Research articles in peer reviewed journals

109. Rademacher A, Erdel F, Trojanowski J, Schumacher S & Rippe K (2017). Real-time observation of light-controlled transcription in living cells. J Cell Sci 130, 4213-4224. doi: 10.1242/jcs.205534 | Abstract | Reprint (12.9 MB) | JCS First person | Article metrics

108. Erdel F (2017). How Communication Between Nucleosomes Enables Spreading and Epigenetic Memory of Histone Modifications. Bioessays 39, 1700053. doi: 10.1002/bies.201700053 | Abstract | Article metrics.

107. Hoffmeister H, Fuchs A, Erdel F, Pinz S, Gröbner-Ferreira R, Bruckmann A, Deutzmann R, Schwartz U, Maldonado R, Huber C, Dendorfer AS, RippeK & Längst G (2017). CHD3 and CHD4 form distinct NuRD complexes with different yet overlapping functionality. Nucleic Acids Res 45, 10534-10554. doi: 10.1093/nar/gkx711 | Abstract | Reprint (7.3 MB) | Article metrics.

106. Delacher M, Imbusch CD, Weichenhan D, Breiling A, Hotz-Wagenblatt A, Trager U, Hofer AC, Kagebein D, Wang Q, Frauhammer F, Mallm JP, Bauer K, Herrmann C, Lang PA, Brors B, Plass C & Feuerer M (2017). Genome-wide DNA-methylation landscape defines specialization of regulatory T cells in tissues. Nat Immunol 18, 1160-1172. doi: 10.1038/ni.3799 | Abstract | Article metrics.

105. Brocks D, Schmidt CR, Daskalakis M, Jang HS, Shah NM, Li D, Li J, Zhang B, Hou Y, Laudato S, Lipka DB, Schott J, Bierhoff H, Assenov Y, Helf M, Ressnerova A, Islam MS, Lindroth AM, Haas S, Essers M, Imbusch CD, Brors B, Oehme I, Witt O, Lübbert M, Mallm JP, Rippe K, Will R, Weichenhan D, Stoecklin G, Gerhäuser C, Oakes CC, Wang T & Plass C (2017). DNMT and HDAC inhibitors induce cryptic transcription start sites encoded in long terminal repeats. Nat Genet 49, 1052-106. doi: 10.1038/ng.3889 | Abstract | Reprint (8.7 MB) | Article metrics.

104. Chaturvedi A, Herbst L, Pusch S, Klett L, Goparaju R, Stichel D, Kaulfuss S, Panknin O, Zimmermann K, Toschi L, Neuhaus R, Haegebarth, A, Rehwinkel H, Hess-Stumpp H, Bauser M, Bochtler T, Struys EA, Sharma A, Bakkali A, Geffers R, Araujo-Cruz MM, Thol F, Gabdoulline R, Ganser A, Ho AD, von Deimling A, Rippe K, Heuser M & Kraemer A (2017). Pan-mutant IDH1 inhibitor BAY1436032 is highly effective against human IDH1 mutant acute myeloid leukemia in vivo. Leukemia 31, 2020-2028. doi: 10.1038/leu.2017.46 | Abstract | Reprint (2.2 MB) | Article metrics.

103. Teif VB, Mallm JP, Sharma T, Welch DBM, Rippe K, Eils R, Langowski J, Olins AL & Olins DE (2017). Nucleosome repositioning during differentiation of a human myeloid leukemia cell line. Nucleus 8, 188-204. doi: 10.1080/19491034.2017.1295201 | Abstract | Reprint (1.8 MB) | Article metrics.

102. Pankert T, Jegou T, Caudron-Herger M & Rippe K (2017). Tethering RNA to chromatin for fluorescence microscopy based analysis of nuclear organization. Methods 123, 98-101. doi: 10.1016/j.ymeth.2017.01.010 | Abstract | Reprint (4.2 MB) | Article metrics.

101. Vainshtein Y, Rippe K & Teif VB (2017). NucTools: analysis of chromatin feature occupancy profiles from high-throughput sequencing data. BMC Genomics 18, 158. doi: 10.1186/s12864-017-3580-2 | Abstract | Reprint (9.7 MB) | Article metrics.

100. Molitor J, Mallm JP, Rippe K & Erdel F (2017). Retrieving chromatin patterns from deep sequencing data with correlation functions. Biophys J 112, 473-490. doi: 10.1016/j.bpj.2017.01.001 | Abstract | Reprint (10.3 MB) | Software | Article metrics.

99. Gunkel M, Chung I, Wörz S, Deeg KI, Simon R, Sauter G, Jones DT, Korshunov A, Rohr K, Erfle H & Rippe K (2017). Quantification of telomere features in tumor tissue sections by an automated 3D imaging-based workflow. Methods 114, 60-73. doi: 10.1016/j.ymeth.2016.09.014 | Abstract | Reprint (7.3 MB) | Article metrics.

98. Wachsmuth M, Knoch TA & Rippe K (2016). Dynamic properties of independent chromatin domains measured by correlation spectroscopy in living cells. Epigenetics Chromatin 9, 57. doi: 10.1186/s13072-016-0093-1 | Abstract | Reprint (5.1 MB) | Article metrics.

