Martin Lewinsk^*, Mirko Brüggemann^*, Tino Köster^*, Marlene Reichel, Thorsten Bergelt, Katja Meyer, Julian König, Kathi Zarnack, Dorothee Staiger
Mapping protein-RNA binding in plants with individual-nucleotide-resolution UV cross-linking and immunoprecipitation (plant iCLIP2)
Nature protocols, 26 Jan 2024, doi:10.1038/s41596-023-00935-3

Martin Lewinski^*, Alexander Steffen^*, Nitin Kachariya^*, Mareike Elgner, Christoph Schmal, Niki Messini, Tino Köster, Marlene Reichel, Michael Sattler, Kathi Zarnack, Dorothee Staiger
Arabidopsis thaliana GLYCINE RICH RNA-BINDING PROTEIN 7 interaction with its iCLIP target LHCB1.1 correlates with changes in RNA stability and circadian oscillation
The Plant journal : for cell and molecular biology, 21 Dec 2023, doi:10.1111/tpj.16601

Benjamin Arnold^*, Ricarda J Riegger^*, Ellen Kazumi Okuda, Irena Slišković, Mario Keller, Cem Bakisoglu, François McNicoll, Kathi Zarnack, Michaela Müller-McNicoll
hGRAD: A versatile “one-fits-all” system to acutely deplete RNA binding proteins from condensates
The Journal of cell biology, 18 Dec 2023, doi:10.1083/jcb.202304030

Kathi Zarnack, Eduardo Eyras
‘Artificial intelligence and machine learning in RNA biology’
Briefings in bioinformatics, 15 Nov 2023, doi:10.1093/bib/bbad415

Sandra Fischer, Chiara Lichtenthaeler, Anastasiya Stepanenko, Florian Heyl, Daniel Maticzka, Katrin Kemmerer, Melina Klostermann, Rolf Backofen, Kathi Zarnack, Julia E Weigand
Heterogenous nuclear ribonucleoprotein D-like controls endothelial cell functions
Biological chemistry, 09 Nov 2023, doi:10.1515/hsz-2023-0254

Srimeenakshi Sankaranarayanan, Carl Haag, Patrick Petzsch, Karl Köhrer, Anna Matuszyńska, Kathi Zarnack, Michael Feldbrügge
The mRNA stability factor Khd4 defines a specific mRNA regulon for membrane trafficking in the pathogen Ustilago maydis
Proceedings of the National Academy of Sciences of the United States of America, 17 Aug 2023, doi:10.1073/pnas.2301731120

Stefanie Ebersberger, Clara Hipp, Miriam M Mulorz, Andreas Buchbender, Dalmira Hubrich, Hyun-Seo Kang, Santiago Martínez-Lumbreras, Panajot Kristofori, F X Reymond Sutandy, Lidia Llacsahuanga Allcca, Jonas Schönfeld, Cem Bakisoglu, Anke Busch, Heike Hänel, Kerstin Tretow, Mareen Welzel, Antonella Di Liddo, Martin M Möckel, Kathi Zarnack, Ingo Ebersberger, Stefan Legewie, Katja Luck, Michael Sattler, Julian König
FUBP1 is a general splicing factor facilitating 3’ splice site recognition and splicing of long introns
Molecular cell, 28 Jul 2023, doi:10.1016/j.molcel.2023.07.002

Simone Franziska Glaser, Andre Brezski, Nina Baumgarten, Marius Klangwart, Andreas W Heumüller, Ranjan Kumar Maji, Matthias S Leisegang, Stefan Guenther, Christoph M Zehendner, David John, Marcel H Schulz, Kathi Zarnack, Stefanie Dimmeler
Circular RNA circPLOD2 regulates pericyte function by targeting the transcription factor KLF4
Cell reports, 23 Jul 2023, doi:10.1016/j.celrep.2023.112824

Cornelia Rücklé, Nadine Körtel, M Felicia Basilicata, Anke Busch, You Zhou, Peter Hoch-Kraft, Kerstin Tretow, Fridolin Kielisch, Marco Bertin, Mihika Pradhan, Michael Musheev, Susann Schweiger, Christof Niehrs, Oliver Rausch, Kathi Zarnack, Claudia Isabelle Keller Valsecchi, Julian König
Author Correction: RNA stability controlled by m⁶A methylation contributes to X-to-autosome dosage compensation in mammals
Nature structural & molecular biology, 06 Jul 2023, doi:10.1038/s41594-023-01053-0

