@article{UBHD-68583451,
  author={Argelaguet, Ricard and Velten, Britta and Arnol, Damien and Dietrich, Sascha and Zenz, Thorsten and Marioni, John C and Buettner, Florian and Huber, Wolfgang and Stegle, Oliver},
  title={Multi-omics factor analysis},
  subtitle={a framework for unsupervised integration of multi-omics data sets},
  year={2018},
  language={eng},
  issn={1744-4292},
  volume={14 (2018},
  note={Gesehen am 03.06.2020},
  journal={Molecular systems biology},
  doi={10.15252/msb.20178124},
}
@article{UBHD-68447424,
  author={Arnol, Damien and Sáez Rodríguez, Julio and Stegle, Oliver},
  title={Modeling cell-cell interactions from spatial molecular data with spatial variance component analysis},
  year={2019},
  pages={202-211.e6},
  language={eng},
  issn={2211-1247},
  volume={29},
  number={1},
  note={Gesehen am 29.10.2019},
  journal={Cell reports},
  doi={10.1016/j.celrep.2019.08.077},
}
@article{UBHD-68707538,
  author={Bock, Christoph and Boutros, Michael and Stegle, Oliver},
  title={The organoid cell atlas},
  year={2021},
  pages={13-17},
  language={eng},
  issn={1546-1696},
  volume={39},
  note={Published online: 31 December 2020 ; Gesehen am 10.05.2022},
  journal={Nature biotechnology},
  doi={10.1038/s41587-020-00762-x},
}
@article{UBHD-69278055,
  author={Boutros, Michael and Baumann, Michael and Bigas, Anna and Chaabane, Linda and Guérin, Julien and Habermann, Jens K. and Jobard, Aurélien and Pelicci, Pier Giuseppe and Stegle, Oliver and Tonon, Giovanni and Valencia, Alfonso and Winkler, Eva C. and Blanc, Patricia and De Maria, Ruggero and Medema, Rene H. and Nagy, Peter and Tabernero, Josep and Solary, Eric},
  title={UNCAN.eu},
  subtitle={toward a European federated cancer research data hub},
  year={2024},
  pages={30-35},
  language={eng},
  issn={2159-8290},
  volume={14},
  number={1 vom: Jan.},
  note={Gesehen am 29.11.2024},
  journal={Cancer discovery},
  doi={10.1158/2159-8290.CD-23-1111},
}
@article{UBHD-68965631,
  author={Bredikhin, Danila and Kats, Ilia and Stegle, Oliver},
  title={MUON},
  subtitle={multimodal omics analysis framework},
  year={2022},
  pages={1-12},
  language={eng},
  issn={1474-760X},
  volume={23},
  number={Artikel-ID 42},
  note={Gesehen am 20.09.2022},
  journal={Genome biology},
  doi={10.1186/s13059-021-02577-8},
}
@article{UBHD-69065183,
  author={Cuomo, Anna S. E. and Heinen, Tobias and Vagiaki, Danai and Horta, Danilo and Marioni, John C. and Stegle, Oliver},
  title={CellRegMap},
  subtitle={a statistical framework formapping context-specific regulatory variantsusing scRNA-seq},
  year={2022},
  pages={1-14},
  language={eng},
  issn={1744-4292},
  volume={18},
  note={Gesehen am 13.04.2023},
  journal={Molecular systems biology},
  doi={10.15252/msb.202110663},
}
@article{UBHD-68764747,
  author={Eufinger, Jan and Korbel, Jan Oliver and Winkler, Eva C. and Kohlbacher, Oliver and Stegle, Oliver},
  title={Genomdaten FAIR und sicher teilen},
  subtitle={das Deutsche Humangenom-Ph{\"a}nom Archiv (GHGA) als Baustein der Nationalen Forschungsdateninfrastruktur},
  year={2021},
  pages={86-97},
  language={ger},
  issn={2626-7489},
  number={2},
  note={Gesehen am 29.07.2021},
  journal={Bausteine Forschungsdatenmanagement},
  doi={10.17192/bfdm.2021.2.8349},
}
@article{UBHD-69198229,
  author={Funk, Maja C. and Gleixner, Jan G. and Heigwer, Florian and Vonficht, Dominik and Valentini, Erica and Aydin, Zeynep and Tonin, Elena and Del Prete, Stefania and Mahara, Sylvia and Throm, Yannick and Hetzer, Jenny and Heide, Danijela and Stegle, Oliver and Odom, Duncan T. and Feldmann, Angelika and Haas, Simon and Heikenwalder, Mathias and Boutros, Michael},
