List of publications

Journal Article (173)

1. 1.
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   Adachi, K.; Kopp, W.; Wu, G.; Heising, S.; Greber, B.; Stehling, M.; Araúzo-Bravo, M. J.; Boerno, S. T.; Timmermann, B.; Vingron, M. et al.; Schöler, H. R.: Esrrb Unlocks Silenced Enhancers for Reprogramming to Naive Pluripotency - Correction. Cell Stem Cell 23 (6), pp. 900 - 904 (2018)
2. 2.
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   Schöne, S.; Bothe, A. M.; Einfeldt, E.; Borschiwer, M.; Benner, P. F.; Vingron, M.; Thomas-Chollier, M.; Meijsing, S. H.: Synthetic STARR-seq reveals how DNA shape and sequence modulate transcriptional output and noise. PLoS Genetics (2018)
3. 3.
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   Kragesteen , B. K.; Spielmann, M.; Paliou, C.; Heinrich, V.; Schöpflin, R.; Esposito, A.; Annunziatella, C.; Bianco , S.; Chiariello, A. M.; Jerković , I. et al.; Harabula, I.; Guckelberger, P.; Pechstein, M.; Wittler, L.; Chan, W.-L.; Franke, M.; Lupiáñez , D. G.; Kraft, K.; Timmermann, B.; Vingron, M.; Visel, A.; Nicodemi, M.; Mundlos, S.; Andrey, G.: Dynamic 3D chromatin architecture determines enhancer specificity and morphogenetic identity in limb development. Nature Genetics 50 (10), pp. 1463 - 1473 (2018)
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   Adachi, K.; Kopp, W.; Wu, G.; Heising, S.; Greber, B.; Stehling, M.; Araúzo-Bravo, M. J.; Boerno, S. T.; Timmermann, B.; Vingron, M. et al.; Schöler, H. R.: Esrrb unlocks silenced enhancers for reprogramming to naïve pluripotency. Cell Stem Cell 23 (2), pp. 266 - 275 (2018)
5. 5.
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   Adachi, K.; Kopp, W.; Wu, G.; Heising, S.; Greber, B.; Stehling , M.; Araúzo-Bravo, M. J.; Boerno, S. T.; Timmermann, B.; Vingron, M. et al.; Schöler, H. R.: Esrrb Unlocks Silenced Enhancers for Reprogramming to Naive Pluripotency. Cell Stem Cell 23 (2), pp. 266 - 275 (2018)
6. 6.
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   Grasse, S.; Lienhard, M.; Frese, S.; Kerick, M.; Steinbach, A.; Grimm, C.; Hussong, M.; Rolff, J.; Becker, M.; Dreher, F. et al.; Schirmer, U.; Boerno, S. T.; Ramisch, A.; Leschber, G.; Timmermann, B.; Grohé, C.; Lüders, H.; Vingron, M.; Fichtner, I.; Klein, S.; Odenthal, M.; Büttner, R.; Lehrach, H.; Sültmann, H.; Herwig, R.; Schweiger, R. M.: Epigenomic profiling of non-small cell lung cancer xenografts uncover LRP12 DNA methylation as predictive biomarker for carboplatin resistance. Genome Medicine (2018)
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   Kopp, W.; Vingron, M.: An improved compound Poisson model for the number of motif hits in DNA sequences. Bioinformatics 33 (24), pp. 3929 - 3937 (2017)
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   Heller, D.; Krestel, R.; Ohler, U.; Vingron, M.; Marsico, A.: ssHMM: extracting intuitive sequence-structure motifs from high-throughput RNA-binding protein data. Nucleic Acids Research (London) 45 (19), pp. 11004 - 11018 (2017)
9. 9.
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   Bhat, J.; Helmuth, J.; Chitadze, G.; Kouakanou, L.; Peters, C.; Vingron, M.; Ammerpohl, O.; Kabelitz, D.: Stochastics of Cellular Differentiation Explained by Epigenetics: The Case of T-Cell Differentiation and Functional Plasticity. Scand J Immunol 86 (4), pp. 184 - 195 (2017)
10. 10.
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    Will , A. J.; Cova, G.; Osterwalder, M.; Chan, W. L.; Wittler, L.; Brieske, N.; Heinrich, V.; de Villartay, J. P.; Vingron, M.; Klopocki, E. et al.; Visel, A.; Lupianez, D. G.; Mundlos, S.: Composition and dosage of a multipartite enhancer cluster control developmental expression of Ihh (Indian hedgehog). Nature Genetics 49 (10), pp. 1539 - 1545 (2017)
11. 11.
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    Yang, J.; Moeinzadeh, M. H.; Kuhl, H.; Helmuth, J.; Xiao, P.; Haas, S.; Liu, G.; Zheng, J.; Sun, Z.; Fan, W. et al.; Deng, G.; Wang, H.; Hu, F.; Zhao, S.; Fernie, A. R.; Börno, S. T.; Timmermann, B.; Zhang, P.; Vingron, M.: Haplotype-resolved sweet potato genome traces back its hexaploidization history. Nature Plants (2017)
12. 12.