Rebekka Bauer, Sofie Patrizia Meyer, Rebecca Raue, Megan A Palmer, Vanesa Maria Guerrero Ruiz, Giulia Cardamone, Silvia Rösser, Milou Heffels, Fabian Roesmann, Alexander Wilhelm, Dieter Lütjohann, Kathi Zarnack, Dominik Christian Fuhrmann, Marek Widera, Tobias Schmid, Bernhard Brüne
Hypoxia-altered cholesterol homeostasis enhances the expression of interferon-stimulated genes upon SARS-CoV-2 infections in monocytes
Frontiers in immunology, 28 Jun 2023, doi:10.3389/fimmu.2023.1121864

Cornelia Rücklé^*, Nadine Körtel^*, M Felicia Basilicata, Anke Busch, You Zhou, Peter Hoch-Kraft, Kerstin Tretow, Fridolin Kielisch, Marco Bertin, Mihika Pradhan, Michael Musheev, Susann Schweiger, Christof Niehrs, Oliver Rausch, Kathi Zarnack, Claudia Isabelle Keller Valsecchi, Julian König
RNA stability controlled by m⁶A methylation contributes to X-to-autosome dosage compensation in mammals
Nature structural & molecular biology, 18 May 2023, doi:10.1038/s41594-023-00997-7

Pablo Acera Mateos^*, You Zhou^*, Kathi Zarnack, Eduardo Eyras
Concepts and methods for transcriptome-wide prediction of chemical messenger RNA modifications with machine learning
Briefings in bioinformatics, 04 May 2023, doi:10.1093/bib/bbad163

Lena Molitor^*, Melina Klostermann^*, Sabrina Bacher, Juliane Merl-Pham, Nadine Spranger, Sandra Burczyk, Carolin Ketteler, Ejona Rusha, Daniel Tews, Anna Pertek, Marcel Proske, Anke Busch, Sarah Reschke, Regina Feederle, Stefanie M Hauck, Helmut Blum, Micha Drukker, Pamela Fischer-Posovszky, Julian König, Kathi Zarnack, Dierk Niessing
Depletion of the RNA-binding protein PURA triggers changes in posttranscriptional gene regulation and loss of P-bodies
Nucleic acids research, 18 Jan 2023, doi:10.1093/nar/gkac1237

Camila de Oliveira Freitas Machado, Michal Schafranek, Mirko Brüggemann, María Clara Hernández Cañás, Mario Keller, Antonella Di Liddo, Andre Brezski, Nicole Blümel, Benjamin Arnold, Anja Bremm, Ilka Wittig, Nicolas Jaé, François McNicoll, Stefanie Dimmeler, Kathi Zarnack, Michaela Müller-McNicoll
Poison cassette exon splicing of SRSF6 regulates nuclear speckle dispersal and the response to hypoxia
Nucleic acids research, 09 Jan 2023, doi:10.1093/nar/gkac1225

Philipp Keil^*, Alexander Wulf^*, Nitin Kachariya^*, Samira Reuscher, Kristin Hühn, Ivan Silbern, Janine Altmüller, Mario Keller, Ralf Stehle, Kathi Zarnack, Michael Sattler, Henning Urlaub, Katja Sträßer
Npl3 functions in mRNP assembly by recruitment of mRNP components to the transcription site and their transfer onto the mRNA
Nucleic acids research, 30 Dec 2022, doi:10.1093/nar/gkac1206

Mariela Cortés-López, Laura Schulz, Mihaela Enculescu, Claudia Paret, Bea Spiekermann, Mathieu Quesnel-Vallières, Manuel Torres-Diz, Sebastian Unic, Anke Busch, Anna Orekhova, Monika Kuban, Mikhail Mesitov, Miriam M Mulorz, Rawan Shraim, Fridolin Kielisch, Jörg Faber, Yoseph Barash, Andrei Thomas-Tikhonenko, Kathi Zarnack, Stefan Legewie, Julian König
High-throughput mutagenesis identifies mutations and RNA-binding proteins controlling CD19 splicing and CART-19 therapy resistance
Nature communications, 22 Sep 2022, doi:10.1038/s41467-022-31818-y

