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Praktische Bioinformatik

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Methoden der Bioinformatik

Zusammenfassung

In Kap. 2 bildeten die unbehandelten, elementaren Sequenzdaten den Ausgangspunkt und es wurde versucht, Schritt für Schritt mit immer fortgeschritteneren mathematischen Methoden Informationen aus diesen Daten zu extrahieren. In diesem Kapitel kehrt sich diese Blickrichtung um. Nun werden wir vielfach etablierte Analysemethoden und Betrachtungsweisen in den Vordergrund stellen, um dann hinter die Kulissen dieser Methoden zu schauen und die dort wirksamen mathematischen Verfahren zu entdecken und zu verstehen. Den Anfang bilden Verfahren des Sequenzvergleichs, gefolgt von phylogenetischen Analysen, die ähnliche Sequenzsegmente aufgrund der quantifizierten Unterschiede zwischen den Segmenten in einen kausalen Zusammenhang bringen. Am Ende steht eine Diskussion bioinformatischer Datenbanken.

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Quellen und weiterführende Literatur

  • Altschul SF, GishW, MillerW, Meyers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403–410

    Google Scholar 

  • Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z et al. (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25:3389–3402

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Bairoch A, Apweiler R, Wu CH, Barker WC, Boeckmann B et al. (2005) The universal protein resource (UniProt). Nucleic Acids Res 33:D154–159

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Baldauf S (2003) Phylogeny for the faint of heart: a tutorial. Trends Genet 19:345–351

    Article  CAS  PubMed  Google Scholar 

  • Baxevanis AD, Ouellette BFF (2001) Bioinformatics, 2. Aufl. Wiley, Hoboken Durbin R, Eddy SR, Krogh A, Mitchison G (1998) Biological sequence analysis: probabilistic models of proteins and nucleic acids. Cambridge University Press, Cambridge

    Google Scholar 

  • Efron B, Tibshirani R (1998) An introduction to the bootstrap. Chapman & Hall/CRC, Boca Raton/FL

    Google Scholar 

  • Feng DF, Doolittle RF (1987) Progressive sequence alignment as a prerequisite to correct phylogenetic trees. J Mol Evol 25:351–360

    Article  CAS  PubMed  Google Scholar 

  • Goto S, Okuno Y, Hattori M, Nishioka T, Kanehisa M (2002) LIGAND: database of chemical compounds and reactions in biological pathways. Nucleic Acids Res 30:402–404

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Hubbard T, Andrews D, Caccamo M, Cameron G, Chen Y et al. (2005) Ensembl 2005. Nucleic Acids Res 33:D447–453

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Joshi-Tope G, Gillespie M, Vastrik I, D’Eustachio P, Schmidt E et al. (2005) Reactome: a knowledgebase of biological pathways. Nucleic Acids Res 33:D428–432

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Kanehisa M, Goto S, Kawashima S, Nakaya A (2002) The KEGG databases at GenomeNet. Nucleic Acids Res 30:42–46

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Karlin S, Altschul SF (1990) Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes. PNAS 87:2264–2268

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Lesk AM (2014) Introduction to bioinformatics, 4. Aufl. Oxford University Press, Oxford

    Google Scholar 

  • Merkl R, Waack S (2009) Bioinformatik Interaktiv, 2. Aufl. Wiley-VCH, Weinheim

    Google Scholar 

  • Nei M, Kumar S (2000) Molecular evolution and phylogenetics. Oxford University Press, Oxford

    Google Scholar 

  • Pearson W, Lipman D (1988) Improved tools for biological sequence comparison. PNAS 85:2444–2448

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4:406–425

    CAS  PubMed  Google Scholar 

  • Thompson J, Higgins D, Gibson T (1994) CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, positionspecific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673–4680

    Article  PubMed Central  CAS  PubMed  Google Scholar 

  • Waterman MS (2000) Introduction to computational biology: maps, sequences, and genomes. Chapman & Hall/CRC, Boca Raton/FL

    Google Scholar 

  • Xenarios I, Rice DW, Salwinski L, Baron MK, Marcotte EM et al. (2000) DIP: the database of interacting proteins. Nucleic Acids Res 28:289–291

    Article  PubMed Central  CAS  PubMed  Google Scholar 

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Correspondence to Marc-Thorsten Hütt .

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Hütt, MT., Dehnert, M. (2016). Praktische Bioinformatik. In: Methoden der Bioinformatik. Springer Spektrum, Berlin, Heidelberg. https://doi.org/10.1007/978-3-662-46150-1_3

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