Mammalian ISWI and SWI/SNF selectively mediate binding of distinct transcription factors von Barisic, Darko, Stadler, Michael B., Iurlaro, Mario, Schübeler, Dirk

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Self-organization and symmetry breaking in intestinal organoid development von Serra, Denise, Mayr, Urs, Boni, Andrea, Lukonin, Ilya, Rempfler, Markus, Challet Meylan, Ludivine, Stadler, Michael B., Strnad, Petr, Papasaikas, Panagiotis, Vischi, Dario, Waldt, Annick, Roma, Guglielmo, Liberali, Prisca

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QuasR: quantification and annotation of short reads in R von Gaidatzis, Dimos, Lerch, Anita, Hahne, Florian, Stadler, Michael B

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Preprocessing choices affect RNA velocity results for droplet scRNA-seq data von Soneson, Charlotte, Srivastava, Avi, Patro, Rob, Stadler, Michael B

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Analysis of intronic and exonic reads in RNA-seq data characterizes transcriptional and post-transcriptional regulation von Gaidatzis, Dimos, Burger, Lukas, Florescu, Maria, Stadler, Michael B

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Evidence that direct inhibition of transcription factor binding is the prevailing mode of gene and repeat repression by DNA methylation von Kaluscha, Sebastian, Domcke, Silvia, Wirbelauer, Christiane, Stadler, Michael B., Durdu, Sevi, Burger, Lukas, Schübeler, Dirk

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A mixed integer linear programming approach for optimal DER portfolio, sizing, and placement in multi-energy microgrids von Mashayekh, Salman, Stadler, Michael, Cardoso, Gonçalo, Heleno, Miguel

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Aging-Dependent Demethylation of Regulatory Elements Correlates with Chromatin State and Improved β Cell Function von Avrahami, Dana, Li, Changhong, Zhang, Jia, Schug, Jonathan, Avrahami, Ran, Rao, Shilpa, Stadler, Michael B., Burger, Lukas, Schübeler, Dirk, Glaser, Benjamin, Kaestner, Klaus H.

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Cell Types of the Human Retina and Its Organoids at Single-Cell Resolution von Cowan, Cameron S., Renner, Magdalena, De Gennaro, Martina, Gross-Scherf, Brigitte, Goldblum, David, Hou, Yanyan, Munz, Martin, Rodrigues, Tiago M., Krol, Jacek, Szikra, Tamas, Cuttat, Rachel, Waldt, Annick, Papasaikas, Panagiotis, Diggelmann, Roland, Patino-Alvarez, Claudia P., Galliker, Patricia, Spirig, Stefan E., Pavlinic, Dinko, Gerber-Hollbach, Nadine, Schuierer, Sven, Srdanovic, Aldin, Balogh, Marton, Panero, Riccardo, Kusnyerik, Akos, Szabo, Arnold, Stadler, Michael B., Orgül, Selim, Picelli, Simone, Hasler, Pascal W., Hierlemann, Andreas, Scholl, Hendrik P.N., Roma, Guglielmo, Nigsch, Florian, Roska, Botond

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mutscan-a flexible R package for efficient end-to-end analysis of multiplexed assays of variant effect data von Soneson, Charlotte, Bendel, Alexandra M, Diss, Guillaume, Stadler, Michael B

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Wobble base-pairing slows in vivo translation elongation in metazoans von Stadler, Michael, Fire, Andrew

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Single-nucleus RNA-sequencing in pre-cellularization Drosophila melanogaster embryos von Albright, Ashley R, Stadler, Michael R, Eisen, Michael B

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Identification of active regulatory regions from DNA methylation data von Burger, Lukas, Gaidatzis, Dimos, Schübeler, Dirk, Stadler, Michael B

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Phenotypic landscape of intestinal organoid regeneration von Lukonin, Ilya, Serra, Denise, Challet Meylan, Ludivine, Volkmann, Katrin, Baaten, Janine, Zhao, Rui, Meeusen, Shelly, Colman, Karyn, Maurer, Francisca, Stadler, Michael B., Jenkins, Jeremy, Liberali, Prisca

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Mammalian SWI/SNF continuously restores local accessibility to chromatin von Iurlaro, Mario, Stadler, Michael B., Masoni, Francesca, Jagani, Zainab, Galli, Giorgio G., Schübeler, Dirk

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Distribution, silencing potential and evolutionary impact of promoter DNA methylation in the human genome von Schübeler, Dirk, Weber, Michael, Hellmann, Ines, Stadler, Michael B, Ramos, Liliana, Pääbo, Svante, Rebhan, Michael

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The Dynamics of mRNA Turnover Revealed by Single-Molecule Imaging in Single Cells von Horvathova, Ivana, Voigt, Franka, Kotrys, Anna V., Zhan, Yinxiu, Artus-Revel, Caroline G., Eglinger, Jan, Stadler, Michael B., Giorgetti, Luca, Chao, Jeffrey A.

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Gene bivalency at Polycomb domains regulates cranial neural crest positional identity von Minoux, Maryline, Holwerda, Sjoerd, Vitobello, Antonio, Kitazawa, Taro, Kohler, Hubertus, Stadler, Michael B., Rijli, Filippo M.

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DNA-binding factors shape the mouse methylome at distal regulatory regions von Stadler, Michael B., Murr, Rabih, Burger, Lukas, Ivanek, Robert, Lienert, Florian, Schöler, Anne, Nimwegen, Erik van, Wirbelauer, Christiane, Oakeley, Edward J., Gaidatzis, Dimos, Tiwari, Vijay K., Schübeler, Dirk

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Lineage-Specific Polycomb Targets and De Novo DNA Methylation Define Restriction and Potential of Neuronal Progenitors von Mohn, Fabio, Weber, Michael, Rebhan, Michael, Roloff, Tim C., Richter, Jens, Stadler, Michael B., Bibel, Miriam, Schübeler, Dirk

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