana genome remains a problem in terms of time and quality. To improve the annotation process, we want to choose the most appropriate tools to use inside a computer-assisted annotation platform. We therefore need evaluation of prediction programs with Arabidopsis sequences containing multiple genes. RESULTS: We have developed AraSet, a data set of contigs of validated genes, enabling the evaluation of multi-gene models for the Arabidopsis genome. Besides conventional metrics to evaluate gene prediction at the site and the exon levels, new measures were introduced for the prediction at the protein sequence level as well as for the evaluation of gene models. This evaluation method is of general interest and could apply to any new gene prediction software and to any eukaryotic genome. The GeneMark.hmm program appears to be the most accurate software at all three levels for the Arabidopsis genomic sequences. Gene modeling could be further improved by combination of prediction software. AVAILABILITY: The AraSet sequence set, the Perl programs and complementary results and notes are available at http://sphinx.rug.ac.be:8080/biocomp/napav/. CONTACT: Pierre.Rouze@gengenp.rug.ac.be.

Alternative Splicing↗
PubMed1995

In vitro protein binding and tissue distribution of D(+) usnic acid.

In vitro protein binding of D(+) usnic acid in rabbit plasma and purified bovine serum albumin was investigated by equilibrium dialysis. The drug was highly protein bound, approximately 99.2%, and the extent of protein binding remained constant at usnic acid concentrations in the range of 1-5 micrograms/ml. The extent of binding, however, tended to decrease at low albumin concentrations and higher drug concentrations; Scatchard plot analysis indicated the existence of two classes of binding sites with association constants of 34.3 x 10(-6) and 1.43 x 10(-6) M respectively. Tissue distribution studies of usnic acid were undertaken in rats following i.p. administration. Usnic acid was well distributed into well perfused organs. The tissue/plasma ratio in lungs was high, which could be advantageous in a therapeutic agent for pulmonary tuberculosis.

Animals↗