Alisha N Jones, Carina Graß, Isabel Meininger, Arie Geerlof, Melina Klostermann, Kathi Zarnack, Daniel Krappmann, Michael Sattler
Modulation of pre-mRNA structure by hnRNP proteins regulates alternative splicing of MALT1
Science advances, 03 Aug 2022, doi:10.1126/sciadv.abp9153

Rebekka Bauer, Sofie Patrizia Meyer, Karolina Anna Kloss, Vanesa Maria Guerrero Ruiz, Samira Reuscher, You Zhou, Dominik Christian Fuhrmann, Kathi Zarnack, Tobias Schmid, Bernhard Brüne
Functional RNA Dynamics Are Progressively Governed by RNA Destabilization during the Adaptation to Chronic Hypoxia
International journal of molecular sciences, 28 May 2022, doi:10.3390/ijms23105824

Eiman Elwakeel, Mirko Brüggemann, Jessica Wagih, Olga Lityagina, Mohammed A F Elewa, Yingying Han, Timo Frömel, Rüdiger Popp, Adele M Nicolas, Yannick Schreiber, Elise Gradhand, Dominique Thomas, Rolf Nüsing, Julia Steinmetz-Späh, Rajkumar Savai, Emmanouil Fokas, Ingrid Fleming, Florian R Greten, Kathi Zarnack, Bernhard Brüne, Andreas Weigert
Disruption of Prostaglandin E2 Signaling in Cancer-Associated Fibroblasts Limits Mammary Carcinoma Growth but Promotes Metastasis
Cancer research, 02 Feb 2022, doi:10.1158/0008-5472.CAN-21-2116

Ina Koch, Miguel Andrade-Navarro, Marcel H Schulz, Kathi Zarnack
Bioinformatics in theory and application - highlights of the 36th German Conference on Bioinformatics
Biological chemistry, 30 Jun 2021, doi:10.1515/hsz-2021-0298

Laura Schulz^*, Manuel Torres-Diz^*, Mariela Cortés-López^*, Katharina E Hayer^*, Mukta Asnani, Sarah K Tasian, Yoseph Barash, Elena Sotillo, Kathi Zarnack, Julian König, Andrei Thomas-Tikhonenko
Direct long-read RNA sequencing identifies a subset of questionable exitrons likely arising from reverse transcription artifacts
Genome biology, 29 Jun 2021, doi:10.1186/s13059-021-02411-1

Sebastian de Vries, Vladimir Benes, Isabel S Naarmann-de Vries, Cornelia Rücklé, Katharina Zarnack, Gernot Marx, Dirk H Ostareck, Antje Ostareck-Lederer
P23 Acts as Functional RBP in the Macrophage Inflammation Response
Frontiers in molecular biosciences, 28 Jun 2021, doi:10.3389/fmolb.2021.625608

Nadine Körtel^*, Cornelia Rücklé^*, You Zhou^*, Anke Busch, Peter Hoch-Kraft, F X Reymond Sutandy, Jacob Haase, Mihika Pradhan, Michael Musheev, Dirk Ostareck, Antje Ostareck-Lederer, Christoph Dieterich, Stefan Hüttelmaier, Christof Niehrs, Oliver Rausch, Dan Dominissini, Julian König, Kathi Zarnack
Deep and accurate detection of m6A RNA modifications using miCLIP2 and m6Aboost machine learning
Nucleic acids research, 22 Jun 2021, doi:10.1093/nar/gkab485

Oliver Daniel Schwich^*, Nicole Blümel^*, Mario Keller^*, Marius Wegener, Samarth Thonta Setty, Melinda Elaine Brunstein, Ina Poser, Igor Ruiz De Los Mozos, Beatrix Suess, Christian Münch, François McNicoll, Kathi Zarnack, Michaela Müller-McNicoll
SRSF3 and SRSF7 modulate 3’UTR length through suppression or activation of proximal polyadenylation sites and regulation of CFIm levels
Genome biology, 12 Mar 2021, doi:10.1186/s13059-021-02298-y

