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Rolf Backofen

University of Freiburg

69H-index
473Paper Count
2.4WCitation Count
Published Papers 153
Publication Date
An updated evolutionary classification of CRISPR–Cas systems including rare variants
err2025-11-06
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errOAAI
errKira S. Makarova; Sergey A. Shmakov; Yuri I. Wolf; Pascal Mutz; Han Altae-Tran; Chase L. Beisel; Stan J. J. Brouns; Emmanuelle Charpentier; David Cheng; Jennifer Doudna; Daniel H. Haft; Philippe Horvath; Sylvain Moineau; Francisco J. M. Mojica; Patrick Pausch; Rafael Pinilla-Redondo; Shiraz A. Shah; Virginijus Siksnys; Michael P. Terns; Jesse Tordoff; Česlovas Venclovas; Malcolm F. White; Alexander F. Yakunin; Feng Zhang; Roger A. Garrett; Rolf Backofen; John van der Oost; Rodolphe Barrangou; Eugene V. Koonin
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An evolutionary approach to predict the orientation of CRISPR arrays
err2025-11-01
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PREAI
errFehrenbach, Axel; Mitrofanov, Alexander; Alkhnbashi, Omer S.; Backofen, Rolf; Baumdicker, Franz
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Galaxy single-cell & spatial omics community update: Navigating new frontiers in 2025
err2025-09-25
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errOAAI
errMarisa Loach; Amirhossein Naghsh Nilchi; Diana Chiang; Morgan Howells; Florian Heyl; Helena Rasche; Julia Jakiela; Mehmet Tekman; Menna Gamal; Pablo Moreno; Saskia Hiltemann; Timon Schlegel; Björn Grüning; Rolf Backofen; Pavankumar Videm; Wendi Bacon
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The lincRNA Pantr1 is a FOXG1 target gene conferring site-specific chromatin binding of FOXG1
err2025-07-08
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PREAI
errGather, Fabian; Rauleac, Tudor; Akol, Ipek; Arumugam, Ganeshkumar; Fullio, Camila L.; Mueller, Teresa; Kleidonas, Dimitrios; Geiss-Friedlander, Ruth; Fischer, Andre; Vlachos, Andreas; Backofen, Rolf; Vogel, Tanja
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Evaluating discrepancies in dimensionality reduction for time-series single-cell RNA-sequencing data
err2025-05-01
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PREAI
errHackenberg, Maren; Guitart, Laia Canal; Backofen, Rolf; Binder, Harald
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Complementary Ribo-seq approaches map the translatome and provide a small protein census in the foodborne pathogen Campylobacter jejuni
err2025-03-30
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errOAAI
errFroschauer, Kathrin; Svensson, Sarah L.; Gelhausen, Rick; Fiore, Elisabetta; Kible, Philipp; Klaude, Alicia; Kucklick, Martin; Fuchs, Stephan; Eggenhofer, Florian; Yang, Chao; Falush, Daniel; Engelmann, Susanne; Backofen, Rolf; Sharma, Cynthia M.
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Deepdefense: annotation of immune systems in prokaryotes using deep learning
err2024-10-10
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errOAAI
errHauns, Sven; Alkhnbashi, Omer S.; Backofen, Rolf
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Uncovering the small proteome of Methanosarcina mazei using Ribo-seq and peptidomics under different nitrogen conditions
err2024-10-06
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errOAAI
errTufail, Muhammad Aammar; Jordan, Britta; Hadjeras, Lydia; Gelhausen, Rick; Cassidy, Liam; Habenicht, Tim; Gutt, Miriam; Hellwig, Lisa; Backofen, Rolf; Tholey, Andreas; Sharma, Cynthia M.; Schmitz, Ruth A.