  title={Aged intestinal stem cells propagate cell-intrinsic sources of inflammaging in mice},
  year={2023},
  pages={2914-2929},
  language={eng},
  issn={1878-1551},
  volume={58},
  number={24 vom: Dez.},
  note={Online verf{\"u}gbar: 18. Dezember 2023, Artikelversion: 18. Dezember 2023 ; Gesehen am 08.04.2024},
  journal={Developmental cell},
  doi={10.1016/j.devcel.2023.11.013},
}
@article{UBHD-68560567,
  author={Holland, Christian H. and Tanevski, Jovan and Perales-Patón, Javier and Gleixner, Jan and Kumar, Manu P. and Mereu, Elisabetta and Joughin, Brian A. and Stegle, Oliver and Lauffenburger, Douglas A. and Heyn, Holger and Szalai, Bence and Sáez Rodríguez, Julio},
  title={Robustness and applicability of transcription factor and pathway analysis tools on single-cell RNA-seq data},
  year={2020},
  pages={19 S.},
  language={eng},
  issn={1474-760X},
  volume={21(2020) Artikel-Nummer 36},
  note={Gesehen am 02.04.2020},
  journal={Genome biology},
  doi={10.1186/s13059-020-1949-z},
}
@article{UBHD-68949298,
  author={Kalxdorf, Mathias and M{\"u}ller, Torsten and Stegle, Oliver and Krijgsveld, Jeroen},
  title={IceR improves proteome coverage and data completeness in global and single-cell proteomics},
  year={2021},
  pages={1-15},
  language={eng},
  issn={2041-1723},
  volume={12},
  number={Artikel-ID 4787},
  note={Gesehen am 02.08.2022},
  journal={Nature Communications},
  doi={10.1038/s41467-021-25077-6},
}
@article{UBHD-69246569,
  author={Marconato, Luca and Palla, Giovanni and Yamauchi, Kevin A. and Virshup, Isaac and Heidari, Elyas and Treis, Tim and Vierdag, Wouter-Michiel and Toth, Marcella and Stockhaus, Sonja and Shrestha, Rahul B. and Rombaut, Benjamin and Pollaris, Lotte and Lehner, Laurens and V{\"o}hringer, Harald and Kats, Ilia and Saeys, Yvan and Saka, Sinem and Huber, Wolfgang and Gerstung, Moritz and Moore, Josh and Theis, Fabian J. and Stegle, Oliver},
  title={SpatialData},
  subtitle={an open and universal data framework for spatial omics},
  year={2024},
  pages={1-5},
  language={eng},
  issn={1548-7105},
  note={Gesehen am 23.08.2024},
  journal={Nature methods},
  doi={10.1038/s41592-024-02212-x},
}
@article{UBHD-68559263,
  author={Menden, Michael and Casale, Francesco Paolo and Stephan, Johannes and Bignell, Graham R. and Iorio, Francesco and McDermott, Ultan and Garnett, Mathew J. and Sáez Rodríguez, Julio and Stegle, Oliver},
  title={The germline genetic component of drug sensitivity in cancer cell lines},
  year={2018},
  pages={8 S.},
  language={eng},
  issn={2041-1723},
  volume={9(2018) Artikel-Nummer 3385},
  number={8 Seiten},
  note={Gesehen am 30.03.2020},
  journal={Nature Communications},
  doi={10.1038/s41467-018-05811-3},
}
@article{UBHD-69252882,
  author={Panten, Jasper and Heinen, Tobias and Ernst, Christina and Eling, Nils and Wagner, Rebecca E. and Satorius, Maja and Marioni, John C. and Stegle, Oliver and Odom, Duncan T.},
  title={The dynamic genetic determinants of increased transcriptional divergence in spermatids},
  year={2024},
  pages={1-13},
  language={eng},
  issn={2041-1723},
  volume={15},
  note={Gesehen am 12.09.2024},
  journal={Nature Communications},
  doi={10.1038/s41467-024-45133-1},
}
@article{UBHD-68763863,