Maria Inês Alvelos, Mirko Brüggemann, Fx Reymond Sutandy, Jonàs Juan-Mateu, Maikel Luis Colli, Anke Busch, Miguel Lopes, Ângela Castela, Annemieke Aartsma-Rus, Julian König, Kathi Zarnack, Décio L Eizirik
The RNA-binding profile of the splicing factor SRSF6 in immortalized human pancreatic β-cells
Life science alliance, 30 Dec 2020, doi:10.26508/lsa.202000825

Kathi Zarnack, Sureshkumar Balasubramanian, Michael P Gantier, Vladislav Kunetsky, Michael Kracht, M Lienhard Schmitz, Katja Sträßer
Dynamic mRNP Remodeling in Response to Internal and External Stimuli
Biomolecules, 16 Sep 2020, doi:10.3390/biom10091310

Mihaela Enculescu, Simon Braun, Samarth Thonta Setty, Anke Busch, Kathi Zarnack, Julian König, Stefan Legewie
Exon Definition Facilitates Reliable Control of Alternative Splicing in the RON Proto-Oncogene
Biophysical journal, 28 Apr 2020, doi:10.1016/j.bpj.2020.02.022

Julian König, Kathi Zarnack
High-throughput approaches in RNA biology
Methods (San Diego, Calif.), 12 Apr 2020, doi:10.1016/j.ymeth.2020.04.002

Hyun-Seo Kang, Carolina Sánchez-Rico, Stefanie Ebersberger, F X Reymond Sutandy, Anke Busch, Thomas Welte, Ralf Stehle, Clara Hipp, Laura Schulz, Andreas Buchbender, Kathi Zarnack, Julian König, Michael Sattler
An autoinhibitory intramolecular interaction proof-reads RNA recognition by the essential splicing factor U2AF2
Proceedings of the National Academy of Sciences of the United States of America, 20 Mar 2020, doi:10.1073/pnas.1913483117

Sandra Fischer, Antonella Di Liddo, Katarzyna Taylor, Jamina S Gerhardus, Krzysztof Sobczak, Kathi Zarnack, Julia E Weigand
Muscleblind-like 2 controls the hypoxia response of cancer cells
RNA (New York, N.Y.), 05 Mar 2020, doi:10.1261/rna.073353.119

Elisa Monzón-Casanova, Louise S Matheson, Kristina Tabbada, Kathi Zarnack, Christopher Wj Smith, Martin Turner
Polypyrimidine tract-binding proteins are essential for B cell development
eLife, 22 Feb 2020, doi:10.7554/eLife.53557

Annabelle Dold^*, Hong Han^*, Niankun Liu^*, Andrea Hildebrandt, Mirko Brüggemann, Cornelia Rücklé, Heike Hänel, Anke Busch, Petra Beli, Kathi Zarnack, Julian König, Jean-Yves Roignant, Paul Lasko
Makorin 1 controls embryonic patterning by alleviating Bruno1-mediated repression of oskar translation
PLoS genetics, 25 Jan 2020, doi:10.1371/journal.pgen.1008581

Anke Busch, Mirko Brüggemann, Stefanie Ebersberger, Kathi Zarnack
iCLIP data analysis: A complete pipeline from sequencing reads to RBP binding sites
Methods (San Diego, Calif.), 22 Nov 2019, doi:10.1016/j.ymeth.2019.11.008

Andrea Hildebrandt, Mirko Brüggemann, Cornelia Rücklé, Susan Boerner, Jan B Heidelberger, Anke Busch, Heike Hänel, Andrea Voigt, Martin M Möckel, Stefanie Ebersberger, Anica Scholz, Annabelle Dold, Tobias Schmid, Ingo Ebersberger, Jean-Yves Roignant, Kathi Zarnack, Julian König, Petra Beli
The RNA-binding ubiquitin ligase MKRN1 functions in ribosome-associated quality control of poly(A) translation
Genome biology, 24 Oct 2019, doi:10.1186/s13059-019-1814-0

