Center for Integrative Bioinformatics Vienna
Max F. Perutz Laboratories
Dr. Bohr Gasse 9
A-1030 Vienna, Austria

Arndt

Arndt von Haeseler

Addresses

Center for Integrative Bioinformatics Vienna (CIBIV)
(CIBIV is a joint institute of Vienna University, Medical University, and University of Veterinary Medicine, Vienna, Austria)
Max F. Perutz Laboratories (MFPL)
Campus Vienna Biocenter 5 (VBC5), Ebene 1
A-1030 Wien, Austria
Phone: ++43 +1 / 4277 - 24007
Fax: ++43 +1 / 4277 - 24098
Email: arndt.von.haeseler(AT)univie.ac.at

Postal Address:

Center for Integrative Bioinformatics Vienna (CIBIV)
Max F. Perutz Laboratories (MFPL)
Dr. Bohr Gasse 9
A-1030 Wien, Austria

Research Interests:

Alignment
Sequence evolution
Gene trees
Population genetics
Complex patterns of evolution

Short Vita:

Education:

1984: Philipps University Marburg, State examination (1. Staatsexamen) for biology, mathematics, education science
1988: University of Bielefeld, Ph. D. in Mathematics
1994: University of Munich, State doctorate (Habilitation) in Zoology

Professional Experience:

1988-1989: University of Bielefeld, Postdoc
1989-1990: University of Southern California, Postdoc
1990-1991: University of Southern California, Visiting Assistant Professor, Mathematics
1991-1995: University of Munich, Scientific lecturer (Hochschulassistent, C1),
1995-1998: University of Munich, Senior Scientific lecturer (Hochschulassistent, C2), Biology
1998-2001: Max Planck Institute for evolutionary Anthropology, Group Leader (C3) of Theoretical Biology Group
since 1999: University of Leipzig, Honorary Professor for Theoretical Biology.
2001-2005: Heinrich Heine University Düsseldorf, Full Professor (C4) for Bioinformatics.
2001-2004: Research Center Jülich, Group Leader of the Bioinformatics Group at the Neumann Institute for Computing.
2002-2005: Heinrich Heine University Düsseldorf, Chairman of Computer Sciences.
since 2005: Scientific Director of the Center for Integrative Bioinformatics Vienna (CIBIV).
since 2005: Vienna University, Medical University, and University of Veterinary Medicine, Full Professor.

Publications

in press

K. Meusemann, B.M. von Reumont, S. Simon, F. Roeding, S. Strauss, P. Kück, I. Ebersberger, M. Walzl, G. Pass, S. Breuers, V. Achter, A. von Haeseler, T. Burmester, H. Hadrys, W.W. Wägele and B. Misof (2010) A phylogenomic approach to resolve the arthropod tree of life. Mol. Biol. Evol., 27, in press. (DOI: 10.1093/molbev/msq130, PMID: 20534705)
M. A. T. Nguyen, S. Klaere, and A. von Haeseler (2010) MISFITS: Evaluating the goodness of fit between a phylogenetic model and an alignment. Mol. Biol. Evol., 27, in press. (free copy, DOI: 10.1093/molbev/msq180, PMID: 20643866)
L.S. Vinh, A. Fuehrer, and A. von Haeseler (2010) Random Tree-Puzzle leads to the Yule-Harding Distribution. Mol. Biol. Evol., in press.

