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ORBilu is a project developed by
   Characterization of new proteins found by analysis of short open reading frames from the full yeast genome; ; et al in Journal of Yeast and Fungal Research (1997), 13(14), 1363-1374 We have analysed short open reading frames (between 150 and 300 base pairs long) of the yeast genome (Saccharomyces cerevisiae) with a two-step strategy. The first step selects a candidate set of open ... [more ▼] We have analysed short open reading frames (between 150 and 300 base pairs long) of the yeast genome (Saccharomyces cerevisiae) with a two-step strategy. The first step selects a candidate set of open reading frames from the DNA. sequence based on statistical evaluation of DNA and protein sequence properties. The second step filters the candidate set by selecting open reading frames with high similarity to other known sequences (from any organism). As a result, we report ten new predicted proteins not present in the current sequence databases. These include a new alcohol dehydrogenase, a protein probably related to the cell cycle, as well as a homolog of the prokaryotic ribosomal protein L36 likely to be a mitochondrial ribosomal protein coded in the nuclear genome. We conclude that the analysis of short open reading frames leads to biologically interesting discoveries, even though the quantitative yield of new proteins is relatively low. [less ▲] Detailed reference viewed: 121 (0 UL)GeneCrunch: Experiences on the SGI POWER CHALLENGEarray with Bioinformatics applicationsSchneider, Reinhard  ; ; et alin Supercomputer 96: Anwendungen, Architekturen, Trends (1996) Analyzing genomic data is a computationally intensive and complicated process in which scientists must typically choose among multiple databases and analysis methods and make expert judgements inspecting ... [more ▼] Analyzing genomic data is a computationally intensive and complicated process in which scientists must typically choose among multiple databases and analysis methods and make expert judgements inspecting multiple results. GeneQuiz, an automated software system for large scale genome analysis developed at the EMBL/EBI, tackles this problem by using an automated, rigorous, rule-based system to select among the results of sequence analysis and database searches, builds informative annotation and aims at predicting the function of new genes. In a demonstration project more than 6000 proteins from the Baker’s yeast, for which the complete genomic sequence was completed in 1996, were analyzed on a Silicon Graphics POWERCHALLENGEarray with 64 processors (R8000 @90 MHz) so that the analysis could be completed in 3 days. The results of the analysis were published on two web servers as they were computed. [less ▲] Detailed reference viewed: 117 (4 UL)CHALLENGING TIMES FOR BIOINFORMATICS; ; et al in Nature (1995), 376(6542), 647-648 Detailed reference viewed: 166 (6 UL) |
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