Antonella Di Liddo, Camila de Oliveira Freitas Machado, Sandra Fischer, Stefanie Ebersberger, Andreas W Heumüller, Julia E Weigand, Michaela Müller-McNicoll, Kathi Zarnack
A combined computational pipeline to detect circular RNAs in human cancer cells under hypoxic stress
Journal of molecular cell biology, 28 Sep 2019, doi:10.1093/jmcb/mjz094

Anica Scholz, Florian Eggenhofer, Rick Gelhausen, Björn Grüning, Kathi Zarnack, Bernhard Brüne, Rolf Backofen, Tobias Schmid
uORF-Tools-Workflow for the determination of translation-regulatory upstream open reading frames
PloS one, 13 Sep 2019, doi:10.1371/journal.pone.0222459

Eiman Elwakeel, Mirko Brüggemann, Annika F Fink, Marcel H Schulz, Tobias Schmid, Rajkumar Savai, Bernhard Brüne, Kathi Zarnack, Andreas Weigert
Phenotypic Plasticity of Fibroblasts during Mammary Carcinoma Development
International journal of molecular sciences, 12 Sep 2019, doi:10.3390/ijms20184438

Lilli Olgeiser, Carl Haag, Susan Boerner, Jernej Ule, Anke Busch, Janine Koepke, Julian König, Michael Feldbrügge, Kathi Zarnack
The key protein of endosomal mRNP transport Rrm4 binds translational landmark sites of cargo mRNAs
EMBO reports, 16 Dec 2018, doi:10.15252/embr.201846588

Julien Béthune, Ralf-Peter Jansen, Michael Feldbrügge, Kathi Zarnack
Membrane-Associated RNA-Binding Proteins Orchestrate Organelle-Coupled Translation
Trends in cell biology, 21 Nov 2018, doi:10.1016/j.tcb.2018.10.005

Simon Braun, Mihaela Enculescu, Samarth T Setty, Mariela Cortés-López, Bernardo P de Almeida, F X Reymond Sutandy, Laura Schulz, Anke Busch, Markus Seiler, Stefanie Ebersberger, Nuno L Barbosa-Morais, Stefan Legewie, Julian König, Kathi Zarnack
Decoding a cancer-relevant splicing decision in the RON proto-oncogene using high-throughput mutagenesis
Nature communications, 19 Aug 2018, doi:10.1038/s41467-018-05748-7

Kathi Zarnack, Michaela Müller-McNicoll
High-Throughput Screens for cis-Acting RNA Sequence Elements That Promote Nuclear Retention
Biochemistry, 25 May 2018, doi:10.1021/acs.biochem.8b00479

F X Reymond Sutandy, Stefanie Ebersberger, Lu Huang, Anke Busch, Maximilian Bach, Hyun-Seo Kang, Jörg Fallmann, Daniel Maticzka, Rolf Backofen, Peter F Stadler, Kathi Zarnack, Michael Sattler, Stefan Legewie, Julian König
In vitro iCLIP-based modeling uncovers how the splicing factor U2AF2 relies on regulation by cofactors
Genome research, 13 Apr 2018, doi:10.1101/gr.229757.117

Andrea Hildebrandt, Gregorio Alanis-Lobato, Andrea Voigt, Kathi Zarnack, Miguel A Andrade-Navarro, Petra Beli, Julian König
Interaction profiling of RNA-binding ubiquitin ligases reveals a link between posttranscriptional regulation and the ubiquitin system
Scientific reports, 30 Nov 2017, doi:10.1038/s41598-017-16695-6

Nejc Haberman, Ina Huppertz, Jan Attig, Julian König, Zhen Wang, Christian Hauer, Matthias W Hentze, Andreas E Kulozik, Hervé Le Hir, Tomaž Curk, Christopher R Sibley, Kathi Zarnack, Jernej Ule
Erratum to: Insights into the design and interpretation of iCLIP experiments
Genome biology, 17 Aug 2017, doi:10.1186/s13059-017-1294-z

Valentina Botti, François McNicoll, Michaela C Steiner, Florian M Richter, Anfisa Solovyeva, Marius Wegener, Oliver D Schwich, Ina Poser, Kathi Zarnack, Ilka Wittig, Karla M Neugebauer, Michaela Müller-McNicoll
Cellular differentiation state modulates the mRNA export activity of SR proteins
The Journal of cell biology, 09 Jun 2017, doi:10.1083/jcb.201610051