2010

T. Baubec, H.Q. Dinh, A. Pecinka, B. Rakic, W. Rozhon, B. Wohlrab, A. von Haeseler and O. Mittelsten Scheid (2010) Cooperation of Multiple Chromatin Modifications Can Generate Unanticipated Stability of Epigenetic States in Arabidopsis. Plant Cell, 22, 34-47. (DOI: 10.1105/tpc.109.072819, PMID: 20097869)
J. Hofmann, K. Frenzel, B. Q. Minh, A. von Haeseler, A. Edelmann, R.S. Ross, D.H. Krueger, H. Meisel (2010) Quantitative detection and typing of Hepatitis D virus in human serum by real-time PCR and melting curve analysis. Diagn. Microbiol. Infect. Dis., 67, 172-179. (DOI: 10.1016/j.diagmicrobio.2010.02.003, PMID: 20466196)
T. Köstler, A. von Haeseler, and I. Ebersberger (2010) FACT: Functional annotation transfer between proteins with similar feature architecture. BMC Bioinform., 11, 417. (DOI: 10.1186/1471-2105-11-417, PMID: 20696036)
C. Lorenz, T. Gesell, B. Zimmermann, U. Schoeberl, I. Bilusic, L. Rajkowitsch, C. Waldsich, A. von Haeseler and R. Schroeder (2010) Genomic SELEX for Hfq-binding RNAs identifies genomic aptamers predominantly in antisense transcripts. Nucleic Acids Res., 38, 3794-3808. (DOI: 10.1093/nar/gkq032) PMID: 20348540)

2009

S. J. F. Cronin, N. T. Nehme, S. Limmer, S. Liegeois, J. A. Pospisilik, D. Schramek, A. Leibbrandt, R. de Matos Simoes, S. Gruber, U. Puc, I. Ebersberger, T. Zoranovic, G. G. Neely, A. von Haeseler, D. Ferrandon and J. M. Penninger (2009) A genome-wide in vivo RNAi screen on innate immunity to intestinal pathogenic infections. Science, 325, 340-343. (DOI: 10.1126/science.1173164, PMID: 19520911)
I. Ebersberger, S. Strauss, and A. von Haeseler (2009) HaMStR: Profile Hidden Markov Model Based Search for Orthologs in ESTs. BMC Evol. Biol., 9, 157. (DOI: 10.1186/1471-2148-9-157, PMID: 19586527)
R. Hanada, A. Leibbrandt, T. Hanada, S. Kitaoka, T. Furuyashiki, H. Fujihara, J. Trichereau, M. Paolino, F. Qadri, R. Plehm, S. Klaere, V. Komnenovic, H. Mimata, H. Yoshimatsu, N. Takahashi, A. von Haeseler, M. Bader, S. Sebnem Kilic, Y. Ueta, C. Pifl, S. Narumiya and J.M. Penninger (2009) Central control of fever and female body temperature by RANKL/RANK. Nature, 462, 505-509. (DOI: 10.1038/nature08596, PMID: 19940926)
U. Krauss^e, B.Q. Minh^e, A. Losi, W. Gaertner, T. Eggert, A. von Haeseler^c, and K.E. Jaeger (2009) Distribution and phylogeny of light-oxygen-voltage-blue-light-signaling proteins in the three kingdoms of life. J. Bacteriol., 191, 7234-7242. (DOI: 10.1128/JB.00923-09, PMID: 19783626)
^e contributed equally, ^c corresponding author
B.Q. Minh, S. Klaere, and A. von Haeseler (2009) Taxon Selection under Split Diversity. Syst. Biol., 57, 586-594. (DOI: 10.1093/sysbio/syp058)
B.Q. Minh, F. Pardi, S. Klaere, and A. von Haeseler (2009) Budgeted Phylogenetic Diversity on Circular Split Systems. IEEE/ACM Trans. Comput. Biol. Bioinform., 6, 22-29. (DOI: 10.1109/TCBB.2008.54, PMID: 19179696)
A. Kupczok and A. von Haeseler (2009) Comment on: A congruency index for testing topological similarity between trees. Bioinformatics, 25, 147-149. (DOI: 10.1093/bioinformatics/btn539, PMID: 18922807)
O. Mirus, T. Bionda, A. von Haeseler, and E. Schleiff (2009) Evolutionarily evolved discriminators in the TPR domain of the Toc64 family involved in protein translocation at the outer membrane of chloroplasts and mitochondria. J. Mol. Mod., 15, 971-982. (DOI: 10.1007/s00894-008-0449-y, PMID: 19198901)
O. Mirus^e, S. Strauss^e, K. Nicolaisen, A. von Haeseler, E. Schleiff (2009) TonB-dependent transporters and their occurrence in cyanobacteria. BMC Biol., 7, 68. (DOI: 10.1186/1741-7007-7-68, PMID: 19821963)
^e contributed equally
H.A. Schmidt and A. von Haeseler (2009) Phylogenetic Inference Using Maximum Likelihood Methods. In P. Lemey, M. Salemi, A.M. Vandamme (eds.)The Phylogenetic Handbook: a Practical Approach to Phylogenetic Analysis and Hypothesis Testing., 2nd Edition, 181-209, Cambridge University Press, Cambridge. (ISBN: paperback: 9780521730716, hardcover: 9780521877107)
S. Simon, S. Strauss, A. von Haeseler, and H. Hadrys (2009) A phylogenomic approach to resolve the basal pterygote divergence. Mol. Biol. Evol., 26, 2719-2730. (DOI: 10.1093/molbev/msp191, PMID: 19713325)
K. Strimmer and A. von Haeseler (2009) Nucleotide Substitution Models. In P. Lemey, M. Salemi, A.M. Vandamme (eds.)The Phylogenetic Handbook: a Practical Approach to Phylogenetic Analysis and Hypothesis Testing., 2nd Edition, 111-141, Cambridge University Press, Cambridge. (ISBN: paperback: 9780521730716, hardcover: 9780521877107)
M. Tillich, L. S. Vinh, K. Schulerowitz, A. von Haeseler, U. G. Maier and C. Schmitz-Linneweber (2009) Loss of MatK RNA Editing in Seed Plant Chloroplasts. BMC Evol. Biol., 9, 201. (DOI: 10.1186/1471-2148-9-201) PMID: 19678945)