97. Deeg KI, Chung I, Bauer C & Rippe K (2016). Cancer cells with alternative lengthening of telomeres do not display a general hypersensitivity to ATR inhibition. Front Oncol 6, 186. doi: 10.3389/fonc.2016.00186 | Abstract | Reprint (1.4 MB) | Article metrics.

96. Caudron-Herger M, Pankert T & Rippe K (2016). Regulation of nucleolus assembly by non-coding RNA polymerase II transcripts. Nucleus 7, 308-318. doi: 10.1080/19491034.2016.1190890 | Abstract | Reprint (0.7 MB) | Article metrics

95. Eck S, Wörz S, Müller-Ott K, Hahn M, Biesdorf A, Schotta G, Rippe K & Rohr K (2016). A spherical harmonics intensity model for 3D segmentation and 3D shape analysis of heterochromatin foci. Medical Image Analysis 32,18-31. doi: 10.1016/ | Abstract | Reprint (4.9 MB) | Article metrics.

94. Bauer T, Trump S, Ishaque N, Thürmann L, Gu L, Bauer M, Bieg M, Gu Z, Weichenhan D, Mallm JP, Röder S, Herberth G, Takada E, Mücke O, Winter M, Junge KM, Grützmann K, Rolle-Kampczyk U, Qi W, Lawerenz C, Borte M, Polte T, Schlesner M, Schanne M, Wiemann S, Geörg C, Stunnenberg HG, Plass C, Rippe K, Mizuguchi J, Herrmann C, Eils R & Lehmann I (2016). Environment-induced epigenetic reprogramming in genomic regulatory elements in smoking mothers and their children. Mol Syst Biol 12, 861. doi: 10.15252/msb.20156520 | Abstract | Reprint (6.0 MB) | Cover | Article metrics.

93. Melnik S, Caudron-Herger M, Brant L, Carr IM, Rippe K, Cook, PR & Papantonis A (2016). Isolation of the protein and RNA content of active sites of transcription in mammalian cells. Nat Protoc 11, 553-565. doi: 10.1038/nprot.2016.032 | Abstract | Reprint (1.4 MB) | Article metrics.

92. Ernst A, Jones D, Maass KK, Rode A, Deeg KI, Jebaraj BM, Korshunov A, Hovestadt V, Tainsky MA, Pajtler KW, Bender S, Brabetz S, Gröbner S, Kool M, Devens F, Edelmann J, Zhang C, Castelo-Branco P, Tabori U, Malkin D, Rippe K, Stilgenbauer S, Pfister SM, Zapatka M, Lichter P (2016). Telomere dysfunction and chromothripsis. Int J Cancer 138, 2905-2914. doi: 10.1002/ijc.30033 | Abstract | Reprint (0.6 MB) | Article metrics

91. Junge KM, Bauer T, Geissler S, Hirche F, Thürmann L, Bauer M, Trump S, Bieg M, Weichenhan D, Malm JP, Ishaque N, Mücke O, Röder S, Herberth G, Diez U, Borte M, Rippe K, Plass C, Hermann C, Stangl G, Eils R & Lehmann I (2016). Increased vitamin D levels at birth and in early infancy increase offspring allergy risk — evidence for involvement of epigenetic mechanisms, J Allergy Clin Immunol 137, 610-613. doi: 10.1016/j.jaci.2015.06.040 | Abstract | Reprint (20.9 MB) | Article metrics

90. Caudron-Herger M, Pankert T, Seiler J, Nemeth A, Voit R, Grummt I & Rippe K (2015). Alu element-containing RNAs maintain nucleolar structure and function. EMBO J 34, 2758-2771. doi: 10.15252/embj.201591458 | Abstract | Reprint (4.6 MB) | Comment | Cover | Article metrics

89. Mattout A, Aaronso Y, Sailaja BS, Raghu Ram EV, Harikumar A, Mallm JP, Sim KH, Nissim-Rafinia M, Supper E, Singh PB, Sze SK, Gasser SM, Rippe & Meshorer E (2015). Heterochromatin Protein 1β (HP1β) has distinct functions and distinct nuclear distribution in pluripotent versus differentiated cells. Genome Biol 16, 213. doi: 10.1186/s13059-015-0760-8 | Abstract | Reprint (5.5 MB) | Supplementary Table S4 | Supplementary Movie S7 | Article metrics

88. Mallm JP & Rippe K (2015). Aurora kinase B regulates telomerase activity via a centromeric RNA in stem cells. Cell Rep 11, 1667-1678. doi: 10.1016/j.celrep.2015.05.015 | Abstract | Reprint (5.9 MB) | Article metrics

87. Osterwald S, Deeg KI, Chung I, Parisotto D, Wörz S, Rohr K, Erfle H & Rippe K (2015). PML induces compaction, partial TRF2 depletion and DNA damage signaling at telomeres and promotes alternative lengthening of telomeres. J Cell Sci 128, 1887-1900. doi: 10.1242/jcs.148296 | Abstract | Reprint (4.3 MB) | Article metrics

