Göke, J.; Schulz, M. H.; Lasserre, J.; Vingron, M.: Estimation of pairwise sequence similarity of mammalian enhancers with word neighbourhood counts. Bioinformatics 28 (5), pp. 656 - 63 (2012)

Heise, F.; Chung, H.-R.; Weber, J. M.; Xu, Z.; Klein-Hitpass, L.; Steinmetz, L. M.; Vingron, M.; Ehrenhofer-Murray, A. E.: Genome-wide H4 K16 acetylation by SAS-I is deposited independently of transcription and histone exchange. Nucleic Acids Research (London) 40 (1), pp. 65 - 74 (2012)

Sun, R.; Love, M.; Zemojtel, T.; Emde, A.-K.; Chung, H.-R.; Vingron, M.; Haas, S.: Breakpointer: using local mapping artifacts to support sequence breakpoint discovery from single-end reads. Bioinformatics 28 (7), pp. 1024 - 1025 (2012)

Hallen, L.; Klein, H.; Stoschek, C.; Wehrmeyer, S.; Nonhoff, U.; Ralser, M.; Wilde, J.; Rohr, C.; Schweiger, M. R.; Zatloukal, K. et al.; Vingron, M.; Lehrach, H.; Konthur, Z.; Krobitsch, S.: The KRAB-containing zinc-finger transcriptional regulator ZBRK1 activates SCA2 gene transcription through direct interaction with its gene product, ataxin-2. Human Molecular Genetics 20, pp. 104 - 114 (2011)

Goke, J.; Jung, M.; Behrens, S.; Chavez, L.; O'Keeffe, S.; Timmermann, B.; Lehrach, H.; Adjaye, J.; Vingron, M.: Combinatorial binding in human and mouse embryonic stem cells identifies conserved enhancers active in early embryonic development. PLoS Comput Biol 7 (12), e1002304 (2011)

Kolanczyk, M.; Pech, M.; Zemojte, T.; Yamamoto, H.; Mikula, I.; Calvaruso, M.-A.; van den Brand, M.; Richter, R.; Fischer, B.; Ritz, A. et al.; Kossler, N.; Thurisch, B.; Spoerle, R.; Smeitink, J.; Kornak, U.; Chan, D.; Vingron, M.; Martasek, P.; Lightowlers, R. N.; Nijtmans, L.; Schuelke, M.; Nierhaus, K. H.; Mundlos, S.: NOA1 is an essential GTPase required for mitochondrial protein synthesis. Molecular Biology of the Cell 22 (1), pp. 1 - 11 (2011)

Lin, S.; Haas, S.; Zemojtel, T.; Xiao, P.; Vingron, M.; Li, R.: Genome-wide comparison of cyanobacterial transposable elements, potential genetic diversity indicators. Gene 473 (2), pp. 139 - 49 (2011)

Love, M. I.; Mysickova, A.; Sun, R.; Kalscheuer, V. M.; Vingron, M.; Haas, S. A.: Modeling read counts for CNV detection in exome sequencing data. Statistical Applications in Genetics and Molecular Biology 10 (1) (2011)

Roepcke, S.; Stahlberg, S.; Klein, H.; Schulz, M. H.; Theobald, L.; Gohlke, S.; Vingron, M.; Walther, D. J.: A tandem sequence motif acts as a distance-dependent enhancer in a set of genes involved in translation by binding the proteins NonO and SFPQ. BMC Genomics 12, p. 624 (2011)

Serin, A.; Vingron, M.: DeBi: Discovering Differentially Expressed Biclusters using a Frequent Itemset Approach. Algorithms Mol Biol 6 (1), p. 18 (2011)

Szczurek, E.; Markowetz, F.; Gat-Viks, I.; Biecek, P.; Tiuryn, J.; Vingron, M.: Deregulation upon DNA damage revealed by joint analysis of context-specific perturbation data. BMC Bioinformatics 12, p. 249 (2011)

Thomas-Chollier, M.; Hufton, A.; Heinig, M.; O'Keeffe, S.; Masri, N. E.; Roider, H. G.; Manke, T.; Vingron, M.: Transcription factor binding predictions using TRAP for the analysis of ChIP-seq data and regulatory SNPs. Nat Protoc 6 (12), pp. 1860 - 9 (2011)

Warnatz, H. J.; Schmidt, D.; Manke, T.; Piccini, I.; Sultan, M.; Borodina, T.; Balzereit, D.; Wruck, W.; Soldatov, A.; Vingron, M. et al.; Lehrach, H.; Yaspo, M. L.: The BTB and CNC homology 1 (BACH1) target genes are involved in the oxidative stress response and in control of the cell cycle. The Journal of Biological Chemistry 286 (26), pp. 23521 - 32 (2011)

Yuan, Y.; Chen, Y. P.; Ni, S.; Xu, A. G.; Tang, L.; Vingron, M.; Somel, M.; Khaitovich, P.: Development and application of a modified dynamic time warping algorithm (DTW-S) to analyses of primate brain expression time series. BMC Bioinformatics 12, p. 347 (2011)

Zemojtel, T.; Kielbasa, S. M.; Arndt, P. F.; Behrens, S.; Bourque, G.; Vingron, M.: CpG deamination creates transcription factor-binding sites with high efficiency. Genome Biol Evol 3, pp. 1304 - 11 (2011)

Chung, H.-R.; Dunkel, I.; Heise, F.; Linke, C.; Krobitsch, S.; Ehrenhofer-Murray, A. E.; Sperling, S. R.; Vingron, M.: The effect of MNase on nucleosome positioning data. PLoS ONE 5 (12), p. e15754 - e15754 (2010)

Behrens, S.; Vingron, M.: Studying the evolution of promoter sequences: a waiting time problem. Journal Computational Biology 17 (12), pp. 1591 - 1606 (2010)

Warnatz, H. J.; Querfurth, R.; Guerasimova, A.; Cheng, X.; Haas, S. A.; Hufton, A. L.; Manke, T.; Vanhecke, D.; Nietfeld, W.; Vingron, M. et al.; Janitz, M.; Lehrach, H.; Yaspo, M. L.: Functional analysis and identification of cis-regulatory elements of human chromosome 21 gene promoters. Nucleic Acids Research 38 (18), pp. 6112 - 6123 (2010)

Heinig, M.; Petretto, E.; Wallace, C.; Bottolo, L.; Rotival, M.; Lu, H.; Li, Y.; Sarwar, R.; Langley, S. R.; Bauerfeind, A. et al.; Hummel, O.; Lee, Y. A.; Paskas, S.; Rintisch, C.; Saar, K.; Cooper, J.; Buchan, R.; Gray, E. E.; Cyster, J. G.; Erdmann, J.; Hengstenberg, C.; Maouche, S.; Ouwehand, W. H.; Rice, C. M.; Samani, N. J.; Schunkert, H.; Goodall, A. H.; Schulz, H.; Roider, H. G.; Vingron, M.; Blankenberg, S.; Munzel, T.; Zeller, T.; Szymczak, S.; Ziegler, A.; Tiret, L.; Smyth, D. J.; Pravenec, M.; Aitman, T. J.; Cambien, F.; Clayton, D.; Todd, J. A.; Hubner, N.; Cook, S. A.: A trans-acting locus regulates an anti-viral expression network and type 1 diabetes risk. Nature 467 (7314), pp. 460 - 464 (2010)

Szczurek, E.; Biecek, P.; Tiuryn, J.; Vingron, M.: Introducing knowledge into differential expression analysis. Journal of Computational Biology 17 (8), pp. 953 - 967 (2010)