2008

I. Bruns, Ingmar and U. Steidl, Ulrich and J.C. Fischer, A. Czibere, G. Kobbe, S. Raschke, R. Singh, R. Fenk, M. Rosskopf, S. Pechtel, A. von Haeseler, P. Wernet, D. Tenen, R. Haas, and R. Kronenwett (2008) Pegylated G-CSF mobilizes CD34+ cells with different stem and progenitor subsets and distinct functional properties in comparison with unconjugated G-CSF. Haematologica, 93, 347-355. (DOI: 10.3324/haematol.12081, PMID: 18268278)
G.B. Ewing, I. Ebersberger, H.A. Schmidt, and A. von Haeseler (2008) Rooted Triple Consensus and Anomalous Gene Trees. BMC Evol. Biol., 8, 118. (DOI: 10.1186/1471-2148-8-118, PMID: 18439266)
S. Klaere, T. Gesell, and A. von Haeseler (2008) The impact of single substitutions on multiple sequence alignments. Phil. Trans. R. Soc. Lond. B, 363, 4041-4047. (DOI: 10.1098/rstb.2008.0140, PMID: 18852110)
A. Kupczok, A. von Haeseler, and S. Klaere (2008) An Exact Algorithm for the Geodesic Distance between Phylogenetic Trees. J. Comput. Biol., 15, 577-591. (DOI: 10.1089/cmb.2008.0068, PMID: 18631022)
D. Mainz, I. Paulsen, I. Mainz, K. Weller, J. Kohl, and A. von Haeseler (2008) Knowledge Acquisition Focused Cooperative Development of Bio-Ontologies - A Case Study with BIO2Me. In M. Elloumi, J. Küng, M. Linial, R.F. Murphy, K. Schneider, T. Cristian (eds.) Bioinformatics Research and Development., 258-272, Springer, Berlin. (ISBN 978-3-540-70598-7)
I. Mainz, K. Weller, I. Paulsen, D. Mainz, J. Kohl, and A. von Haeseler (2008) Ontoverse: Collaborative Ontology Engineering for the Life Sciences. Inform. Wiss. Praxis, 2, 91-99. (online access)
A. Rohrbeck, J. Neukirchen, M. Rosskopf, G.G. Pardillos, H. Geddert, A. Schwalen, H.E. Gabbert, A. von Haeseler, G. Pitschke, M. Schott, R. Kronenwett, R. Haas, Rainer U.-P. Rohr (2008) Gene expression profiling for molecular discrimination and characterization of laser captured primary lung cancers. J. Translat. Med., 6, 69. (DOI: 10.1186/1479-5876-6-69)
H. Schabauer, J. Zottl, A. von Haeseler, W.N. Gansterer, and H.A. Schmidt (2008) Phylogenetic Quality Assessment for Campus Grids. In J. Küng, K. Schneider, R. Wagner (eds.) BIRD'08 -- 2nd International Conference on Bioinformatics and Development (Articles on Poster Presentations)., Schriftenreihe Informatik, 109-114, Trauner Verlag, Linz. (ISBN 978-3-85499-422-0)
L. S. Vinh and A. von Haeseler (2008) Bookreview on "Computational Molecular Evolution by Ziheng Yang, 2006, Oxford University Press, Oxford". Syst. Biol., 56, 1024-1026. (DOI: 10.1080/10635150701752532, PMID: 18066933)