86. Caudron-Herger M, Cook PR, Rippe K & Papantonis A (2015). Dissecting the nascent human transcriptome by analyzing the RNA content of transcription factories. Nucleic Acids Res 43, e95. doi: 10.1093/nar/gkv390 | Abstract | Reprint (5.3 MB) | Article metrics

85. Yearim A, Gelfman S, Shayevitch R, Melcer S, Glaich O, Mallm JP, Nissim-Rafinia M, Cohen AH, Rippe K, Meshorer E & Ast G (2015). HP1 is involved in regulating the global impact of DNA methylation on alternative splicing. Cell Rep 10, 1122-1134. doi: 10.1016/j.celrep.2015.01.038 | Abstract | Reprint (6.1 MB) | Article metrics

84. Teif VB, Kepper N, Yserentant K, Wedemann G & Rippe K (2015). Affinity, stoichiometry and cooperativity of heterochromatin protein 1 (HP1) binding to nucleosomal arrays. J Phys Condens Matter 27, 064110. doi: 10.1088/0953-8984/27/6/064110 | Abstract | Reprint (1.5 MB)

83. Erdel F, Baum M & Rippe K (2015). The viscoelastic properties of chromatin and the nucleoplasm revealed by scale-dependent protein mobility. J Phys Condens Matter 27, 064115. doi: 10.1088/0953-8984/27/6/064115 | Abstract | Reprint (1.1 MB)

82. Bhattacharya N, Reichenzeller M, Caudron-Herger M, Haebe S, Brady N, Diener S, Nothing M, Döhner H, Stilgenbauer S, Rippe K & Mertens D (2015). Loss of cooperativity of secreted CD40L and increased dose-response to IL4 on CLL cell viability correlates with enhanced activation of NF-kB and STAT6. Int J Cancer 136, 65-73. doi: 10.1002/ijc.28974 | Abstract | Reprint (3.0 MB) | Article metrics

81. Müller, O., Kepper, N., Schöpflin, R., Ettig, R., Rippe, K. & Wedemann, G. (2014). Changing chromatin fiber conformation by nucleosome repositioning. Biophys. J. 107, 2141-2150. doi: 10.1016/j.bpj.2014.09.026 | Abstract | Reprint (2.5 MB).

80. Müller-Ott K, Erdel F, Matveeva A, Hahn M, Mallm, JP, Rademacher A, Marth C, Zhang Q, Kaltofen S, Schotta G, Höfer T & Rippe K (2014). Specificity, propagation and memory of pericentric heterochromatin. Mol. Syst. Biol. 10, 746. doi: 10.15252/msb.20145377 | Abstract | Reprint (7.4 MB) | Article metrics

79. Baum M, Wachsmuth M, Erdel F & Rippe K (2014). Retrieving the intracellular topology from multi-scale protein mobility mapping in living cells. Nat. Commun. 5, 4494. doi: 10.1038/ncomms5494 | Abstract | Reprint (6.4 MB) | Article metrics

78. Teif VB, Beshnova DA, Vainshtein Y, Marth C, Mallm JP, Höfer T & Rippe K (2014). Nucleosome repositioning links DNA (de)methylation and differential CTCF binding during stem cell development. Genome Res. 24, 1285-1295. doi: 10.1101/gr.164418.113 | Abstract | Reprint (3.3 MB) | Article metrics

77. Jäger, N., Schlesner, M., Jones, D. T. W., Raffel, S., Mallm, J.-P., Junge, K. M., Weichenhan, D., Bauer, T., Ishaque, N., Kool, M., Northcott, P. A., Korshunov, A., Drews, R. M., Koster, J., Versteeg, R., Richter, J., Hummel, M., Mack, S. C., Taylor, M. D., Witt, H., Swartman, B., Schulte-Bockholt, D., Sultan, M., Yaspo, M.-L., Lehrach, H., Hutter, B., Brors, B., Wolf, S., Plass, C., Siebert, R., Trumpp, A., Rippe, K., Lehmann, I., Lichter, P., Pfister, S. M., Eils, R. (2013). Hypermutation of the inactive X chromosome is a frequent event in cancer. Cell 155, 567-581. doi: 10.1016/j.cell.2013.09.042 | Abstract | Reprint (2.9 MB).

76. Erdel, F., Müller-Ott, K. & Rippe, K. (2013). Establishing epigenetic domains via chromatin-bound histone modifiers. Ann. N. Y. Acad. Sci. 1305, 29-43. doi: 10.1111/nyas.12262 | Abstract | Reprint (0.8 MB).

75. Eck, S., Rohr, K., Biesdorf, A., Müller-Ott, K., Rippe, K. & Wörz, S. (2013). A 3D intensity model based on spherical harmonics for automatic 3D segmentation of heterochromatin foci. Proc. IEEE Internat. Symposium on Biomedical Imaging: From Nano to Macro (ISBI 2013), 1484-1487. doi: 10.1109/ISBI.2013.6556815 | Abstract | Reprint (1.3 MB).