  author={Park, Jeongbin and Choi, Wonyl and Tiesmeyer, Sebastian and Long, Brian and Borm, Lars E. and Garren, Emma and Nguyen, Thuc Nghi and Tasic, Bosiljka and Codeluppi, Simone and Graf, Tobias and Schlesner, Matthias and Stegle, Oliver and Eils, Roland and Ishaque, Naveed},
  title={Author correction: Cell segmentation-free inference of cell types from in situ transcriptomics data},
  year={2021},
  pages={1},
  language={eng},
  issn={2041-1723},
  volume={12(2021) vom: 28. Juni},
  number={Artikel-ID 4103},
  note={Gesehen am 27.07.2021},
  journal={Nature Communications},
  doi={10.1038/s41467-021-24405-0},
}
@article{UBHD-68763841,
  author={Park, Jeongbin and Choi, Wonyl and Tiesmeyer, Sebastian and Long, Brian and Borm, Lars E. and Garren, Emma and Nguyen, Thuc Nghi and Tasic, Bosiljka and Codeluppi, Simone and Graf, Tobias and Schlesner, Matthias and Stegle, Oliver and Eils, Roland and Ishaque, Naveed},
  title={Cell segmentation-free inference of cell types from in situ transcriptomics data},
  year={2021},
  pages={1-13},
  language={eng},
  issn={2041-1723},
  volume={12(2021) vom: 10. Juni},
  number={Artikel-ID 3545},
  note={Gesehen am 27.07.2021},
  journal={Nature Communications},
  doi={10.1038/s41467-021-23807-4},
}
@article{UBHD-69002657,
  author={Peters, Annette and Greiser, Karin Halina and G{\"o}ttlicher, Susanne and Ahrens, Wolfgang and Albrecht, Maren and Bamberg, Fabian and B{\"a}rnighausen, Till and Becher, Heiko and Berger, Klaus and Beule, Achim Georg and B{\"o}ing, Heiner and Bohn, Barbara and Bohnert, Kerstin and Braun, Bettina and Brenner, Hermann and B{\"u}low, Robin and Castell, Stefanie and Damms Machado, Antje and D{\"o}rr, Marcus and Ebert, Nina and Ecker, Margit and Emmel, Carina and Fischer, Beate and Franzke, Claus-Werner and Gastell, Sylvia and Giani, Guido and G{\"u}nther, Matthias and G{\"u}nther, Kathrin and G{\"u}nther, Klaus-Peter and Haerting, Johannes and Haug, Ulrike and Heid, Iris M. and Heier, Margit and Heinemeyer, Diana and Hendel, Thomas and Herbolsheimer, Florian and Hirsch, Jochen and Hoffmann, Wolfgang and Holleczek, Bernd and H{\"o}lling, Heike and H{\"o}rlein, Andreas and J{\"o}ckel, Karl-Heinz and Kaaks, Rudolf and Karch, André and Karrasch, Stefan and Kartschmit, Nadja and Kauczor, Hans-Ulrich and Keil, Thomas and Kemmling-Kerić, Yvonne and Klee, Bianca and Kl{\"u}ppelholz, Birgit and Kluttig, Alexander and Kofink, Lisa and K{\"o}ttgen, Anna and Kraft, Daniel and Krause, Gérard and Kretz, Lisa and Krist, Lilian and K{\"u}hnisch, Jan and Kuß, Oliver and Legath, Nicole and Kl{\"o}tzsch, Anna-Therese and Leitzmann, Michael and Lieb, Wolfgang and Linseisen, Jakob and L{\"o}ffler, Markus and Macdonald, Anke and Maier-Hein, Klaus H. and Mangold, Nina and Meinke-Franze, Claudia and Meisinger, Christa and Melzer, Juliane and Mergarten, Bj{\"o}rn and Michels, Karin and Mikolajczyk, Rafael and Moebus, Susanne and Mueller, Ulrich and Nauck, Matthias and Niendorf, Thoralf and Nikolaou, Konstantin and Obi, Nadia and Ostrzinski, Stefan and Panreck, Leo and Pigeot, Iris and Pischon, Tobias and Pschibul-Thamm, Irene and Rathmann, Wolfgang and Reineke, Achim and Roloff, Stefanie and Rujescu, Dan and Rupf, Stefan and Sander, Oliver and Schikowski, Tamara and Schipf, Sabine and Schirmacher, Peter and Schlett, Christopher L. and Schmidt, B{\"o}rge and Schmidt, Georg and Schmidt, Martin and Sch{\"o}ne, Gina and Schulz, Holger and Schulze, Matthias Bernd and Schweig, Alexandra and Sedlmeier, Anja and Selder, Sonja and Six-Merker, Julia and Sowade, Ramona Felizitas and Stang, Andreas and Stegle, Oliver and Steindorf, Karen and St{\"u}bs, Gunthard and Swart, Enno and Teismann, Henning and Thiele, Inke and Thierry, Sigrid and Ueffing, Marius and V{\"o}lzke, Henry and Waniek, Sabina and Weber, Andrea and Werner, Nicole and Wichmann, Heinz Erich and Willich, Stefan N. and Wirkner, Kerstin and Wolf, Kathrin and Wolff, Robert and Zeeb, Hajo and Zinkhan, Melanie and Zschocke, Johannes},