2007

R. Bredemeier, T. Schlegel, F. Ertel, A. Vojita, L. Borissenko, M.T. Bohnsack, M. Groll, A. von Haeseler, and E. Schleiff (2007) Functional and phylogenetic properties of the pore forming β-barrel transporter of the Omp85 family. J. Biol. Chem., 282, 1882-1890. (DOI: 10.1074/jbc.M609598200, PMID: 17088246)
E. Diaz-Blanco, I. Bruns, F. Neumann, J.C. Fischer, T. Graef, M. Rosskopf, B. Brors, S. Pechtel, S. Bork, A. Koch, A. Baer, U.-P. Rohr, G. Kobbe, A. von Haeseler, N. Gattermann, and R. Kronenwett (2007) Molecular signature of CD34+ hematopoietic stem and progenitor cells of patients with CML in chronic phase. Leukemia, 21, 494–504. (DOI: 10.1038/sj.leu.2404549, PMID: 17252012)
I. Ebersberger, P. Galgoczy, S. Taudien, S. Taenzer, M. Platzer, and A. von Haeseler (2007) Mapping human genetic ancestry. Mol. Biol. Evol., 24, 2266-2276. (DOI: 10.1093/molbev/msm156, PMID: 17660505)
I. Ebersberger, A. von Haeseler, and H.A. Schmidt (2007) Phylogeny Reconstruction. In T. Lengauer (ed.) Bioinformatics: From Genomes to Therapies 83-128, Wiley-VCH, Weinheim. (ISBN 978-3-527-31278-8)
M.R. Eckert, T. Gesell, M. Grabner, A. Gruber, K. Gonzales, I.L. Hofacker, A. von Haeseler, and E. Charpentier (2007) A bioinformatic screen reveals novel small noncoding RNAs in Streptococcus pyogenes FEBS J., 274, 189. (DOI: 10.1111/j.0014-2956.2007.05861.x)
T. Laubach and A. von Haeseler (2007) TreeSnatcher: Coding trees from images. Bioinformatics, 23, 3384-3385. (DOI: 10.1093/bioinformatics/btm438, PMID: 17893085)
S. Linz, A. Radtke, A. von Haeseler (2007) A maximum likelihood framework to measure horizontal gene transfer. Mol. Biol. Evol., 24, 1312-1319. (DOI: 10.1093/molbev/msm052, PMID: 17374878)
W. Löffelhardt, A. von Haeseler, E. Schleiff (2007) The β-barrel shaped polypeptide transporter, an old concept for precursor protein transfer across membranes. Symbiosis, 44, 33-42.
F. Roeding, S. Hagner-Holler, H. Ruhberg, I. Ebersberger, A. von Haeseler, M. Kube, R. Reinhardt, and Burmester, T. (2007) EST sequencing of Onychophora and phylogenomic analysis of Metazoa. Mol. Phylogenet. Evol., 45, 942-951. (DOI: 10.1016/j.ympev.2007.09.002, PMID: 17933557)
U. Schauer, C. Lorenz, T. Gesell, C. Waldsich, A. von Haeseler, and R. Schroeder (2007) Characterization of high affinity Hfq binding sites FEBS J., 274, 86. (DOI: 10.1111/j.0014-2956.2007.05861_1.x)
T. Schlegel, O. Mirus, A. von Haeseler and E. Schleiff (2007) The tetratricopeptide repeats of receptors involved in protein translocation across membranes. Mol. Biol. Evol., 24, 2763-2774. (DOI: 10.1093/molbev/msm211, PMID: 17905998)
H.A. Schmidt and A. von Haeseler (2007) Maximum Likelihood Analysis using TREE-PUZZLE. (revised version) In A.D. Baxevanis, D.B. Davison, R.D.M. Page, G. Stormo, and L. Stein (eds.) Current Protocols in Bioinformatics, Unit 6.6, pages 6.6.1-6.6.23, Wiley and Sons, New York. (DOI: 10.1002/0471250953.bi0606s17, PMID: 18428792, ISBN 0-471-25093-7, CP online)
H.A. Schmidt, A. von Haeseler, and J. Buschbom (2007) pIPHULA - Parallel Inference of Population Parameters Using a Likelihood Approach. Bioinformatics, 23, 2636-2637. (free reprint, DOI: 10.1093/bioinformatics/btm391, PMID: 17698495)