74. Toiber, D., Erdel, F., Silberman, D. M., Zhong, L., Mulligan, P., Bouazoune, K., Sebastian, C., Cosentino, C., Martinez-Pastor, B., Giacosa, S., D'Urso, A., Naar, A., Kingston, R., Rippe, K. & Mostoslavsky, R. (2013). SIRT6 recruits SNF2H to sites of DNA breaks, preventing genomic instability through chromatin remodeling. Mol. Cell 51, 454-468. doi: 10.1016/j.molcel.2013.06.018 | Abstract | Reprint (6.2 MB).

73. Schöpflin, R., Teif, V. B., Müller, O., Weinberg, C., Rippe, K. & Wedemann, G. (2013). Modeling nucleosome position distributions from experimental nucleosome positioning maps. Bioinformatics 29, 2380-2386. doi: 10.1093/bioinformatics/btt404 | Abstract | Reprint (1.1 MB).

72. Eck, S., Wörz, S., Biesdorf, A., Müller-Ott, K., Rippe, K. & Rohr, K.(2013). Segmentation of heterochromatin foci using a 3D spherical harmonics intensity model (2013). In Bildverarbeitung für die Medizin 2013, Meinzer, H.-P., Deserno, T. M., Handels, H., Tolxdorff, T., eds., 308-313. Springer Berlin Heidelberg. doi: 10.1007/978-3-642-36480-8_54 | Abstract | Reprint (0.3 MB).

71. Hahn, M., Dambacher, S., Dulev, S., Kusnezova, A., Eck, S., Worz, S. , Sadic, D., Schulte, M., Mallm, J.-P., Schermelleh, L., Debs, P., Leonhardt, H., Rohr, K., Rippe, K., Storchova, Z. & Schotta, G. (2013). Chromatin compaction by Suv4-20h2 is essential for cohesion loading in heterochromatin. Genes & Dev. 27, 859-872. doi: 10.1101/gad.210377.112 | Abstract | Reprint (15.9 MB).

70. Garding, A., Bhattacharya, N., Claus, R., Ruppel, M., Tschuch, C., Filarsky, K., Idler, I., Zucknick, M., Caudron-Herger, M., Oakes, C., Fleig, V., Keklikoglou, I., Allegra, D., Serra, L., Thakurela, S., Tiwari, V.,  Weichenhan, D., Benner, A., Radlwimmer, B., Zentgraf, H., Wiemann, S., Rippe, K., Plass, C., Döhner, H., Lichter, P. Stilgenbauer, S., Mertens, D. (2013). Epigenetic upregulation of lncRNAs at 13q14.3 in leukemia is linked to the in cis downregulation of a gene cluster that targets NF-kB. PLoS Genetics 9, e1003373. doi: 10.1371/journal.pgen.1003373 | Abstract | Reprint (10.8 MB).

69. Teif, V. B., Erdel, F., Beshnova, D. A., Vainshtein, Y., Mallm, J. P. & Rippe, K. (2013). Taking into account nucleosomes for predicting gene expression. Methods 62, 26-38. doi:| Abstract | Reprint (1.0 MB)

68. Erdel F & Rippe K (2012). Quantifying transient binding of ISWI chromatin remodelers in living cells by pixel-wise photobleaching profile evolution analysis. Proc. Natl. Acad. Sci. USA 109, E3221-E3230. doi: 10.1073/pnas.1209579109 | Abstract | Reprint (3.4 MB) | Article metrics

67. Teif VB, Vainshtein Y, Caudron-Herger M, Mallm JP, Marth C, Höfer T & Rippe K (2012). Genome-wide nucleosome positioning during embryonic stem cell development. Nat. Struct. Mol. Biol. 19, 1185-1191. doi: 10.1038/nsmb.2419 | Abstract | Reprint (7.4 MB) | Article metrics

66. Eißmann, M., Gutschner, T., Hämmerle, M., Günther, S., Caudron-Herger, M., Groß, M., Schirmacher, P., Rippe, K., Braun, T., Zornig, M. & Diederichs, S. (2012). Loss of the abundant nuclear non-coding RNA MALAT1 is compatible with life and development. RNA Biology 9, 1076-1087. doi: 10.4161/rna.21089 | Abstract | Reprint (5.9 MB)

65. Eck, S., Rohr, K., Müller-Ott, K., Rippe, K. & Wörz, S. (2012). Combined model-based and region-adaptive 3D segmentation and 3D co-localization analysis of heterochromatin foci. In Bildverarbeitung für die Medizin 2012. Tolxdorff, T., Deserno, T. M., Handels, H. & Meinzer, H.-P., eds., pp. 9-14. Springer Berlin Heidelberg. doi: 10.1007/978-3-642-28502-8_4 | Abstract | Reprint

64. Osterwald, S., Wörz, S., Reymann, J., Sieckmann, F., Rohr, K., Erfle, H. & Rippe, K. (2012). A three-dimensional colocalization RNA interference screening platform to elucidate the alternative lengthening of telomeres pathway. Biotechnol. J. 7, 103-116. doi: 10.1002/biot.201000474 | Abstract | Reprint (1.8 MB)