Sameer Dixit, Michaela Müller-McNicoll, Vojtěch David, Kathi Zarnack, Jernej Ule, Hassan Hashimi, Julius Lukeš
Differential Binding of Mitochondrial Transcripts by MRB8170 and MRB4160 Regulates Distinct Editing Fates of Mitochondrial mRNA in Trypanosomes
mBio, 02 Feb 2017, doi:10.1128/mBio.02288-16

Nejc Haberman, Ina Huppertz, Jan Attig, Julian König, Zhen Wang, Christian Hauer, Matthias W Hentze, Andreas E Kulozik, Hervé Le Hir, Tomaž Curk, Christopher R Sibley, Kathi Zarnack, Jernej Ule
Insights into the design and interpretation of iCLIP experiments
Genome biology, 18 Jan 2017, doi:10.1186/s13059-016-1130-x

Jan Attig, Igor Ruiz de Los Mozos, Nejc Haberman, Zhen Wang, Warren Emmett, Kathi Zarnack, Julian König, Jernej Ule
Splicing repression allows the gradual emergence of new Alu-exons in primate evolution
eLife, 19 Nov 2016, doi:10.7554/eLife.19545

Michaela Müller-McNicoll, Valentina Botti, Antonio M de Jesus Domingues, Holger Brandl, Oliver D Schwich, Michaela C Steiner, Tomaz Curk, Ina Poser, Kathi Zarnack, Karla M Neugebauer
SR proteins are NXF1 adaptors that link alternative RNA processing to mRNA export
Genes & development, 06 Mar 2016, doi:10.1101/gad.276477.115

Jernej Murn, Marianna Teplova, Kathi Zarnack, Yang Shi, Dinshaw J Patel
Recognition of distinct RNA motifs by the clustered CCCH zinc fingers of neuronal protein Unkempt
Nature structural & molecular biology, 08 Dec 2015, doi:10.1038/nsmb.3140

Mojca Tajnik, Alessandra Vigilante, Simon Braun, Heike Hänel, Nicholas M Luscombe, Jernej Ule, Kathi Zarnack, Julian König
Intergenic Alu exonisation facilitates the evolution of tissue-specific transcript ends
Nucleic acids research, 25 Sep 2015, doi:10.1093/nar/gkv956

Jernej Murn, Kathi Zarnack, Yawei J Yang, Omer Durak, Elisabeth A Murphy, Sihem Cheloufi, Dilenny M Gonzalez, Marianna Teplova, Tomaž Curk, Johannes Zuber, Dinshaw J Patel, Jernej Ule, Nicholas M Luscombe, Li-Huei Tsai, Christopher A Walsh, Yang Shi
Control of a neuronal morphology program by an RNA-binding zinc finger protein, Unkempt
Genes & development, 05 Mar 2015, doi:10.1101/gad.258483.115

Manuel D Diaz-Muñoz, Sarah E Bell, Kirsten Fairfax, Elisa Monzon-Casanova, Adam F Cunningham, Mar Gonzalez-Porta, Simon R Andrews, Victoria I Bunik, Kathi Zarnack, Tomaž Curk, Ward A Heggermont, Stephane Heymans, Gary E Gibson, Dimitris L Kontoyiannis, Jernej Ule, Martin Turner
The RNA-binding protein HuR is essential for the B cell antibody response
Nature immunology, 24 Feb 2015, doi:10.1038/ni.3115

Kathi Zarnack, Julian König, Mojca Tajnik, Iñigo Martincorena, Sebastian Eustermann, Isabelle Stévant, Alejandro Reyes, Simon Anders, Nicholas M Luscombe, Jernej Ule
Direct competition between hnRNP C and U2AF65 protects the transcriptome from the exonization of Alu elements
Cell, 05 Feb 2013, doi:10.1016/j.cell.2012.12.023

Julian König, Kathi Zarnack, Nicholas M Luscombe, Jernej Ule
Protein-RNA interactions: new genomic technologies and perspectives
Nature reviews. Genetics, 19 Jan 2012, doi:10.1038/nrg3141

