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Animal Ecology, Evolution and Biodiversity » Members » Dr. Christoph Mayer

Since 2010 I am working at the zoological research museum Alexander Koenig in Bonn: Christoph Mayer at the ZFMK.

If you are looking for the Phobos program, see the software section further down this page.

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 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 - Statistical analysis of Phobos output. Sat-stat computes tandem repeat characteristics of genomes analysed with Phobos. (Available upon request.)

PolyMoSim - A program to simulate molecular evolution, such that every branch of a tree can be assigned a different evolutionary model. PolyMoSim

SAMS - Splits Analysis Methods, Christoph Mayer
SAMS is available here: SAMS at the ZFMK



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