63. Teif, V. B. & Rippe, K. (2012). Calculating transcription factor binding to nucleosomal DNA for large genomic regions. Briefings Bioinf. 13, 187-201. doi: 10.1093/bib/bbr037 | Abstract | Reprint (0.4 MB)

62. Chung I, Leonhardt H & Rippe K (2011). De novo assembly of a PML nuclear subcompartment occurs through multiple pathways and induces telomere elongation. J. Cell Sci. 124, 3603-3618. doi: 10.1242/jcs.084681 | Abstract | Reprint (9.4 MB) | Comment | Article metrics

61. Ettig R, Kepper N, Stehr R, Wedemann G & Rippe K (2011). Dissecting DNA-histone interactions by molecular dynamics simulations of unwrapping DNA from the nucleosome. Biophys J 101, 1999-2008. doi: 10.1016/j.bpj.2011.07.057 | Abstract | Reprint (5.8 MB) | Article metrics

60. Caudron-Herger, M., Müller-Ott, K., Mallm, J.-P., Marth, C., Schmidt, U., Fejes-Tóth, K. & Rippe, K. (2011). Coding RNAs with a non-coding function: maintenance of open chromatin structure, Nucleus 2, 410-424. doi: 10.4161/nucl.2.5.17736 | Abstract | Reprint (4.4 MB) | Comment

59. Teif, V. & Rippe, K. (2011). Nucleosome mediated crosstalk between transcription factors at eukaryotic enhancers, Phys. Biol. 8, 044001. doi: 10.1088/1478-3975/8/4/044001 | Abstract | Reprint (0.4 MB)

58. Erdel, F. & Rippe, K. (2011). Binding kinetics of human ISWI chromatin-remodelers to DNA repair sites elucidate their target location mechanism, Nucleus 2, 105-112. doi: 10.4161/nucl.2.2.15209 | Abstract | Reprint

57. Kepper, N., Ettig, R., Stehr, R., Wedemann, G. & Rippe, K. (2011). Force spectroscopy of chromatin fibers: extracting energetics and structural information from Monte Carlo simulations, Biopolymers 95, 435-447. doi: 10.1002/bip.21598 | Abstract | Reprint (4.3 MB)

56. Vogler, C., Huber, C., Waldmann, T., Ettig, R., Braun, L., Chassignet, I., Lopez-Contreras, A. J., Fernandez-Capetillo, O., Dundr, M., Rippe, K., Längst, G. & Schneider, R. (2010). Histone H2A C-terminus regulates chromatin dynamics, remodeling and histone H1 binding. PLoS Genet. 6, e1001234. Abstract | Reprint (2.7 MB)

55. Erdel F, Schubert T, Marth C, Längst G & Rippe K (2010). Human ISWI chromatin-remodeling complexes sample nucleosomes via transient binding reactions and become immobilized at active sites. Proc. Natl. Acad. Sci. USA 107, 19873-19878. doi: 10.1073/pnas.1003438107 | Abstract | Reprint (1.4 MB) | Commtent 1 | Comment 2 | Article metrics

54. Teif, V. B., Ettig, R. & Rippe, K. (2010). A lattice model for transcription factor access to nucleosomal DNA. Biophys. J. 99, 2597-2607. Abstract | Reprint (0.6 MB)

53. Derrer, B., Windeisen, V., Rodriguez, G. G., Seidler, J., Gengenbacher, M., Lehmann, W. D., Rippe, K., Sinning, I., Tews, I. & Kappes, B. (2010). Defining the structural requirements of ribose 5-phosphate-binding and intersubunit cross-talk of the malarial pyridoxal 5-phosphate synthase. FEBS Lett. 584, 4169-4174. Abstract | Reprint (0.7 MB)

52. Wirtz, M., Birke, H., Heeg, C., Throm, C., Hosp, F., Müller, C., König, S., Feldman-Salit, A., Rippe, K., Petersen, G., Wade, R. C., Rybin, V., Scheffzek, K. & Hell, R. (2010). Structure and function of hetero-oligomeric cysteine synthase complex in plants. J. Biol. Chem. 285, 32810-32817. Abstract | Reprint (2.5 MB)

51. Stehr, R., Schöpflin, R., Ettig, R., Kepper, N., Rippe, K. & Wedemann, G. (2010) Exploring the conformational space of chromatin fibers and their stability by numerical dynamic phase diagrams. Biophys. J. 98, 1028-1037. Abstract | Reprint (2.3 MB pdf file)

50. Lang, M., Jegou, T., Chung, I., Richter, K., Udvarhelyi, A., Münch, S., Cremer, C., Hemmerich, P., Engelhardt, J., Hell, S. W. & Rippe, K. (2010). Three-dimensional organization of PML nuclear bodies. J. Cell Sci. 123, 392-400. Abstract | Reprint (4.3 MB pdf file) | Comment

49. Bozkurt, G., Stjepanovic, G., Vilardi, F., Amlacher, S., Wild, K., Bange, G., Favaloro, V., Rippe, K., Hurt, E., Dobberstein, B. & Sinning, I. (2009). Structural insights into tail-anchored protein binding and membrane insertion by Get3. Proc. Natl. Acad. Sci. USA 106, 21131-21136. Abstract | Reprint (4.1 MB pdf file)

