Methods of genome analysis
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Methods of genome analysis Sommersemester 2016 Dmitrij Frishman (Dimitri Frischmann) (Дмитрий Фришман) http://webclu.bio.wzw.tum.de/binfo/edu/sommersemester-2016/methoden-der-genomanalyse Erreichbarkeit ¨ ¨ ¨ ¨ [email protected] http://binfo.bio.wzw.tum.de/groups/frishman/ +49-8161-712134 Anwesenheit in Weihenstephan ¤ Dienstag, ¨ Mittwoch, Donnerstag; nach Vereinbarung Anwesenheit in der Innenstadt ¤ Montag; nach Vereinbarung. Books ¨ ¨ ¨ ¨ ¨ ¨ ¨ Bioinformatics: Sequence and Genome Analysis by David Mount, Cold Spring Harbor Laboratory Press , 2004 Bioinformatics and Functional Genomics by Jonathan Pevsner, John Wiley, 2003 Genomes 3 by T.A. Brown, Garland Science, 2007 Bioinformatics for Geneticists, Michael Barnes, Editor, second edition, 2007 Introduction to Genomics, Arthur M. Lesk, 2007 Genes VII by Lewin, © Prentice-Hall, Inc. Understanding Bioinformaics, M. Zvelebil and J.O.Baum, Garland Science 2008 Computational genomics group http://frishman.wzw.tum.de Forschung ¨ ¨ Bacheloarbeiten, Masterarbeiten Projekte ¤ Vergleichende Genomik ¤ Proteinstrukturanalyse ¤ Genomannotation ¤ Proteininteraktionen ¤ Virale Bioinformatik ¤… ¨ Voraussetzungen ¤ Gute Programmierkenntnisse (Java, Perl, SQL, Unix) ¤ Motivation Student papers ¨ ¨ ¨ ¨ ¨ ¨ ¨ ¨ Smialowski, P., Schmidt, T., Cox, J., Kirschner, A., Frishman, D. (2005). Will my protein crystallize? A sequence-based predictor. Proteins: Structure, Function, and Bioinformatics, in press Riley, L., Schmidt, T., Wagner, C., Mewes, H.W., Frishman, D. (2005). The PEDANT genome database in 2005: 334 genomes on the Web. Nucl. Acids. Res. , 33, D308310. Offman, M., Nurtdinov, R.N., Gelfand, M.S., Frishman, D. (2004). No statistical support for correlation between the positions of protein interaction sites and alternatively spliced regions. BMC Bioinformatics, , 19 41. Heinig, M., Frishman, D. (2004). STRIDE: a Web server for secondary structure assignment from known atomic coordinates of proteins. Nucl. Acids Res. , 32, W5002. Angelika Fuchs, Correlated mutations in membrane proteins, submitted. Pagel, P., Oesterheld, M., Tovstukhina, O., Strack, N., Stuempflen, V., Frishman, D. (2008) DIMA 2.0: Predicted and Known Domain Interactions. Nucl. Acids Research, in press. Luo Q, Pagel P, Vilne B, Frishman D. (2011) DIMA 3.0: Domain Interaction Map. Nucleic Acids Res., 39 (Database issue), D724-7299. Chursov, A., Kopetzky, S.J., Leshchiner, I., Kondofersky, I.,Theis, F., Frishman, D., Shneider, A. (2012) Specific Temperature-induced Perturbations of Secondary mRNA Structures are Associated with the Cold-adapted Temperature-sensitive Phenotype of Influenza A Virus. RNA Biology, in press