2006

T. Gesell and A. von Haeseler (2006) In silico sequence evolution with site-specific interactions along phylogenetic trees. Bioinformatics, 22, 716-722. (DOI: 10.1093/bioinformatics/bti812, PMID: 16332711)
B. Kilian, H. Özkan, J. Kohl, A. von Haeseler, O. Deusch, A. Brandolini, C. Yucel, W. Martin, and F. Salamini (2006) Haplotype structure at seven barley genes: relevance to gene pool bottlenecks, phylogeny of ear type and site of barley domestication. Mol. Genet. Genomics, 275, 230-241. (DOI: 10.1007/s00438-006-0136-6, PMID: 16758198)
J. Kohl, I. Paulsen, T. Laubach, A. Radtke, and A. von Haeseler (2006) HvrBase++: A phylogenetic database for primate species. Nucl. Acids Res., 34, D700-D704. (DOI: 10.1093/nar/gkj030, PMID: 16381963)
B.Q. Minh, S. Klaere, and A. von Haeseler (2006) Phylogenetic Diversity within Seconds. Syst. Biol., 55, 769-773. (DOI: 10.1080/10635150600981604)
B.Q. Minh, L.S. Vinh, H.A. Schmidt, and A. von Haeseler (2006) Large Maximum Likelihood Trees. Proceedings of the NIC Symposium 2006. 357-365, Forschunungszentrum Jülich, Germany. (free reprint, ISBN 3-00-017351-X)
I. Paulsen and A. von Haeseler (2006) INVHOGEN: A database of homologous invertebrate genes. Nucl. Acids Res., D349-D353. (DOI: 10.1093/nar/gkj100, PMID: 16381884)
E. Petzold, D. Merkle, M. Middendorf, A. von Haeseler, and H.A. Schmidt (2006) Phylogenetic Parameter Estimation on COWs. In A.Y. Zomaya (ed.) Parallel Computing for Bioinformatics and Computational Biology 347-368, Wiley and Sons, New York. (ISBN 0-471-71848-3)