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SpacerPlacer: ancestral reconstruction of CRISPR arrays reveals the evolutionary dynamics of spacer deletions
err2024-09-12
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errOAAI
errFehrenbach, Axel; Mitrofanov, Alexander; Alkhnbashi, Omer S.; Backofen, Rolf; Baumdicker, Franz
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Clusters of mammalian conserved RNA structures in UTRs associate with RBP binding sites
err2024-08-09
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errOAAI
errGadekar, Veerendra P.; Munk, Alexander Welford; Miladi, Milad; Junge, Alexander; Backofen, Rolf; Seemann, Stefan E.; Gorodkin, Jan
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CheRRI-Accurate classification of the biological relevance of putative RNA-RNA interaction sites
err2024-06-05
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errOAAI
errMueller, Teresa; Mautner, Stefan; Videm, Pavankumar; Eggenhofer, Florian; Raden, Martin; Backofen, Rolf
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The role of the 5' sensing function of ribonuclease E in cyanobacteria
err2024-03-12
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errOAAI
errHoffmann, Ute A.; Lichtenberg, Elisabeth; Rogh, Said N.; Bilger, Raphael; Reimann, Viktoria; Heyl, Florian; Backofen, Rolf; Steglich, Claudia; Hess, Wolfgang R.; Wilde, Annegret
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Ribosome profiling reveals the fine-tuned response of Escherichia coli to mild and severe acid stress
err2023-12-21
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errOAAI
errSchumacher, Kilian; Gelhausen, Rick; Kion-Crosby, Willow; Barquist, Lars; Backofen, Rolf; Jung, Kirsten
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Characterization of the zinc finger μ-protein HVO_0758 from Haloferax volcanii: biological roles, zinc binding, and NMR solution structure
err2023-11-29
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errOAAI
errUeresin, Deniz; Pyper, Dennis J.; Borst, Andreas; Hadjeras, Lydia; Gelhausen, Rick; Backofen, Rolf; Sharma, Cynthia; Schwalbe, Harald; Soppa, Joerg
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Interrogating two extensively self-targeting Type I CRISPR-Cas systems in Xanthomonas albilineans reveals distinct anti-CRISPR proteins that block DNA degradation
err2023-11-28
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errOAAI
errWimmer, Franziska; Englert, Frank; Wandera, Katharina G.; Alkhnbashi, Omer S.; Collins, Scott P.; Backofen, Rolf; Beisel, Chase L.
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Improved discovery of RNA-binding protein binding sites in eCLIP data using DEWSeq
err2023-11-14
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errOAAI
errSchwarzl, Thomas; Sahadevan, Sudeep; Lang, Benjamin; Miladi, Milad; Backofen, Rolf; Huber, Wolfgang; Hentze, Matthias W.; Tartaglia, Gian Gaetano
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The challenges of research data management in cardiovascular science: a DGK and DZHK position paper-executive summary
err2023-10-17
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errOAAI
errSteffens, Sabine; Schroeder, Katrin; Krueger, Martina; Maack, Christoph; Streckfuss-Boemeke, Katrin; Backs, Johannes; Backofen, Rolf; Baessler, Bettina; Devaux, Yvan; Gilsbach, Ralf; Heijman, Jordi; Knaus, Jochen; Kramann, Rafael; Linz, Dominik; Lister, Allyson L.; Maatz, Henrike; Maegdefessel, Lars; Mayr, Manuel; Meder, Benjamin; Nussbeck, Sara Y.; Rog-Zielinska, Eva A.; Schulz, Marcel H.; Sickmann, Albert; Yigit, Goekhan; Kohl, Peter
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An accessible infrastructure for artificial intelligence using a Docker-based JupyterLab in Galaxy
err2023-04-26
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errOAAI
errKumar, Anup; Cuccuru, Gianmauro; Gruening, Bjoern; Backofen, Rolf
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Tyrosine kinase inhibitors can activate the NLRP3 inflammasome in myeloid cells through lysosomal damage and cell lysis
err2023-01-17
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PREAI
errNeuwirt, Emilia; Magnani, Giovanni; Cikovic, Tamara; Woehrle, Svenja; Fischer, Larissa; Kostina, Anna; Flemming, Stephan; Fischenich, Nora J.; Saller, Benedikt S.; Gorka, Oliver; Renner, Steffen; Agarinis, Claudia; Parker, Christian N.; Boettcher, Andreas; Farady, Christopher J.; Kesselring, Rebecca; Berlin, Christopher; Backofen, Rolf; Rodriguez-Franco, Marta; Kreutz, Clemens; Prinz, Marco; Tholen, Martina; Reinheckel, Thomas; Ott, Thomas; Gross, Christina J.; Jost, Philipp J.; Gross, Olaf
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Distinct SARS-CoV-2 RNA fragments activate Toll-like receptors 7 and 8 and induce cytokine release from human macrophages and microglia
err2023-01-13
err17
errOAAI
errWallach, Thomas; Raden, Martin; Hinkelmann, Lukas; Brehm, Mariam; Rabsch, Dominik; Weidling, Hannah; Krueger, Christina; Kettenmann, Helmut; Backofen, Rolf; Lehnardt, Seija
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