48. Müller KP, Erdel F, Caudron M, Marth C, Fodor BD, Richter M, Scaranaro M, Beoudoin J, Wachsmuth M & Rippe K (2009). A multi-scale analysis of dynamics and interactions of heterochromatin protein 1 in the nucleus by fluorescence fluctuation microscopy. Biophys J 97, 2876-2885. Abstract | Reprint (3.3 MB pdf file)

47. Teif, V. B. & Rippe, K. (2009). Predicting nucleosome positions on the DNA: combining chromatin remodeling activity with intrinsic binding affinities. Nucleic Acids Res. 37, 5641-5655. Abstract | Reprint (0.8 MB pdf file)

46. Heuvelmann, G., Erdel, F., Wachsmuth, M. & Rippe, K. (2009). Analysis of protein mobilities and interactions in living cells by multi-focal fluorescence fluctuation microscopy. Eur. Biophys. J. 38, 813-828. Abstract | Reprint (0.8 MB pdf file)

45. Gunkel, M., Erdel, F., Rippe, K., Lemmer, P., Kaufmann, R., Hörmann, C., Amberger, R. & Cremer, C. (2009). Dual color localization microscopy of cellular nanostructures. Biotechnol. J. 4, 927-938. Abstract | Reprint (2.0 MB pdf file)

44. Neuwirth, M, Strohmeier, M, Windeisen, V, Wallner, S, Deller, S, Rippe, K, Sinning, I, Macheroux, P. & Tews, I (2009) X-ray crystal structure of Saccharomyces cerevisiae SNZ1 provides insights into the oligomeric nature of PLP synthases. FEBS Lett. 583, 2179-2186. Abstract | Reprint (1.6 MB pdf file).

43. Schmidt, U., Im, K.-B., Benzing, C., Janjetovic, S., Rippe, K., Lichter, P. & Wachsmuth, M. (2009). Assembly and mobility of exon-exon junction complexes with mRNA in the nucleus. RNA 15, 862-876. Abstract | Reprint (1.6 MB pdf file)

42. Jegou, T., Chung, I., Heuvelmann, G., Wachsmuth, M., Görisch, S. M., Greulich-Bode, K., Boukamp, P., Lichter, P. & Rippe, K. (2009). Dynamics of telomeres and promyelocytic leukemia nuclear bodies in a telomerase negative human cell line. Mol Biol Cell 20, 2070-2082. Abstract | Reprint (3.3 MB pdf file)

41. Stehr, R., Kepper, N., Rippe, K. & Wedemann, G. (2008). The effect of the internucleosomal interaction potential on the folding of the chromatin fiber. Biophys. J. 95, 3677-3691. Abstract | Reprint (1.8 MB pdf file)

40. Koenig, P., Oreb, M., Rippe, K., Muhle-Goll, C., Sinning, I., Schleiff, E. & Tews, I. (2008). On the significance of TOC-GTPase homodimers. J. Biol. Chem. 283, 23104-23112. Abstract | Reprint (0.8 MB pdf file)

39. Reymann, J., Baddeley, D., Gunkel, M., Lemmer, P., Stadter, W., Jegou, T., Rippe, K., Cremer, C. & Birk, U. (2008). High precision structural analysis of subnuclear complexes in fixed and living specimens via Spatially Modulated Illumination (SMI) microscopy. Chrom. Res. 16, 367-382. Abstract | Reprint (0.75 MB pdf file)

38. Koenig, P., Oreb, M., Höfle, A., Kaltofen, S., Rippe, K., Sinning, I., Schleiff, E. & Tews, I. (2008). The GTPase cycle of the chloroplast import receptors Toc33/Toc34 - implications from monomeric and dimeric structures. Structure 16, 585-596. Abstract | Reprint (3.5 MB pdf file)

37. Kepper, N., Foethke, D., Stehr, R., Wedemann, G. & Rippe, K. (2008). Nucleosome geometry and internucleosomal interactions control the chromatin fiber conformation, Biophys. J. 95, 3692–3705. Abstract | Reprint (3.2 MB pdf file)

36. Rippe, K., Schrader, A., Riede, P., Strohner, R., Lehmann, E., & Längst, G. (2007). DNA sequence- and conformation-directed positioning of nucleosomes by chromatin-remodeling complexes. Proc. Natl. Acad. Sci. USA 104, 15635-15640. Abstract | Reprint (1.4 MB pdf file) | Comment

35. Strohmeier, M., Raschle, T., Mazurkiewicz, J., Rippe, K., Sinning, I., Fitzpatrick, T.B. & Tews, I. (2006). Structure of a bacterial pyridoxal 5’-phosphate synthase complex. Proc. Natl. Acad. Sci. USA 103, 19284-19289. Abstract | Reprint (2.5 MB pdf file)

34. Mazurkiewicz, J., Kepert, J. F. & Rippe, K. (2006) On the mechanism of nucleosome assembly by histone chaperone NAP1. J. Biol. Chem. 281, 16462-16472. Abstract | Reprint (2.4 MB pdf file)