James R Tollervey, Zhen Wang, Tibor Hortobágyi, Joshua T Witten, Kathi Zarnack, Melis Kayikci, Tyson A Clark, Anthony C Schweitzer, Gregor Rot, Tomaž Curk, Blaž Zupan, Boris Rogelj, Christopher E Shaw, Jernej Ule
Analysis of alternative splicing associated with aging and neurodegeneration in the human brain
Genome research, 18 Aug 2011, doi:10.1101/gr.122226.111

Janine Koepke, Florian Kaffarnik, Carl Haag, Kathi Zarnack, Nicholas M Luscombe, Julian König, Jernej Ule, Ronny Kellner, Dominik Begerow, Michael Feldbrügge
The RNA-binding protein Rrm4 is essential for efficient secretion of endochitinase Cts1
Molecular & cellular proteomics : MCP, 03 Aug 2011, doi:10.1074/mcp.M111.011213

Julian Konig, Kathi Zarnack, Gregor Rot, Tomaz Curk, Melis Kayikci, Blaz Zupan, Daniel J Turner, Nicholas M Luscombe, Jernej Ule
iCLIP–transcriptome-wide mapping of protein-RNA interactions with individual nucleotide resolution
Journal of visualized experiments : JoVE, 12 May 2011, doi:10.3791/2638

Zhen Wang, Melis Kayikci, Michael Briese, Kathi Zarnack, Nicholas M Luscombe, Gregor Rot, Blaž Zupan, Tomaž Curk, Jernej Ule
iCLIP predicts the dual splicing effects of TIA-RNA interactions
PLoS biology, 05 Nov 2010, doi:10.1371/journal.pbio.1000530

Julian König, Kathi Zarnack, Gregor Rot, Tomaz Curk, Melis Kayikci, Blaz Zupan, Daniel J Turner, Nicholas M Luscombe, Jernej Ule
iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution
Nature structural & molecular biology, 06 Jul 2010, doi:10.1038/nsmb.1838

Kathi Zarnack, Michael Feldbrügge
Microtubule-dependent mRNA transport in fungi
Eukaryotic cell, 18 May 2010, doi:10.1128/EC.00030-10

Evelyn Vollmeister, Carl Haag, Kathi Zarnack, Sebastian Baumann, Julian König, Gertrud Mannhaupt, Michael Feldbrügge
Tandem KH domains of Khd4 recognize AUACCC and are essential for regulation of morphology as well as pathogenicity in Ustilago maydis
RNA (New York, N.Y.), 27 Oct 2009, doi:10.1261/rna.1817609

Julian König, Sebastian Baumann, Janine Koepke, Thomas Pohlmann, Kathi Zarnack, Michael Feldbrügge
The fungal RNA-binding protein Rrm4 mediates long-distance transport of ubi1 and rho3 mRNAs
The EMBO journal, 05 Jun 2009, doi:10.1038/emboj.2009.145

Kathi Zarnack, Heiko Eichhorn, Regine Kahmann, Michael Feldbrügge
Pheromone-regulated target genes respond differentially to MAPK phosphorylation of transcription factor Prf1
Molecular microbiology, 17 Jul 2008, doi:10.1111/j.1365-2958.2008.06345.x

Michael Feldbrügge, Kathi Zarnack, Evelyn Vollmeister, Sebastian Baumann, Janine Koepke, Julian König, Martin Münsterkötter, Gertrud Mannhaupt
The posttranscriptional machinery of Ustilago maydis
Fungal genetics and biology : FG & B, 13 May 2008, doi:10.1016/j.fgb.2008.03.013

Kathi Zarnack, Michael Feldbrügge
mRNA trafficking in fungi
Molecular genetics and genomics : MGG, 05 Sep 2007, doi:10.1007/s00438-007-0271-8

Kathi Zarnack, Sebastian Maurer, Florian Kaffarnik, Oliver Ladendorf, Andreas Brachmann, Jörg Kämper, Michael Feldbrügge
Tetracycline-regulated gene expression in the pathogen Ustilago maydis
Fungal genetics and biology : FG & B, 18 Jul 2006, doi:10.1016/j.fgb.2006.05.006