1 A protein-RNA interaction atlas of the ribosome biogenesis factor AATF Rainer W. J. Kaiser 1 *, Michael Ignarski 1 *, Eric L. Van Nostrand 2 , Christian Frese 3 , Manaswita Jain 1 , Sadrija Cukoski 1 , Heide Heinen 1 , Melanie Schaechter 1 , Lisa Seufert 1 , Konstantin Bunte 1,4 , Peter Frommolt 4 , Patrick Keller 5 , Mark Helm 5 , Katrin Bohl 1 , Martin Höhne 1,8,9 , Bernhard Schermer 1,8,9 , Thomas Benzing 1,8,9 , Katja Höpker 1 , Christoph Dieterich 6,7 , Gene W. Yeo 2 , Roman-Ulrich Müller 1,8,9*# and Francesca Fabretti 1* 1 Department II of Internal Medicine and Center for Molecular Medicine Cologne, University of Cologne, 50937 Cologne, Germany. 2 Department of Cellular and Molecular Medicine, University of California at San Diego, La Jolla, CA, USA; Institute for Genomic Medicine, University of California at San Diego, La Jolla, CA, USA. 3 Proteomics Core Facility, Cologne Excellence Cluster on Cellular Stress Responses in Aging-associated Diseases (CECAD), University of Cologne, 50931 Cologne, Germany. 4 Bioinformatics Core Facility, Cologne Excellence Cluster on Cellular Stress Responses in Aging-associated Diseases (CECAD), University of Cologne, 50931 Cologne, Germany. 5 Institute of Pharmacy and Biochemistry, Johannes Gutenberg-University Mainz, Staudingerweg 5, 55128, Mainz, Germany. 6 German Center for Cardiovascular Research (DZHK), Partner site Heidelberg/Mannheim, Im Neuenheimer Feld 669, 69120, Heidelberg, Germany 7 Section of Bioinformatics and Systems Cardiology, Klaus Tschira Institute for Integrative Computational Cardiology and Department of Internal Medicine III, Im Neuenheimer Feld 669, 69120, Heidelberg, Germany 8 Cologne Excellence Cluster on Cellular Stress Responses in Aging-associated Diseases (CECAD), University of Cologne, 50931 Cologne, Germany. 9 Systems Biology of Ageing Cologne, University of Cologne, 50931 Cologne, Germany. # To whom correspondence should be addressed: Roman-Ulrich Müller, Tel: 0221-478-86288, FAX: 0221-478-1423108; Email: roman-ulrich.mueller@uk-koeln.de. *The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors and the last two authors as joint Senior Authors. certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. The copyright holder for this preprint (which was not this version posted June 5, 2019. . https://doi.org/10.1101/446260 doi: bioRxiv preprint certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. The copyright holder for this preprint (which was not this version posted June 5, 2019. . https://doi.org/10.1101/446260 doi: bioRxiv preprint