For any project enquiries phone +49 (0)761 76 999 422
My publications
Davis, J. A., Saunders, S. J., Mann, M., & Backofen, R. (2017). Combinatorial ensemble miRNA target prediction of co-regulation networks with non-prediction data. NAR, 45(15), 8745–8757. https://doi.org/10.1093/nar/gkx605
Reimann, V., Alkhnbashi, O. S., Saunders, S. J., Scholz, I., Hein, S., Backofen, R., & Hess, W. R. (2017). Structural constraints and enzymatic promiscuity in the Cas6-dependent generation of crRNAs. NAR, 45(2), 915–925. https://doi.org/10.1093/nar/gkw786
Del Vecchio, G., De Vito, F., Saunders, S. J., Risi, A., Mannironi, C., Bozzoni, I., & Presutti, C. (2016). RNA-binding protein HuR and the members of the miR-200 family play an unconventional role in the regulation of c-Jun mRNA. RNA, 22(10), 1510–1521. https://doi.org/10.1261/rna.057588.116
Alkhnbashi, O. S., Shah, S. A., Garrett, R. A., Saunders, S. J., Costa, F., & Backofen, R. (2016). Characterizing leader sequences of CRISPR loci. Bioinformatics, 32(17), i576–i585. https://doi.org/10.1093/bioinformatics/btw454
Holzer, M., Krahling, V., Amman, F., Barth, E., Bernhart, S. H., Carmelo, V. A. O., … Marz, M. (2016). Differential transcriptional responses to Ebola and Marburg virus infection in bat and human cells. Sci Rep, 6, 34589. https://doi.org/10.1038/srep34589
Maier, L.-K., Stachler, A.-E., Saunders, S. J., Backofen, R., & Marchfelder, A. (2015). An active immune defense with a minimal CRISPR (clustered regularly interspaced short palindromic repeats) RNA and without the Cas6 protein. JBC, 290(7), 4192–4201. https://doi.org/10.1074/jbc.M114.617506
Preusse, M., Marr, C., Saunders, S., Maticzka, D., Lickert, H., Backofen, R., & Theis, F. (2015). SimiRa: A tool to identify coregulation between microRNAs and RNA-binding proteins. RNA Biology, 12(9), 998–1009. https://doi.org/10.1080/15476286.2015.1068496
Makarova, K. S., Wolf, Y. I., Alkhnbashi, O. S., Costa, F., Shah, S. A., Saunders, S. J., … Koonin, E. V. (2015). An updated evolutionary classification of CRISPR-Cas systems. Nat Rev Microbiol, 13(11), 722–736. https://doi.org/10.1038/nrmicro3569
Saunders, S. J. (2014). Computational analyses of post-transcriptional regulatory mechanisms (PhD Thesis). Albert-Ludwigs-University Freiburg.
Maticzka, D., Lange, S. J., Costa, F., & Backofen, R. (2014). GraphProt: modeling binding preferences of RNA-binding proteins. Genome Biol, 15(1), R17. https://doi.org/10.1186/gb-2014-15-1-r17
Brendel, J., Stoll, B., Lange, S. J., Sharma, K., Lenz, C., Stachler, A.-E., … Marchfelder, A. (2014). A complex of Cas proteins 5, 6, and 7 is required for the biogenesis and stability of crRNAs in Haloferax volcanii. JBC, 289(10), 7164–7177. https://doi.org/10.1074/jbc.M113.508184
Alkhnbashi, O. S., Costa, F., Shah, S. A., Garrett, R. A., Saunders, S. J., & Backofen, R. (2014). CRISPRstrand: predicting repeat orientations to determine the crRNA-encoding strand at CRISPR loci. Bioinformatics, 30(17), i489–i496. https://doi.org/10.1093/bioinformatics/btu459
Richter, H., Lange, S. J., Backofen, R., & Randau, L. (2013). Comparative analysis of Cas6b processing and CRISPR RNA stability. RNA Biology, 10(5), 700–707. https://doi.org/10.4161/rna.23715
Scholz, I., Lange, S. J., Hein, S., Hess, W. R., & Backofen, R. (2013). CRISPR-Cas Systems in the Cyanobacterium Synechocystis sp. PCC6803 Exhibit Distinct Processing Pathways Involving at Least Two Cas6 and a Cmr2 Protein. PLoS One, 8(2), e56470. https://doi.org/10.1371/journal.pone.0056470
Maier, L.-K., Lange, S. J., Stoll, B., Haas, K. A., Fischer, S., Fischer, E., … Marchfelder, A. (2013). Essential requirements for the detection and degradation of invaders by the Haloferax volcanii CRISPR/Cas system I-B. RNA Biology, 10(5), 865–874. https://doi.org/10.4161/rna.24282
Nickel, L., Weidenbach, K., Jager, D., Backofen, R., Lange, S. J., Heidrich, N., & Schmitz, R. A. (2013). Two CRISPR-Cas systems in Methanosarcina mazei strain Go1 display common processing features despite belonging to different types I and III. RNA Biol, 10(5), 779–791. https://doi.org/10.4161/rna.23928
Lange, S. J., Alkhnbashi, O. S., Rose, D., Will, S., & Backofen, R. (2013). CRISPRmap: an automated classification of repeat conservation in prokaryotic adaptive immune systems. NAR, 41(17), 8034–8044. https://doi.org/10.1093/nar/gkt606
Stoll, B., Maier, L.-K., Lange, S. J., Brendel, J., Fischer, S., Backofen, R., & Marchfelder, A. (2013). Requirements for a successful defence reaction by the CRISPR-Cas subtype I-B system. Biochem Soc Trans, 41(6), 1444–1448. https://doi.org/10.1042/BST20130098
Lange, S. J., Maticzka, D., Möhl, M., Gagnon, J. N., Brown, C. M., & Backofen, R. (2012). Global or local? Predicting secondary structure and accessibility in mRNAs. NAR, 40(12), 5215–5226. https://doi.org/10.1093/nar/gks181
Wittkop, T., Emig, D., Lange, S., Rahmann, S., Albrecht, M., Morris, J. H., … Baumbach, J. (2010). Partitioning biological data with transitivity clustering. Nat Methods, 7(6), 419–420. https://doi.org/10.1038/nmeth0610-419
Albaum, S. P., Neuweger, H., Franzel, B., Lange, S., Mertens, D., Trotschel, C., … Goesmann, A. (2009). Qupe–a Rich Internet Application to take a step forward in the analysis of mass spectrometry-based quantitative proteomics experiments. Bioinformatics, 25(23), 3128–3134. https://doi.org/10.1093/bioinformatics/btp568
Baumbach, J., Bunkowski, A., Lange, S., Oberwahrenbrock, T., Kleinbölting, N., Rahmann, S., & Baumbach, J. I. (2007). IMS2 – An integrated medical software system for early lung cancer detection using ion mobility spectrometry data of human breath. Journal of Integrative Bioinformatics, 4(3), 75. https://doi.org/doi:10.2390/biecoll-jib-2007-75
Team member

Contact Information

Address: Coreva Scientific GmbH & Co KG,
Im Mühlenbruch 1, 53639 Königswinter,
North Rhine-Westphalia Germany

Phone: +49 (0)22237818010
E-Mail: enquiry [@] Coreva – scientific . com
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Team publications
Team publications