An Analysis Pipeline and its Application on the Cucurbita pepo Genome - Schobesberger, Richard
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First insights into the genome of Cucurbita pepo are presented in this thesis. 15.67 percent of the 2,349,855 sequence reads generated with Roche s 454 Pryosequencer received a classification in preprocessing. Of the remaining sequence reads 38.82% were classified as repeats, 11.08 percent as gene coding region, 7.08 percent as chloroplast and 5.39 percent as mitochondrial sequences. A comparison with the genome of cucumber reinforces this distribution. Moreover, this thesis describes an automated analysis pipeline for genome analyses. It is equipped with a set of newly developed components to…mehr

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Produktbeschreibung
First insights into the genome of Cucurbita pepo are presented in this thesis. 15.67 percent of the 2,349,855 sequence reads generated with Roche s 454 Pryosequencer received a classification in preprocessing. Of the remaining sequence reads 38.82% were classified as repeats, 11.08 percent as gene coding region, 7.08 percent as chloroplast and 5.39 percent as mitochondrial sequences. A comparison with the genome of cucumber reinforces this distribution. Moreover, this thesis describes an automated analysis pipeline for genome analyses. It is equipped with a set of newly developed components to perform whole genome analyses with next generation sequencing datasets, to store the obtained results into a database and to visualize them on a web interface. Comparisons with state of the art analysis pipelines show that its visualization capabilities and automatic input checker are rare but very helpful features.
Autorenporträt
Education:2000-2005 High School, Department of Industrial Engineering, Höhere Technische Lehranstalt Vöcklabruck. 2006-2009 Bioinformatics, Bachelor Studies, University of Applied Sciences Hagenberg. 2009-2011 Biomedical Informatics, Master Studies, University of Applied Sciences Hagenberg.