Heiko A Schmidt

Summary

Affiliation: Max Planck Institute for Evolutionary Anthropology
Country: Germany

Publications

  1. ncbi request reprint 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 request reprint 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 request reprint pIQPNNI: parallel reconstruction of large maximum likelihood phylogenies
    Bui Quang Minh
    Albert Ludwigs University Freiburg, Germany
    Bioinformatics 21:3794-6. 2005
  4. ncbi request reprint 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. pmc Genetic interaction between distinct Dobrava hantavirus subtypes in Apodemus agrarius and A. flavicollis in nature
    Boris Klempa
    Institute of Virology, Charite School of Medicine, Humboldt University, D 10098 Berlin, Germany
    J Virol 77:804-9. 2003
  6. ncbi request reprint 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 request reprint 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. pmc 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
  • Bert Hobmayer
  • Thomas W Holstein
  • Bui Quang Minh
  • Arne Kusserow
  • Boris Klempa
  • Ingo Ebersberger
  • Sonia Pinho
  • Christof Niehrs
  • Tanju G Nacak
  • Le Sy Vinh
  • Martina Hrouda
  • Carsten Sturm
  • Jan Lentfer
  • Kevin Pang
  • Ulrich Technau
  • Rainer Ulrich
  • Helga Meisel
  • Milan Labuda
  • Detlev H Kruger
  • Brian Hjelle
  • Stefan Kaluz

Detail Information

Publications8

  1. ncbi request reprint 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 request reprint 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 request reprint pIQPNNI: parallel reconstruction of large maximum likelihood phylogenies
    Bui Quang Minh
    Albert Ludwigs University Freiburg, Germany
    Bioinformatics 21:3794-6. 2005
    ..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 request reprint 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. pmc Genetic interaction between distinct Dobrava hantavirus subtypes in Apodemus agrarius and A. flavicollis in nature
    Boris Klempa
    Institute of Virology, Charite School of Medicine, 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 request reprint 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 request reprint 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. pmc 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...