2005

J. Buschbom and A. von Haeseler (2005) Introduction to applications of the likelihood function in molecular evolution. In R. Nielsen (ed.) Statistical Methods in Molecular Evolution 25-44, Springer, New York. (ISBN: 0-387-22333-9)
R. Fleißner, D. Metzler, and A. von Haeseler (2005) Simultaneous statistical multiple alignment and phylogeny reconstruction. Syst. Biol., 54, 548-561. (DOI: 10.1080/10635150590950371, PMID: 16085574)
J. Kohl and A. von Haeseler (2005) Bookreview on "Perl Programming for Biologists by D.C. Jamison. Wiley-Liss, Chichester, 2003". Biometrics, 61, 316. (DOI: 10.1111/j.0006-341X.2005.20050217-2_6.x)
A. Kusserow, K. Pang, C. Sturm, M. Hrouda, J. Lentfer, H.A. Schmidt, U. Technau, A. von Haeseler, B. Hobmayer, M.Q. Martindale, and T.W. Holstein (2005) Unexpected complexity of Wnt gene family in a sea anemone. Nature, 433, 156-160. (DOI: 10.1038/nature03158, PMID: 15650739)
D. Metzler, R. Fleißner, A. Wakolbinger, and A. von Haeseler (2005) Stochastic insertion-deletion processes and statistical sequence alignment. In A. Greven and D. Deuschel (eds.) Interacting Stochastic Systems, 247-267, Springer, Heidelberg/Berlin. (ISBN: 3-540-23033-5)
B.Q. Minh, L.S. Vinh, A. von Haeseler, and H.A. Schmidt (2005) pIQPNNI -- Parallel Reconstruction of Large Maximum Likelihood Phylogenies. Bioinformatics, 21, 3794-3796. (free reprint, DOI: 10.1093/bioinformatics/bti594, PMID: 16046495)
S. Moslavac, O. Mirus, R. Bredemeier, J. Soll, A. von Haeseler, and E. Schleiff (2005) Conserved pore forming regions in polypeptide transporting proteins. FEBS Journal (formerly: European Journal of Biochemistry), 272, 1367-1378. (DOI: 10.1111/j.1742-4658.2005.04569.x, PMID: 15752354)
H. Oota, B. Pakendorf, G. Weiss, A. von Haeseler, S. Pookajorn, W. Settheetham-Ishida, D. Tiwawech, T. Ishida, and M. Stoneking (2005) Recent Origin and Cultural Reversion of a Hunter-Gatherer Group. PLoS Biology, 3, e71. (DOI: 10.1371/journal.pbio.0030071, PMID: 15736978)
L.S. Vinh, H.A. Schmidt, and A. von Haeseler (2005) PhyNav: A novel approach to reconstruct large phylogenies. In C. Weihs and W. Gaul (eds.) Classification, the Ubiquitous Challenge (Proceedings of the 28th Annual Conference of the GfKl 2004), Series Studies in Classification, Data Analysis, and Knowledge Organization, 386-393, Springer, Heidelberg/New York.
L. S. Vinh and A. von Haeseler (2005) Shortest triplet clustering: reconstructing large phylogenies using representative sets. BMC Bioinformatics, 6, 92. (DOI: 10.1186/1471-2105-6-92, PMID: 15819989)

2004

G. Jobb, A. von Haeseler, and K. Strimmer (2004) TREEFINDER: a powerful graphical analysis environment for molecular phylogenetics. BMC Evol. Biol., 4:18. (DOI: 10.1186/1471-2148-4-18, PMID: 15222900)
D. Metzler, R. Fleißner, A. Wakolbinger, and A. von Haeseler (2004) Assessing Variability by Joint Sampling of Alignments and Mutation Rates. J. Mol. Evol., 53, 660-669. (DOI: 10.1007/s002390010253, PMID: 11677626)
J. Partecke, A. von Haeseler, and M. Wikelski (2004) Territory establishment in lekking marine iguanas, Amblyrhynchus cristatus: support for the hotshot mechanism. Behav. Ecol. Sociobiol., 51, 579-587. (DOI: 10.1007/s00265-002-0469-z)
L.S. Vinh and A. von Haeseler (2004) IQPNNI: Moving Fast Through Tree Space and Stopping in Time. Mol. Biol. Evol., 21, 1565-1571. (free reprint, DOI: 10.1093/molbev/msh176, PMID: 15163768)

