de la Chaux, N.; Messer, P. W.; Arndt, P.: DNA indels in coding regions reveal selective constraints on protein evolution in the human lineage. BMC Evolutionary Biology 7, pp. 191 - 102 (2007)

Messer, P. W.; Bundschuh, R.; Vingron, M.; Arndt, P. F.: Effects of Long-Range Correlations in DNA on Sequence Alignment Score Statistics. Journal of Computational Biology: A Journal of Computational Molecular Cell Biology 14 (5), pp. 655 - 668 (2007)

Messer, P. W.; Arndt, P. F.: The Majority of Recent Short DNA Insertions in the Human Genome Are Tandem Duplications. Molecular Biology and Evolution: MBE 24 (5), pp. 1190 - 1197 (2007)

Messer, P. W.; Arndt, P. F.: CorGen-measuring and generating long-range correlations for DNA sequence analysis. Nucleic Acids Research 34, pp. W692 - W695 (2006)

Lipatov1, M.; Arndt, P. F.; Hwa, T.; Petrov, D. A.: A novel method distinguishes between mutation rates and fixation biases in patterns of single-nucleotide substitution. Journal of Molecular Evolution: the Journal of the International Society of Molecular Evolution 62 (2), pp. 168 - 175 (2006)

Roepcke, S.; Zhi, D.; Vingron, M.; Arndt, P. F.: Identification of highly specific localized sequence motifs in human ribosomal protein gene promoters. Gene 365, pp. 48 - 56 (2006)

Messer, P.; Lässig, M.; Arndt, P. F.: Universality of long-range correlations in expansion-randomization systems. Journal of Statistical Mechanics: Theory and Experiment (10), p. P10004 - P10004 (2005)

Arndt, P. F.; Hwa, T.; Petrov, D. A.: Substantial Regional Variation in Substitution Rates in the Human Genome: Importance of GC Content, Gene Density, and Telomere-Specific Effects. Journal of Molecular Evolution: the Journal of the International Society of Molecular Evolution 60 (6), pp. 748 - 763 (2005)

Messer, P. W.; Arndt, P. F.; Lässig, M.: Solvable Sequence Evolution Models and Genomic Correlations. Physical Review Letters 94, pp. 138103-1 - 138103-4 (2005)

Webster, M. T.; Smith, N. G. C.; Hultin-Rosenberg, L.; Arndt, P. F.; Ellegren, H.: Male-Driven Biased Gene Conversion Governs the Evolution of Base Composition in Human Alu Repeats. Molecular Biology and Evolution 22 (6), pp. 1468 - 1474 (2005)

Arndt, P. F.; Hwa, T.: Identification and measurement of neighbor-dependent nucleotide substitution processes. Bioinformatics 21 (10), pp. 3222 - 2328 (2005)

Singh, N. D.; Arndt, P. F.; Petrov, D. A.: Genomic heterogeneity of background substitutional patterns in Drosophila melanogaster. Genetics 169 (2), pp. 709 - 722 (2005)

Arndt, P. F.; Petrov, D. A.; Hwa, T.: Distinct changes of genomic biases in nucleotide substitution at the time of mammalian radiation. Molecular Biology and Evolution 20 (11), pp. 1887 - 1896 (2003)

Arndt, P. F.; Burge, C. B.; Hwa, T.: DNA sequence evolution with neighbor-dependent mutation. Journal of Computational Biology 10 (3-4), pp. 313 - 322 (2003)

Dieterich, C.; Cusack, B.; Wang, H.; Rateitschak, K.; Krause, A.; Vingron, M.: Annotating regulatory DNA based on man-mouse genomic comparison. Proceedings of the European Conference on Computational Biology (ECCB 2002), pp. S84 - S90 (2002)

Alignment Statistics for Long-Range Correlated Genomic Sequences (Lecture Notes in Computer Science, 3909/2006). 10th Annual International Conference, RECOMB 2006, Venice, Italy, April 02, 2006 - April 05, 2006. Springer, Berlin/Heidelberg (2006), 612 pp.

Arndt, P. F.; Hwa, T.: Regional and time-resolved mutation patterns of the human genome. 18th GERMAN CONFERENCE ON BIOINFORMATICS 2003 (GCB’03), Technische Universitaet Muenchen, October 12, 2003 - October 14, 2003. Bioinformatics 20 (10), pp. 1482 - 1485 (2004)

Kleinert, P.: Computational interpretation of disease-causing, structural, and non-coding human genetic variants. Dissertation, 118 pp. (2022)

Abdullaev, E.: Dynamical Aspects of the Evolution of Segmental Duplications in the Human Genome. Dissertation, xiii, 129 pp. (2022)

Polak, P.: Discovering mutational patterns in mammals using comparative genomics. Dissertation, Freie Universität, Berlin (2010)