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    Love, M. I.; Huska, M.; Jurk, M.; Schöpflin, R.; Starick, S. R.; Schwahn, K.; Cooper, S. B.; Yamamoto, K. R.; Thomas-Chollier, M.; Vingron, M. et al.; Meijsing, S. H.: Role of the chromatin landscape and sequence in determining cell type-specific genomic glucocorticoid receptor binding and gene regulation. Nucleic Acids Research (London) 45 (4), pp. 1805 - 1819 (2017)
13. 13.
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    Andrey, G.; Schöpflin, R.; Jerković, I.; Heinrich, V.; Ibrahim, D.; Paliou, C.; Hochradel, M.; Timmermann, B.; Haas, S.; Vingron, M. et al.; Mundlos, S.: Characterization of hundreds of regulatory landscapes in developing limbs reveals two regimes of chromatin folding. Genome Research 27 (2), pp. 223 - 233 (2017)
14. 14.
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    Franke, M.; Ibrahim, D.; Andrey, G.; Schwarzer, W.; Heinrich, V.; Schöpflin, R.; Kraft, K.; Kempfer, R.; Jerković, I.; Chan, W.-L. et al.; Spielmann, M.; Timmermann, B.; Wittler, L.; Kurth, I.; Cambiaso, P.; Zuffardi, O.; Houge, G.; Lambie, L.; Brancati, F.; Pombo, A.; Vingron, M.; Spitz, F.; Mundlos, S.: Formation of novel chromatin domains determines pathogenicity of genomic duplications. Nature 538 (7624), pp. 265 - 269 (2016)
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    Heinrich, V.; Kamphans, T.; Mundlos, S.; Robinson, P. N.; Krawitz, P. M.: A likelihood ratio based method to predict exact pedigrees for complex families from next-generation sequencing data. Bioinformatics (2016)
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    Du Bois, I.; Marsico, A.; Bertrams, W.; Schweiger, M. R.; Caffrey, B.; Sittka-Stark, A.; Eberhardt, M.; Vera, J.; Vingron, M.; Schmeck, B. T.: Genome-wide Chromatin Profiling of Legionella pneumophila-Infected Human Macrophages Reveals Activation of the Probacterial Host Factor TNFAIP2. The Journal of Infectious Diseases 214 (3), pp. 454 - 463 (2016)
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    Juan, D.; Perner, J.; Carrillo de Santa Pau, E.; Marsili, S.; Ochoa, D.; Chung, H. R.; Vingron, M.; Rico, D.; Valencia, A.: Epigenomic Co-localization and Co-evolution Reveal a Key Role for 5hmC as a Communication Hub in the Chromatin Network of ESCs. Cell Reports 14 (5), pp. 1246 - 1257 (2016)
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    Ancherbak, S.; Kuruoglu, E. E.; Vingron, M.: Time-Dependent Gene Network Modelling by Sequential Monte Carlo. IEEE ACM Transactions on Computational Biology and Bioinformatics 13 (6), pp. 1183 - 1193 (2016)
19. 19.
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    Hu, H.; Haas, S. A.; Chelly, J.; Van Esch, H.; Raynaud, M.; de Brouwer, A. P. M.; Weinert, S.; Froyen, G.; Frints, S. G. M.; Laumonnier, F. et al.; Zemojtel, T.; Love, M. I.; Richard, H.; Emde, A.-K.; Bienek, M.; Jensen, C.; Hambrock, M.; Fischer, U.; Langnick, C.; Feldkamp, M.; Wissink-Lindhout, W.; Lebrun, N.; Castelnau, L.; Rucci, J.; Montjean, R.; Dorseuil, O.; Billuart, P.; Stuhlmann, T.; Shaw, M.; Corbett, M. A.; Gardner, A.; Willis-Owen, S.; Tan, C.; Friend, K. L.; Belet, S.; van Roozendaal, K. E. P.; Jimenez-Pocquet, M.; Moizard, M.-P.; Ronce, N.; Sun, R.; O'Keeffe, S.; Chenna, R.; van Bömmel, A.; Göke, J.; Hackett, A.; Field, M.; Christie, L.; Boyle, J.; Haan, E.; Nelson, J.; Turner, G.; Baynam, G.; Gillessen-Kaesbach, G.; Müller, U.; Steinberger, D.; Budny, B.; Badura-Stronka, M.; Latos-Bieleńska, A.; Ousager, L. B.; Wieacker, P.; Rodríguez Criado, G.; Bondeson, M.-L.; Annerén, G.; Dufke, A.; Cohen, M.; Van Maldergem, L.; Vincent-Delorme, C.; Echenne, B.; Simon-Bouy, B.; Kleefstra, T.; Willemsen, M.; Fryns, J.-P.; Devriendt, K.; Ullmann, R.; Vingron, M.; Wrogemann, K.; Wienker, T. F.; Tzschach, A.; van Bokhoven, H.; Gecz, J.; Jentsch, T. J.; Chen, W.; Ropers, H.-H.; Kalscheuer, V. M.: X-exome sequencing of 405 unresolved families identifies seven novel intellectual disability genes. Molecular Psychiatry 21 (1), pp. 133 - 148 (2016)
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    Huska, M.; Vingron, M.: Improved Prediction of Non-methylated Islands in Vertebrates Highlights Different Characteristic Sequence Patterns. PLoS Computational Biology 12 (12), e1005249 (2016)