Journal Article (213)

121.
Journal Article
Meng, G.; Mosig, A.; Vingron, M.: A computational evaluation of over-representation of regulatory motifs in the promoter regions of differentially expressed genes. BMC Bioinformatics 11, p. 11:267 - 11:267 (2010)
122.
Journal Article
Hufton, A. L.; Mathia, S.; Braun, H.; Georgi, U.; Lehrach, H.; Vingron, M.; Poustka, A. J.; Panopoulou, G.: Deeply conserved chordate noncoding sequences preserve genome synteny but do not drive gene duplicate retention. Genome Resaerch 19, pp. 2036 - 2051 (2009)
123.
Journal Article
Roider, H. G.; Lenhard, B.; Kanhere, A.; Haas, S. A.; Vingron, M.: CpG-depleted promoters harbor tissue-specific transcription factor binding signals—implications for motif overrepresentation analyses. Nucleic Acids Research 37 (19), pp. 6305 - 6315 (2009)
124.
Journal Article
Chavez, L.; Bais, A. S.; Vingron, M.; Lehrach, H.; Adjaye, J.; Herwig, R.: In silico identification of a core regulatory network of OCT4 in human embryonic stem cells using an integrated approach. BMC Genomics 10, p. 314 - 314 (2009)
125.
Journal Article
Huang, X.; Vingron, M.: Maximum Similarity: A New Formulation of Phylogenetic Reconstruction. Journal of Computational Biology 16 (7), pp. 887 - 896 (2009)
126.
Journal Article
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)
127.
Journal Article
Chung, H.-R.; Vingron, M.: Comparison of sequence-dependent tiling array normalization approaches. BMC Bioinformatics 10, p. 204 - 204 (2009)
128.
Journal Article
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), pp. 435 - 442 (2009)
129.
Journal Article
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, p. e144 - e144 (2009)
130.
Journal Article
Chung, H.-R.; Vingron, M.: Sequence-dependent Nucleosome Positioning. Journal of Molecular Biology 386 (5), pp. 1411 - 1422 (2009)
131.
Journal Article
Pape, U. J.; Klein, H.; Vingron, M.: Statistical detection of cooperative transcription factors with similarity adjustment. Bioinformatics 25 (16), pp. 2103 - 2109 (2009)
132.
Journal Article
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), pp. 418 - 427 (2009)
133.
Journal Article
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), p. e1000282 - e1000282 (2009)
134.
Journal Article
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), pp. 63 - 66 (2009)
135.
Journal Article
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), p. 202 - 202 (2009)
136.
Journal Article
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)
137.
Journal Article
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), pp. 547 - 564 (2008)
138.
Journal Article
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), pp. 1582 - 1591 (2008)
139.
Journal Article
Kielbasa, S. M.; Vingron, M.: Transcriptional Autoregulatory Loops Are Highly Conserved in Vertebrate Evolution. PLoS One 3 (9), p. e3210 - e3210 (2008)
140.
Journal Article
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), pp. 956 - 960 (2008)
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