Rooted triple consensus and anomalous gene trees (2008)
Ewing, Gregory B, Ebersberger, Ingo, Schmidt, Heiko A, Von Haeseler, Arndt
Abstract Background Anomalous gene trees (AGTs) are gene trees with a topology different from a species tree that are more probable to observe than congruent gene trees. In this paper we propose a...
BIOINFORMATICS APPLICATIONS NOTE (2008)
Bui Quang Minh, Le Sy Vinh, Arndt Von Haeseler, Heiko A. Schmidt
Vol. 21 no. 19 2005, pages 3794–3796 doi:10.1093/bioinformatics/bti594 pIQPNNI: parallel reconstruction of large maximum likelihood phylogenies
Genetic Programming based DNA Microarray Analysis for Classification of Cancer (2008)
Michael Rosskopf, Heiko A. Schmidt, Udo Feldkamp, Wolfgang Banzhaf
Abstract. In this study the advantages of statistical gene selection are combined with the power of Genetic Programming (GP) to build classifiers for assigning gene expression microarray data samples...
email: strimmer @ stat.uni-muenchen.de (2008)
Copyright Heiko, A. Schmidt, Korbinian Strimmer, Arndt Von Haeseler, K. Strimmer, M. Vingron, ...
Remarks: • A bug has been fixed, which tended to produce less resolved trees. Hence, versions prior to 5.2 should not be used anymore! • Some menus have been extended. Hence, the order of some...
Using Parallel Computing for Maximum Likelihood Phylogenetic Analysis (2007)
Heiko A. Schmidt, Martin Vingron
Phylogenetic reconstruction is used in several fields of genetic sequence analysis. It is applied not only for inferring relationships between species or within gene or protein families. It is also...
Nicolas Pollet, Heiko A. Schmidt, Volker Gawantka, Martin Vingron, Christof Niehrs
Axeldb is a database storing and integrating gene expression patterns and DNA sequences identified in a large-scale in situ hybridization study in Xenopus laevis embryos. The data are organised in a...
pIPHULA parallel inference of population parameters using a likelihood approach (2007)
Schmidt, Heiko A., Von Haeseler, Arndt, Buschbom, Jutta
Summary: pIPHULA is the parallel program to estimate the parameters of a realistic model of population growth. Availability: pIPHULA (http://www.cibiv.at/software/piphula) is written in ISO C,...
Phylogenetic Trees from Large Datasets (2007)
Aufgrund effizienter Sequenziertechniken zeigen die Datenbanken für molekulare Sequenzdaten exponentielles Wachstum. Die vorhandenen Datenmengen führen vor allem zu zwei Arten von großen...
Large Maximum Likelihood Trees (2006)
G. Münster, D. Wolf, M. Kremer (editors, Bui Quang Minh, Bui Quang Minh, Le Sy Vinh, ...
Permission to make digital or hard copies of portions of this work for personal or classroom use is granted provided that the copies are not made or distributed for profit or commercial advantage and...
pIQPNNI - parallel reconstruction of large maximum likelihood phylogenies (2005)
Minh, Bui Quang, Vinh, Le Sy, Von Haeseler, Arndt, Schmidt, Heiko A.
Summary: IQPNNI is a program to infer maximum-likelihood phylogenetic trees from DNA or protein data with large number of sequences. We present an improved and MPI-parallel implementation showing...
Molecular phylogenetics: parallelized parameter estimation and quartet puzzling (2003)
Schmidt,Heiko A., Petzold,E., Vingron,Martin, Von Haeseler,Arndt
Exponential growth of the data available for molecular sequence analysis causes eminent need for methods to analyze large datasets in reasonable time. In molecular phylogenetics maximum-likelihood...
Klempa,Boris, Schmidt,Heiko A., Ulrich,Rainer, Kaluz,Stefan, Labuda,Milan, Meisel,Helga, ...
Dobrava virus (DOBV) occurs in two different rodent species, Apodemus flavicollis (DOBV-Af) and A. agrarius (DOBV-Aa). We sequenced the S and M genomic segments from sympatric DOBV-Af and DOBV-Aa...
Maximum-likelihood analysis using TREE-PUZZLE (2003)
Schmidt,Heiko A., Von Haeseler,Arndt
TREE-PUZZLE provides means to analyze and reconstruct evolutionary relationships and trees based on quartets, i.e. groups of 4 sequences. Basic Protocol 1 explains how to reconstruct trees based on...
Klempa, Boris, Schmidt, Heiko A., Ulrich, Rainer, Kaluz, Stefan, Labuda, Milan, Meisel, Helga, ...
Dobrava virus (DOBV) occurs in two different rodent species, Apodemus flavicollis (DOBV-Af) and A. agrarius (DOBV-Aa). We sequenced the S and M genomic segments from sympatric DOBV-Af and DOBV-Aa...
Klempa, Boris, Ulrich, Rainer, Meisel, Helga, Krüger, Detlev H., Schmidt, Heiko A., Kaluz, Stefan, ...