  title={Framework and baseline examination of the German National Cohort (NAKO)},
  year={2022},
  pages={1107-1124},
  language={eng},
  issn={1573-7284},
  volume={37},
  number={10},
  journal={European journal of epidemiology},
  doi={10.1007/s10654-022-00890-5},
}
@article{UBHD-69146494,
  author={Poos, Alexandra and Prokoph, Nina and Przybilla, Moritz Jakob and Mallm, Jan-Philipp and Steiger, Simon and Seufert, Isabelle and John, Lukas and Tirier, Stephan Marius and Bauer, Katharina and Baumann, Anja and Rohleder, Jennifer and Munawar, Umair and Rasche, Leo and Kort{\"u}m, K. Martin and Giesen, Nicola and Reichert, Philipp and Huhn, Stefanie and M{\"u}ller-Tidow, Carsten and Goldschmidt, Hartmut and Stegle, Oliver and Raab, Marc-Steffen and Rippe, Karsten and Weinhold, Niels},
  title={Resolving therapy resistance mechanisms in multiple myeloma by multiomics subclone analysis},
  year={2023},
  pages={1633-1646},
  language={eng},
  issn={1528-0020},
  volume={142},
  number={19},
  note={Gesehen am 27.11.2023},
  journal={Blood},
  doi={10.1182/blood.2023019758},
}
@article{UBHD-68919997,
  author={Secchia, Stefano and Forneris, Mattia and Heinen, Tobias and Stegle, Oliver and Furlong, Eileen E. M.},
  title={Simultaneous cellular and molecular phenotyping of embryonic mutants using single-cell regulatory trajectories},
  year={2022},
  pages={24 S.},
  language={eng},
  issn={1878-1551},
  volume={57},
  note={Gesehen am 18.05.2022},
  journal={Developmental cell},
  doi={10.1016/j.devcel.2022.01.016},
}
@article{UBHD-69143863,
  author={Snajder, Rene and Leger, Adrien and Stegle, Oliver and Bonder, Marc Jan},
  title={PycoMeth},
  subtitle={a toolbox for differential methylation testing from Nanopore methylation calls},
  year={2023},
  pages={1-19},
  language={eng},
  issn={1474-760X},
  volume={24},
  number={Artikel-ID 83},
  note={Gesehen am 17.11.2023},
  journal={Genome biology},
  doi={10.1186/s13059-023-02917-w},
}
@article{UBHD-68807760,
  author={Tirier, Stephan Marius and Mallm, Jan-Philipp and Steiger, Simon and Poos, Alexandra and Awwad, Mohamed and Giesen, Nicola and Casiraghi, Nicola and Susak, Hana and Bauer, Katharina and Baumann, Anja and John, Lukas and Seckinger, Anja and Hose, Dirk and M{\"u}ller-Tidow, Carsten and Goldschmidt, Hartmut and Stegle, Oliver and Hundemer, Michael and Weinhold, Niels and Raab, Marc-Steffen and Rippe, Karsten},
  title={Subclone-specific microenvironmental impact and drug response in refractory multiple myeloma revealed by single‐cell transcriptomics},
  year={2021},
  pages={1-16},
  language={eng},
  issn={2041-1723},
  volume={12},
  number={Artikel-ID 6960},
  note={Gesehen am 03.12.2021},
  journal={Nature Communications},
  doi={10.1038/s41467-021-26951-z},
}
@article{UBHD-69140307,
  author={Velten, Britta and Stegle, Oliver},
  title={Principles and challenges of modeling temporal and spatial omics data},
  year={2023},
  pages={1462-1474},
  language={eng},
  issn={1548-7105},
  volume={20},
  number={10 vom: Okt.},
  note={Online ver{\"o}ffentlicht: 14. September 2023 ; Gesehen am 07.11.2023},
  journal={Nature methods},
  doi={10.1038/s41592-023-01992-y},
}