bioRxiv preprint doi: https://doi.org/10.1101/869560; this version posted February 27, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 1 Beyond accessibility: ATAC-seq footprinting unravels kinetics 2 of transcription factor binding during zygotic genome 3 activation 4 Authors 5 Mette Bentsen1, Philipp Goymann1, Hendrik Schultheis1, Kathrin Klee1, Anastasiia Petrova1, 6 René Wiegandt1, Annika Fust1, Jens Preussner1,3, Carsten Kuenne1, Thomas Braun2,3, 7 Johnny Kim2,3, Mario Looso1,3 8 Affiliation 9 1 Bioinformatics Core Unit (BCU), Max Planck Institute for Heart and Lung Research, Bad 10 Nauheim, Germany 11 2 Department of Cardiac Development and Remodeling, Max-Planck-Institute for Heart and 12 Lung Research, Bad Nauheim, Germany 13 3 German Centre for Cardiovascular Research (DZHK), Partner site Rhein-Main, Frankfurt am 14 Main, 60596 Germany 15 Corresponding author email address 16
[email protected] 1 bioRxiv preprint doi: https://doi.org/10.1101/869560; this version posted February 27, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder. All rights reserved. No reuse allowed without permission. 17 Abstract 18 While footprinting analysis of ATAC-seq data can theoretically enable investigation of 19 transcription factor (TF) binding, the lack of a computational tool able to conduct different 20 levels of footprinting analysis has so-far hindered the widespread application of this method. 21 Here we present TOBIAS, a comprehensive, accurate, and fast footprinting framework 22 enabling genome-wide investigation of TF binding dynamics for hundreds of TFs 23 simultaneously.