Szczurek, E.; Gat-Viks, I.; Tiuryn, J.; Vingron, M.: Elucidating regulatory mechanisms downstream of a signaling pathway using informative experiments. Molecular Systems Biology 5, 2009.45 (2009)

Chung, H.-R.; Vingron, M.: Comparison of sequence-dependent tiling array normalization approaches. BMC Bioinformatics 10, S. 204 - 204 (2009)

Roider, H. G.; Manke, T.; O'Keeffe, S.; Vingron, M.; Haas, S. A.: PASTAA: identifying transcription factors associated with sets of co-regulated genes. Bioinformatics 25 (4), S. 435 - 442 (2009)

Steinhoff,, C.; Paulsen, M.; Kielbasa, S.; Walter, J.; Vingron, M.: Expression profile and transcription factor binding site exploration of imprinted genes in human and mouse. BMC Genomics 10, S. e144 - e144 (2009)

Chung, H.-R.; Vingron, M.: Sequence-dependent Nucleosome Positioning. Journal of Molecular Biology 386 (5), S. 1411 - 1422 (2009)

Pape, U. J.; Klein, H.; Vingron, M.: Statistical detection of cooperative transcription factors with similarity adjustment. Bioinformatics 25 (16), S. 2103 - 2109 (2009)

Stritt, C.; Stern, S.; Harting, K.; Manke, T.; Sinske, D.; Schwarz, H.; Vingron, M.; Nordheim, A.; Knöll, B.: Paracrine control of oligodendrocyte differentiation by SRF-directed neuronal gene expression. Nature Neuroscience 12 (4), S. 418 - 427 (2009)

Gat-Viks, I.; Vingron, M.: Evidence for Gene-Specific Rather Than Transcription Rate–Dependent Histone H3 Exchange in Yeast Coding Regions. PLoS Computational Biology 5 (2), S. e1000282 - e1000282 (2009)

Zemojtel, T.; Kielbasa, S. M.; Arndt, P. F.; Chung, H.-R.; Vingron, M.: Methylation and deamination of CpGs generate p53-binding sites on a genomic scale. Trends in Genetics 25 (2), S. 63 - 66 (2009)

Vingron, M.; Brazma, A.; Coulson, R.; van Helden, J.; Manke, T.; Palin, K.; Sand, O.; Ukkonen, E.: Integrating sequence, evolution and functional genomics in regulatory genomics. Genome Biology 10 (1), S. 202 - 202 (2009)

Kanhere, A.; Vingron, M.: Horizontal Gene Transfers in prokaryotes show differential preferences for metabolic and translational genes. BMC Evolutionary Biology 9 (9), 1471-2148-9-9 (2009)

Pape, U. J.; Rahmann, S.; Sun, F.; Vingron, M.: Compound Poisson Approximation of the Number of Occurrences of a Position Frequency Matrix (PFM) on Both Strands. Journal of Computational Biology: A Journal of Computational Molecular Cell Biology 15 (6), S. 547 - 564 (2008)

Hufton, A. L.; Groth, D.; Vingron, M.; Lehrach, H.; Poustka, A. J.; Panopoulou, G.: Early vertebrate whole genome duplications were predated by a period of intense genome rearrangement. Genome Research 18 (10), S. 1582 - 1591 (2008)

Kielbasa, S. M.; Vingron, M.: Transcriptional Autoregulatory Loops Are Highly Conserved in Vertebrate Evolution. PLoS One 3 (9), S. e3210 - e3210 (2008)

Sultan, M.; Schulz, M. H.; Hugues, R.; Magen, A.; Klingenhoff, A.; Scherf, M.; Seifert, M.; Borodina, T.; Soldatov, A.; i Parkhomchuk, D. et al.; Schmidt, D.; O'Keeffe, S.; Haas, S.; Vingron, M.; Lehrach, H.; Yaspo, M.-L.: A Global View of Gene Activity and Alternative Splicing by Deep Sequencing of the Human Transcriptome. Science 321 (5891), S. 956 - 960 (2008)

Winter, J.; Roepcke, S.; Krause, S.; Müller, E.-C.; Otto, A.; Vingron, M.; Schweiger, S.: Comparative 3’UTR analysis allows identification of regulatory clusters that drive Eph/ephrin expression in cancer cell lines. PLoS One 3 (7), S. e2780 - e2780 (2008)

Kaluza, P.; Vingron, M.; Mikhailov, A. S.: Self-correcting networks: Function, robustness, and motif distributions in biological signal processing. Chaos: an Interdisciplinary Journal of Nonlinear Sciencc 18 (2), S. 026113 - 026113 (2008)

Toenjes, M.; Schueler, M.; Hammer, S.; Pape, U. J.; Fischer, J. J.; Felix Berger, F.; Vingron, M.; Sperling, S.: Prediction of cardiac transcription networks based on molecular data and complex clinical phenotypes. Molecular BioSystems: A New High Quality Chemical Biology Journal with A Particular Focus on the Interface between Chemistry and the -Omic Sciences and Systems Biology 4 (6), S. 589 - 598 (2008)

Manke, T.; Roider, H. G.; Vingron, M.: Statistical Modeling of Transcription Factor Binding Affinities Predicts Regulatory Interactions. PLoS Computational Biology 4 (3), S. e1000039 - e1000039 (2008)

Chen, W.; Kalscheuer, V.; Tzschach, A.; Menzel, C.; Ullmann, R.; Schulz, M. H.; Erdogan, F.; Na, L.; Kijas, Z.; Arkesteijn, G. et al.; Pajares, I. L.; Goetz-Sothmann, M.; Heinrich, U.; Rost, I.; Dufke, A.; Grasshoff, U.; Glaeser, B.; Vingron, M.; Ropers, H. H.: Mapping translocation breakpoints by next-generation sequencing. Genome Research 18 (7), S. 1143 - 1149 (2008)