33. Görisch, S. M., Wachsmuth, M., Fejes Tóth, K., Lichter, P. & Rippe, K. (2005). Histone acetylation increases chromatin accessibility. J. Cell Sci. 118, 5825-5834. Abstract | Reprint (0.7 MB pdf file) | Comment

32. Kepert, J. F., Mazurkiewicz, J., Heuvelman, G., Fejes Tóth, K. & Rippe, K. (2005). NAP1 modulates binding of linker histone H1 to chromatin and induces an extended chromatin fiber conformation. J. Biol. Chem. 280, 34063-34072. Abstract | Reprint (1.1 MB pdf file)

31. Strohner, R., Wachsmuth, M., Dachauer, K., Mazurkiewicz, J., Rippe, K. & Längst, G. (2005). A ‘loop recapture’ mechanism for ACF-dependent nucleosome remodelling. Nat. Struct. Mol. Biol. 12, 683-690. Abstract | Reprint (3.7 MB pdf file) | Comment

30. Fejes Tóth, K., Mazurkiewicz, J. & Rippe, K. (2005). Association states of the nucleosome assembly protein 1 and its complexes with histones. J. Biol. Chem. 280, 15690-15699. Abstract | Reprint (0.6 MB pdf file)

29. Görisch, S. M., Wachsmuth, M., Ittrich, C., Bacher, C. P., Rippe, K. & Lichter, P. (2004). Nuclear body movement is determined by chromatin accessibility and dynamics. Proc. Nat. Acad. Sci. USA 101, 13221-13226. Abstract | Reprint (2.1 MB pdf file)

28. Fejes Tóth, K., Knoch, T. A., Wachsmuth, M., Stöhr, M., Frank-Stöhr, M., Bacher, C. P., Müller, G. & Rippe, K. (2004). Trichostatin A induced histone acetylation causes decondensation of interphase chromatin. J. Cell Sci. 117, 4277-4287. Abstract | Reprint (0.4 MB pdf file)

27. Kepert, J. F., Fejes Tóth, K., Caudron, M., Mücke, N., Langowski, J. & Rippe, K. (2003). Conformation of reconstituted mononucleosomes and effect of linker histone H1 binding studied by scanning force microscopy. Biophys. J., 85,4012-4022. Abstract | Reprint (0.3 MB pdf file)

26. Perraud, A. L., Shen, B., Dunn, C. A., Rippe, K., Smith, M. K., Bessman, M. J., Stoddard, B. L. & Scharenberg, A. M. (2003). NUDT9, a Member of the Nudix Hydrolase Family, Is an Evolutionarily Conserved Mitochondrial ADP-ribose Pyrophosphatase. J. Biol. Chem. 278,1794-1801. Abstract | Reprint (0.6 MB pdf file)

25. Vogel, S. K., Schulz, A. & Rippe, K. (2002). Binding affinity of Escherichia coli RNA polymerase·sigma54 holoenzyme for the glnAp2, nifH and nifL promoters. Nucleic Acids Res. 30, 4094-4101. Abstract | Reprint (0.2 MB pdf file)

24. Weidemann, T., Wachsmuth, M., Tewes, M., Rippe, K. & Langowski, J. (2002). Analysis of ligand binding by two-colour fluorescence cross-correlation spectroscopy. Single Mol. 3, 49-61. Abstract | Reprint (0.3 MB pdf file)

23. Dekker, J., Rippe, K., Dekker, M. & Kleckner, N. (2002). Capturing chromatin conformation. Science 295, 1306-1311. Abstract | Reprint (0.6 MB pdf file)

22. Bock, A., Bantscheff, M., Perraud, A. L., Rippe, K., Weiss, V., Glocker, M. O. & Gross, R. (2001). Rational design and molecular characterization of a chimaeric response regulator protein. J. Mol. Biol. 310, 283-290. Abstract | Reprint (0.2 MB pdf file)

21. Perraud, A.-L., Rippe, K., Bantscheff, M., Glocker, M., Lucassen, M., Jung, K., Sebald, W., Weiss, V. & Gross, R. (2000) Dimerization of signalling domains of the EvgAS and BvgAS phosphorelay systems. Biochim. Biophys. Acta 1478, 341-354. Abstract | Reprint (0.5 MB pdf file)

20. Schulz, A., Langowski, J. & Rippe, K. (2000). The effect of the DNA conformation on the transcription activation rate of E. coli RNA Polymerase·sigma 54 holoenzyme by NtrC. J. Mol. Biol 300, 709-725. Abstract | Reprint (0.4 MB pdf file)

19. Rippe, K. (2000). Simultaneous binding of two DNA duplexes to the NtrC-enhancer complex studied by two-color fluorescence cross-correlation spectroscopy. Biochemistry 39, 2131-2139. Abstract | Reprint (0.1 MB pdf file)

18. Schulz, A., Mücke, N., Langowski, J. & Rippe, K. (1998). Scanning force microscopy of E. coli RNA polymerase-sigma 54 holoenzyme complexes with DNA in buffer and in air. J. Mol. Biol. 283, 821-836. Abstract | Reprint (0.7 MB pdf file)