2003

A. von Haeseler and D. Liebers (2003) Molekulare Evolution., Fischer-Verlag, Frankfurt, Germany. (ISBN: 3-596-15365-4)
A. von Haeseler and K. Strimmer (2003) Phylogenetic inference based on maximum likelihood methods with TREE-PUZZLE. In M. Salemi, A.M. Vandamme (eds.)The Phylogenetic Handbook., 137-159, Cambridge University Press, Cambridge. (ISBN: 052180390X)
J. Hofmann, M. Renz, S. Meyer, A. von Haeseler, and G. Liebert (2003) Complete genome sequences of two Rubella virus isolates and identification of a variable region within the gene coding for nonstructural protein NSP1. Virus Res., 96, 123-128. (DOI: 10.1016/S0168-1702(03)00180-1)
S. Meyer and A. von Haeseler (2003) Identifying site specific substitution rates. Mol. Biol. Evol., 20, 182-189. (DOI: 10.1093/molbev/msg019, PMID: 12598684)
H.A. Schmidt and A. von Haeseler (2003) Maximum Likelihood Analysis using TREE-PUZZLE. In A.D. Baxevanis, D.B. Davison, R.D.M. Page, G. Stormo, and L. Stein (eds.) Current Protocols in Bioinformatics, Unit 6.6, Wiley and Sons, New York. (ISBN: 0-471-25093-7, CP online)
H.A. Schmidt, E. Petzold, M. Vingron, and A. von Haeseler (2003) Molecular Phylogenetics: Parallelized Parameter Estimation and Quartet Puzzling. J. Parallel Distrib. Comput., 63, 719-727. (DOI: 10.1016/S0743-7315(03)00129-1)
K. Strimmer and A. von Haeseler (2003) Nucleotide Substitution Models. In M. Salemi, A.M. Vandamme (eds.)The Phylogenetic Handbook., 72-87, Cambridge University Press, Cambridge. (ISBN: 052180390X)
G. Weiss and A. von Haeseler (2003) Testing substitution models within a phylogenetic tree. Mol. Biol. Evol., 20, 572-578. (DOI: 10.1093/molbev/msg073, PMID: 12679552)

2002

J. Partecke, A. von Haeseler, and M. Wikelski (2002) Territory establishment in lekking marine iguanas, Amblyrhynchus cristatus: Support for the hotshot mechanism. Behav. Ecol. Sociobiol., 51, 579-587. (DOI: 10.1007/s00265-002-0469-z)
H.A. Schmidt, K. Strimmer, M. Vingron, and A. von Haeseler (2002) TREE-PUZZLE: Maximum Likelihood Phylogenetic Analysis Using Quartets and Parallel Computing. Bioinformatics, 18, 502-504. (DOI: 10.1093/bioinformatics/18.3.502, PMID: 11934758)
H.A. Schmidt and A. von Haeseler (2002) Quartet Trees as a Tool to Reconstruct Large Trees from Sequences. In K. Jajuga, A. Sokolowsky, and Bock (eds.) Data Analysis, Classification, and Related Methods (Proceedings of the 9th Conference of the International Federation of Classification Societies - IFCS-2002, Krakow), 379-388, Springer, Heidelberg/New York. (ISBN: 3-540-43691-X)
S. Zöllner and A. von Haeseler (2002) Population history and linkage disequilibrium. Encyclopedia of the Human Genome., Nature Publishing Group, New York, USA. (ISBN: 0-333-80386-8)

2001

M. Hofreiter, V. Jaenicke, D. Serre, A. von Haeseler, and S. Pääbo (2001) DNA sequences from multiple amplifications reveal artifacts induced by cytosine deamination in ancient DNA. Nucleic Acids Res., 29, 4793-4799. (DOI: 10.1093/nar/29.23.4793, PMID: 11726688)
H. Kaessmann, F. Heissig, V. Wiebe, A. von Haeseler, and S. Pääbo (2001) Resume: DNA sequence variation on the X chromosome of humans and great apes. Pathol. Biol.., 49, 394. (DOI: 10.1016/S0369-8114(01)00185-7)
K. Nieselt-Struwe and A. von Haeseler (2001) Quartet-Mapping, a Generalization of the Likelihood-Mapping Procedure. Mol. Biol. Evol., 18, 1204-1219. (PMID: 11420361)