Maximum-likelihood analysis using TREE-PUZZLE (2003)
Schmidt, Heiko A., Von Haeseler, Arndt
TREE-PUZZLE provides means to analyze and reconstruct evolutionary relationships and trees based on quartets, i.e. groups of 4 sequences. Basic Protocol 1 explains how to reconstruct trees based on...
Molecular phylogenetics: parallelized parameter estimation and quartet puzzling (2003)
Schmidt, Heiko A., Petzold, E., Vingron, Martin, Von Haeseler, Arndt
Exponential growth of the data available for molecular sequence analysis causes eminent need for methods to analyze large datasets in reasonable time. In molecular phylogenetics maximum-likelihood...
Phylogenetic trees from large datasets (2003)
This thesis deals with topics from Bioinformatics /Phyloinformatics. It touches the fields algorithmic complexity, molecular phylogenetics, sequence evolution, as well as parallel computing and,...
Phylogenetic trees from large datasets [Elektronische Ressource] / (2003)
Düsseldorf, University, Diss., 2003.
Phylogenetic Trees from Large Datasets Inaugural – Dissertation zur (2003)
Heiko A. Schmidt, Korreferent Prof, Dr. William Martin
Indeed, it was made on the plan of a bench for length and lowness. It seemed to be satisfied, but I thought the plan poor, and structurally weak, on account of the distance between the forward...
Phylogenetic trees from large datasets / (2003)
Düsseldorf, University, Diss., 2003 (Nicht für den Austausch).
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing (2002)
Schmidt,Heiko A., Strimmer,Korbinian, Vingron,Martin, Von Haeseler,Arndt
Summary: TREE-PUZZLE is a program package for quartet-based maximum-likelihood phylogenetic analysis (formerly PUZZLE, Strimmer and von Haeseler, Mol. Biol. Evol. , 13, 964–969, 1996) that provides...
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing (2002)
Schmidt, Heiko A., Strimmer, Korbinian, Vingron, Martin, Von Haeseler, Arndt
Summary: TREE-PUZZLE is a program package for quartet-based maximum-likelihood phylogenetic analysis (formerly PUZZLE, Strimmer and von Haeseler, Mol. Biol. Evol. , 13, 964-969, 1996) that provides...
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing (2002)
Schmidt, Heiko A., Strimmer, Korbinian, Vingron, Martin, Von Haeseler, Arndt
Summary: TREE-PUZZLE is a program package for quartet-based maximum-likelihood phylogenetic analysis (formerly PUZZLE, Strimmer and von Haeseler, Mol. Biol. Evol. , 13, 964–969, 1996) that provides...
TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing (2002)
Schmidt, Heiko A., Strimmer, Korbinian, Vingron, Martin, Von Haeseler, Arndt
Summary: TREE-PUZZLE is a program package for quartet-based maximum-likelihood phylogenetic analysis (formerly PUZZLE, Strimmer and von Haeseler, Mol. Biol. Evol. , 13, 964–969, 1996) that provides...
Axeldb: a Xenopus laevis database focusing on gene expression (2000)
Pollet, Nicolas, Schmidt, Heiko A., Gawantka, Volker, Vingron, Martin, Niehrs, Christof
Axeldb is a database storing and integrating gene expression patterns and DNA sequences identified in a large-scale in situ hybridization study in Xenopus laevis embryos. The data are organised in a...
Using Parallel Computing for Maximum Likelihood Phylogenetic Analysis (1998)
Heiko A. Schmidt, Martin Vingron
Introduction Phylogenetic reconstruction is used in several fields of genetic sequence analysis. It is applied not only for inferring relationships between species or within gene or protein families....
Axeldb: a Xenopus laevis database focusing on gene expression
Pollet, Nicolas, Schmidt, Heiko A., Gawantka, Volker, Vingron, Martin, Niehrs, Christof
Axeldb is a database storing and integrating gene expression patterns and DNA sequences identified in a large-scale in situ hybridization study in Xenopus laevis embryos. The data are organised in a...
Klempa, Boris, Schmidt, Heiko A., Ulrich, Rainer, Kaluz, Stefan, Labuda, Milan, Meisel, Helga, ...
Dobrava virus (DOBV) occurs in two different rodent species, Apodemus flavicollis (DOBV-Af) and A. agrarius (DOBV-Aa). We sequenced the S and M genomic segments from sympatric DOBV-Af and DOBV-Aa...
Axeldb: a Xenopus laevis database focusing on gene expression
Pollet, Nicolas, Schmidt, Heiko A., Gawantka, Volker, Vingron, Martin, Niehrs, Christof
Axeldb is a database storing and integrating gene expression patterns and DNA sequences identified in a large-scale in situ hybridization study in Xenopus laevis embryos. The data are organised in a...
Klempa, Boris, Schmidt, Heiko A., Ulrich, Rainer, Kaluz, Stefan, Labuda, Milan, Meisel, Helga, ...
Dobrava virus (DOBV) occurs in two different rodent species, Apodemus flavicollis (DOBV-Af) and A. agrarius (DOBV-Aa). We sequenced the S and M genomic segments from sympatric DOBV-Af and DOBV-Aa...