17. Rippe, K., Mücke, N. & Schulz, A. (1998). Association states of E. coli NtrC protein determined by analytical ultracentrifugation. J. Mol. Biol. 278, 915-933. Abstract | Reprint (1.3 MB pdf file)

16. Sevenich, F. W., Langowski, J., Weiss, V. & Rippe, K. (1998). DNA binding and oligomerization of NtrC studied by fluorescence anisotropy and fluorescence correlation spectroscopy. Nucleic Acids Res. 26, 1373-1381. Abstract | Reprint (0.2 MB pdf file)

15. Merlitz, H., Rippe, K., Klenin, K. & Langowski, J. (1998). Looping dynamics of linear DNA molecules and the effect of DNA curvature: A study by Brownian dynamics simulation. Biophys. J. 74, 773-779. Abstract | Reprint (0.1 MB pdf file)

14. Spiess, C., Happersberger, H. P., Glocker, M. O., Spiess, E., Rippe, K. & Ehrmann, M. (1997). Biochemical characterization and mass spectrometric disulfide bond mapping of periplasmic alpha-amylase MalS of Escherichia coli. J. Biol. Chem. 272, 22125-22133. Abstract | Reprint (0.5 MB pdf file)

13. Rippe, K., Guthold, M., von Hippel, P. H. & Bustamante, C. (1997). Transcriptional activation via DNA-looping: Visualization of intermediates in the activation pathway of E. coli RNA polymerase-sigma 54 holoenzyme by scanning force microscopy. J. Mol. Biol. 270, 125-138. Abstract | Reprint (4.6 MB pdf file)

12. Rippe, K., Mücke, N. & Langowski, J. (1997). Superhelix dimensions of a 1868 base pair plasmid determined by scanning force microscopy in air and in aqueous solution. Nucleic Acids Res. 25, 1736-1744. Abstract | Reprint (0.4 MB pdf file)

11. Evertsz, E. M., Rippe, K. & Jovin, T. M. (1994). Parallel-stranded duplex DNA containing blocks of trans purine-purine and purine-pyrimidine base pairs. Nucleic Acids Res. 22, 3293-3303. Abstract | Reprint (2.1 MB pdf file)

10. Fritzsche, H., Akhebat, A., Taillandier, E., Rippe, K. & Jovin, T. M. (1993). Structure and drug interactions of parallel-stranded DNA studied by infrared spectroscopy and fluorescence. Nucleic Acids Res. 21, 5085-5091. Abstract | Reprint (1.4 MB pdf file)

9. Rippe, K., Fritsch, V., Westhof, E. & Jovin, T. M. (1992). Alternating d(G-A) sequences form a parallel-stranded DNA homoduplex. EMBO J. 11, 3777-3786. Abstract | Reprint (2.2 MB pdf file)

8. Rentzeperis, D., Rippe, K., Jovin, T. M. & Marky, L. A. (1992). Calorimetric characterisation of parallel-stranded DNA: Stability, conformational flexibility, and ion binding. J. Am. Chem. Soc. 114, 5926-5928. Abstract | Reprint (0.4 MB pdf file)

7. Klysik, J., Rippe, K. & Jovin, T. M. (1991). Parallel-stranded DNA under topological stress: rearrangement of (dA)15-(dT)15 to a d(A-A-T)n triplex. Nucleic Acids Res. 19, 7145-7154. Abstract | Reprint (2.6 MB pdf file)

6. Otto, C., Thomas, G. A., Rippe, K., Jovin, T. M. & Peticolas, W. L. (1991). The hydrogen bonding structure in parallel-stranded duplex DNA is reverse Watson-Crick. Biochemistry 30, 3062-3069. Abstract | Reprint (1.0 MB pdf file)

5. Klysik, J., Rippe, K. & Jovin, T. M. (1990). Reactivity of parallel-stranded DNA to chemical modification reagents. Biochemistry 29, 9831-9839. Abstract | Reprint (4.3 MB pdf file)

4. Rippe, K., Ramsing, N. B., Klement, R. & Jovin, T. M. (1990). A parallel stranded linear DNA duplex Incorporating dG-dC Base Pairs. J. Biomol. Struct. Dynam. 7, 1199-1209. Abstract | Reprint (4.9 MB pdf file)

3. Rippe, K. & Jovin, T. M. (1989). Substrate properties of 25-nt parallel-stranded linear DNA duplexes. Biochemistry 28, 9542-9549. Abstract | Reprint (3.1 MB pdf file)

2. Ramsing, N. B., Rippe, K. & Jovin, T. M. (1989). Helix-Coil Transition of Parallel-Stranded DNA. Thermodynamics of Hairpin and Linear Duplex Oligonucleotides. Biochemistry 28, 9528-9535. Abstract | Reprint (0.9 MB pdf file)

1. Rippe, K., Ramsing, N. B. & Jovin, T. M. (1989). Spectroscopic properties and helical stabilities of 25-nt parallel-stranded linear DNA duplexes. Biochemistry 28, 9536-9541. Abstract | Reprint (1.8 MB pdf file)

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