Heiko A Schmidt

Summary

Affiliation: Max Planck Institute for Evolutionary Anthropology
Country: Germany

Publications

  1. ncbi Maximum-likelihood analysis using TREE-PUZZLE
    Heiko A Schmidt
    Center for Integrative Bioinformatics Vienna, Max F Perutz Laboratories, Vienna, Austria
    Curr Protoc Bioinformatics . 2007
  2. ncbi TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing
    Heiko A Schmidt
    Max Planck Institut fur Molekulare Genetik, Ihnestr 73, D 14195 Berlin, Germany
    Bioinformatics 18:502-4. 2002
  3. ncbi pIQPNNI: parallel reconstruction of large maximum likelihood phylogenies
    Bui Quang Minh
    Albert-Ludwigs-University Freiburg, Germany
    Bioinformatics 21:3794-6. 2005
  4. ncbi pIPHULA--parallel inference of population parameters using a likelihood approach
    Heiko A Schmidt
    Center for Integrative Bioinformatics Vienna CIBIV, Max F Perutz Laboratories MFPL, Vienna, Austria
    Bioinformatics 23:2636-7. 2007
  5. ncbi Genetic interaction between distinct Dobrava hantavirus subtypes in Apodemus agrarius and A. flavicollis in nature
    Boris Klempa
    Institute of Virology, , Humboldt University, D-10098 Berlin, Germany
    J Virol 77:804-9. 2003
  6. ncbi Unexpected complexity of the Wnt gene family in a sea anemone
    Arne Kusserow
    Institute of Zoology, Darmstadt University of Technology, Schnittspahnstrasse 10, D-64287 Darmstadt, Germany
    Nature 433:156-60. 2005
  7. ncbi An ancient Wnt-Dickkopf antagonism in Hydra
    Corina Guder
    Molecular Evolution and Genomics, Heidelberg University, Im Neuenheimer Feld 230, 69120 Heidelberg, Germany
    Development 133:901-11. 2006
  8. ncbi Rooted triple consensus and anomalous gene trees
    Gregory B Ewing
    Center for Integrative Bioinformatics Vienna, Max F, Perutz Laboratories, Dr, Bohr Gasse 9, A 1030 Vienna, Austria
    BMC Evol Biol 8:118. 2008

Collaborators

  • Korbinian Strimmer
  • M Q Martindale
  • Jutta Buschbom
  • Le Sy Vinh
  • Arndt von Haeseler
  • Gregory B Ewing
  • Corina Guder
  • Thomas W Holstein
  • Bert Hobmayer
  • Arne Kusserow
  • Bui Quang Minh
  • Boris Klempa
  • Ingo Ebersberger
  • Christof Niehrs
  • Tanju G Nacak
  • Sonia Pinho
  • Carsten Sturm
  • Le Sy Vinh
  • Martina Hrouda
  • Ulrich Technau
  • Jan Lentfer
  • Kevin Pang
  • Milan Labuda
  • Rainer Ulrich
  • Helga Meisel
  • Brian Hjelle
  • Stefan Kaluz

Detail Information

Publications8

  1. ncbi Maximum-likelihood analysis using TREE-PUZZLE
    Heiko A Schmidt
    Center for Integrative Bioinformatics Vienna, Max F Perutz Laboratories, Vienna, Austria
    Curr Protoc Bioinformatics . 2007
    ..Basic Protocol 2 discusses likelihood mapping, a method to visualize phylogenetic content in a multiple sequence alignment. Basic Protocol 3 explains how to compare tree topologies using different tests...
  2. ncbi TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing
    Heiko A Schmidt
    Max Planck Institut fur Molekulare Genetik, Ihnestr 73, D 14195 Berlin, Germany
    Bioinformatics 18:502-4. 2002
    ..To run the parallel version of PUZZLE, a Message Passing Interface (MPI) library has to be installed on the system. Free MPI implementations are available on the Web (cf. http://www.lam-mpi.org/mpi/implementations/)...
  3. ncbi pIQPNNI: parallel reconstruction of large maximum likelihood phylogenies
    Bui Quang Minh
    Albert-Ludwigs-University Freiburg, Germany
    Bioinformatics 21:3794-6. 2005
    ..SUMMARY: IQPNNI is a program to infer maximum-likelihood phylogenetic trees from DNA or protein data with a large number of sequences. We present an improved and MPI-parallel implementation showing very good scaling and speed-up behavior...
  4. ncbi pIPHULA--parallel inference of population parameters using a likelihood approach
    Heiko A Schmidt
    Center for Integrative Bioinformatics Vienna CIBIV, Max F Perutz Laboratories MFPL, Vienna, Austria
    Bioinformatics 23:2636-7. 2007
    ..pIPHULA is the parallel program to estimate the parameters of a realistic model of population growth...
  5. ncbi Genetic interaction between distinct Dobrava hantavirus subtypes in Apodemus agrarius and A. flavicollis in nature
    Boris Klempa
    Institute of Virology, , Humboldt University, D-10098 Berlin, Germany
    J Virol 77:804-9. 2003
    ..DOBV-Af and DOBV-Aa are distinct but also subject to genetic exchanges that affect their evolutionary trajectories...
  6. ncbi Unexpected complexity of the Wnt gene family in a sea anemone
    Arne Kusserow
    Institute of Zoology, Darmstadt University of Technology, Schnittspahnstrasse 10, D-64287 Darmstadt, Germany
    Nature 433:156-60. 2005
    ..It emphasizes the crucial function of Wnt genes in the diversification of eumetazoan body plans...
  7. ncbi An ancient Wnt-Dickkopf antagonism in Hydra
    Corina Guder
    Molecular Evolution and Genomics, Heidelberg University, Im Neuenheimer Feld 230, 69120 Heidelberg, Germany
    Development 133:901-11. 2006
    ..Based on the corresponding expression patterns of hydkk1/2/4 and neuronal genes, we suggest that the body column of Hydra is a neurogenic environment suppressing Wnt signalling and facilitating neurogenesis...
  8. ncbi Rooted triple consensus and anomalous gene trees
    Gregory B Ewing
    Center for Integrative Bioinformatics Vienna, Max F, Perutz Laboratories, Dr, Bohr Gasse 9, A 1030 Vienna, Austria
    BMC Evol Biol 8:118. 2008
    ..In this paper we propose a rooted triple approach to finding the correct species tree in the presence of AGTs...