BIOQUANT

Publications

Current publications

Teif, V.B., 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, in press. Preprint from arxiv.org (0.8 MB)

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, in press. Preprint from arxiv.org (3.3 MB)

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)

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).

Müller-Ott, K., Erdel, F., Matveeva, A., Hahn, M., Mallm, J.-P., 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)

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)

Beshnova, D. A., Vainshtein, Y., Cherstvy, A. G. & Teif, V. B. (2014). Regulation of the nucleosome repeat length in vivo by the DNA sequence, protein concentrations and long-range interactions. PLoS Comp. Biol. 10, e1003698. doi: 10.1371/journal.pcbi.1003698 | Abstract | Reprint (2.5 MB)

Teif, V. B., Beshnova, D. A., Vainshtein, Y., Marth, C., Mallm, J.-P., 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)

Rippe, K. & Wedemann, G. (2014). Nucleosomes - gatekeepers of the genome (International Edition) / Das Nukleosom - Zugangskontrolle zum Genom? (German Edition) Systembiologie.de 8, 67-71. Reprint English (1.4 MB) | Reprint German (1.4 MB)

Selected research articles

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)

Teif, V. B., Vainshtein, Y., Caudron-Herger, M., Mallm, J.-P., 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)

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

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)

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

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. Abstract | Reprint (1.4 MB) | Commtent 1 | Comment 2

Müller, K. P., Erdel, F., Caudron, M., Marth, C., Fodor, B. D., 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)

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).

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)

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

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)

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 *

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) *

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

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)

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) *

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) *

Selected reviews

Rippe, K., ed. (2012). Genome organization and function in the cell nucleus, 594 pages, Wiley-VCH, Weinheim. ISBN: 3527326987. Abstract | Comment 1 | Comment 2

Chung, I., Osterwald, S., Deeg, K. & Rippe, K. (2012). PML body meets telomere: The beginning of an ALTernate ending. Nucleus 3, 263-275. doi: 10.4161/nucl.20326 | Abstract | Reprint (2.3 MB)

Caudron-Herger, M. & Rippe, K. (2012). Nuclear architecture by RNA. Curr. Opin. Genet. Dev. 22, 187-197. doi: 10.1016/j.gde.2011.12.005 | Abstract | Reprint (1.9 MB)

Rippe, K. (2001). Making contacts on a nucleic acid polymer. Trends Biochem. Sci., 26, 733-740. Abstract | Reprint (0.1 MB pdf file) *

Rippe, K., von Hippel, P. H. & Langowski, J. (1995). Action at a distance: DNA-looping and initiation of transcription. Trends Biochem. Sci. 20, 500-506. Abstract | Reprint (0.8 MB pdf file) **

* These papers have received more than 100 *, 200 ** or 800 *** citations. All publications h-index Karsten Rippe: 34 (Researcher ID), 38 (Google Scholar)

All publications 1989-2013

Publication list of Karsten Rippe from databases

 

 

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