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Animal Ecology, Evolution and Biodiversity
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Animal Ecology, Evolution and Biodiversity » Members » Dr. Christoph Mayer
Christoph Mayer    Dr. Christoph Mayer
  
   Research assistent in the department of
   Animal Ecology, Evolution and Biodiversity,
  
   Address:
   Animal Ecology, Evolution and Biodiversity,
   ND 05/785
   Ruhr-Universität Bochum
   44780 Bochum
   Germany

   Email:   cm@tp4.rub.de
   Phone:   +49 234 32 25072
   Fax:   +49 234 32 14114

Research interests:
· High performance computing, parallel computing (in bioinformatics)
· Phylogenetic systematics
· Information content and quality of data sets in systematics
· Simulating genetic evolution
· Algorithms for the detection of perfect and imperfect tandem repeats
· Analysis of repetitive elements in genomes
· Microsatellite and satellite evolution
· Parallel programming in bioinformatics (using OpenMP and the MPI library)



Software:
Phobos - A microsatellite, minisatellite and satellite search tool by Christoph Mayer
Phobos has been integrated into the following molecular biology analysis tools, which in particular offer a convenient interfaces for designing flanking primers of microsatellites.
Commercial users always need to obtain a user license directly from the author of Phobos, Christoph Mayer.
  • STAMP: Microsatellite marker design extension for the Staden package
    Reference:
    Kraemer, L., Beszteri, B., Gaebler-Schwarz, S., Held, C., Leese, F., Mayer, C., Poehlmann, K. & Frickenhaus, S. (2009)
    STAMP: Extensions to the STADEN sequence analysis package for high throughput interactive microsatellite marker design.
    BMC Bioinformatics 10:41.

  • Phobos plugin for Geneious.
    Geneious is a commercial and easy to use DNA and protein sequence analysis tool.
    In order to use the tandem repeat detection capabilities of Phobos in Geneious one has to install the command-line version of Phobos (version 3.3.10 or higher) as well as the Phobos plugin.

Sat-stat - Statstical analysis of Phobos output. Sat-stat compuputes tandem repeat characteristics of genomes analysed with Phobos. (Will be made available soon.)

Multimoseqsim - A program to simulate molecular evolution, such that every branch of a tree can be assigned a different evolutinary model. (Will be made available soon.)

SAMS - Splits Analysis Methods, Christoph Mayer
Available upon request from the author.



Publications:
Publications



Teaching (Information available only in German)
Summer term 2003 Theorie und Praxis der Datenauswertung in molekularer Systematik
Winter term 2003/2004 Theorie und Praxis der Datenauswertung in Populationsgenetik und molekularer Systematik
Summer term 2004 Einführung in das Programmieren für Biologen
Winter term 2004/2005 Molekularbiologie & Taxonomie: Theorie und Praxis
Summer term 2005 Einführung in das Programmieren in C mit Anwendungen aus dem Bereich Biomathematik
Winter term 2005/2006 Objektorientiertes Programmieren in C++ (mit Anwendungsbeispielen aus der Biologie)
Summer term 2006 Einführung in das Programmieren in C/C++
Winter term 2006/2007 Einführung in das Programmieren in C/C++
Winter term 2006/2007 Introduction to phylogenetic systematics
Summer term 2007 Einführung in das Programmieren in C/C++
Winter term 2006/2007 Einführung in das Programmieren in C/C++
Winter term 2007/2008 Einführung in das Programmieren in C/C++
Summer term 2008 Introduction to phylogenetic systematics and population genetics
Winter term 2008/2009 Introduction to phylogenetic systematics and population genetics
Winter term 2008/2009 Objektorientiertes Programmieren in C++ und Bearbeitung eines Softwareprojekts
Summer term 2009 Einführung in das Programmieren in C/C++
Winter term 2009/2010 Phylogenie und Populationsgenetik
Summer term 2010 Einführung in das Programmieren in C/C++
Winter term 2010/2011 Phylogenie und Populationsgenetik



 
 
  Last Update: February 2010, Christoph Mayer