2000

M. Eppard, W.E. Krumbein, A. von Haeseler, and E. Riehl (2000) Characterization of fcp4 and fcp12, Two Additional Genes Encoding Light Harvesting Proteins of Cyclotella cryptica (Bacillariophyceae) and Phylogenetic Analysis of this Complex Gene Family. Plant Biol., 2, 283-289. (DOI: 10.1055/s-2000-3702)
N.C. Grassly, A. von Haeseler, and D.C. Krakauer (2000) Error, Population Structure and the Origin of Diverse Sign Systems. J. Theor. Biol., 206, 369-378. (DOI: 10.1006/jtbi.2000.2133 , PMID: 10988022)
A. von Haeseler (2000) Maximum likelihood tree reconstruction. Zoology - Analysis of Complex Systems., 106, 101-110.
M. Krings, C. Capelli, F. Tschentscher, H. Geisert, S. Meyer, A. von Haeseler, K. Grossschmidt, G. Possnert, M. Paunovic, and S. Pääbo (2000) A view of Neandertal genetic diversity. Nat. Genet., 26, 144-146. (DOI: 10.1038/79855, PMID: 11017066)
J. Saas, K. Ziegelbauer, A. von Haeseler, B. Fast, and M. Boshart (2000) A Developmentally Regulated Aconitase Related to Iron-regulatory Protein-1 Is Localized in the Cytoplasm and in the Mitochondrion of Trypanosoma brucei. J. Biol. Chem., 4, 2745-2755. (PMID: 10644738)
S. Zöllner and A. von Haeseler (2000) A Coalescent Approach to Study Linkage Disequilibrium between Single-Nucleotide Polymorphisms. Am. J. Hum. Genet., 66, 615-628. (PMID: 10677321)

1999

E. Baake and A. von Haeseler (1999) Distance Measures in Terms of Substitution Processes. Theor. Popul. Biol., 55, 166-175. (DOI: 10.1006/tpbi.1998.1395, PMID: 10329516)
F. Burckhardt, A. von Haeseler, and S. Meyer (1999) HvrBase: compilation of mtDNA control region sequences from primates. Nucl. Acids Res., 27, 138-142. (DOI: 10.1093/nar/27.1.138, PMID: 9847159)
T. Fujino, N. Navaratnam, A. Jarmuz, A. von Haeseler, and J. Scott (1999) C->U editing of apolipoprotein B mRNA in marsupials: identification and characterisation of APOBEC-1 from the American opossum Monodelphus domestica. Nucleic Acids Res., 27, 2662-2671. (DOI: 10.1093/nar/27.13.2662, PMID: 10373583)
H. Kaessmann, F. Heißig, A. von Haeseler, and S. Pääbo (2001) DNA sequence variation in a non-coding region of low recombination on the human X chromosome. Nat. Genet. , 22, 78-81. (DOI: 10.1038/8785, PMID: 10319866)
S. Meyer, G. Weiss, and A. von Haeseler (1999) Pattern of Nucleotide Substitution and Rate Heterogeneity in the Hypervariable Regions I and II of Human mtDNA. Genetics, 152, 1103-1110. (PMID: 10388828)
M. Schöniger and A. von Haeseler (1999) Toward Assigning Helical Regions in Alignments of Ribosomal RNA and Testing the Appropriateness of Evolutionary Models. J. Mol. Evol., 49, 691-698. (DOI: 10.1007/PL00006590, PMID: 10552050)

1998

M. Allen, A.-S. Engstrom, S. Meyers, O. Handt, T. Saldeen, A. von Haeseler, S. Pääbo, and U. Gyllensten (1998) Mitochondrial DNA sequencing of shed hairs and saliva on robbery caps: sensitivity and matching probabilities. J. Forensic Sci., 43, 453-464. (PMID: 9608683)
A. von Haeseler and M. Schöniger (1998) Evolution of DNA or amino acid sequences with dependent sites. J. Comput. Biol., 5, 149-163. (PMID: 9541878)
O. Handt, S. Meyer, and A. von Haeseler (1998) Compilation of human mtDNA control region sequences. Nucl. Acids Res., 26, 126-129. (DOI: 10.1093/nar/26.1.126, PMID: 9399816)
G. Weiss and A. von Haeseler (1998) Inference of Population History Using a Likelihood Approach. Genetics, 149, 1539-1546. (PMID: 9649540)

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