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The scverse project provides a computational ecosystem for single-cell omics data analysis Virshup, Isaac; Bredikhin, Danila; Heumos, Lukas; Palla, Giovanni; Sturm, Gregor; Gayoso, Adam; Kats, Ilia; Koutrouli, Mikaela; Berger, Bonnie; Pe'er, Dana; Regev, Aviv; Teichmann, Sarah; Finotello, Francesca; Wolf, F. Alexander; Yosef, Nir; Stegle, Oliver; Theis, Fabian; Angerer, Philipp; Bergen, Volker; Boyeau, Pierre D.; Buettner, Maren; Eraslan, Gokcen; Fischer, David; Frank, Max C.; Hong, Justin; Klein, Michal; Lange, Marius; Lopez, Romain; Lotfollahi, Mohammad; Luecken, Malte; Ramirez, Fidel A.; Regier, Jeffrey; Rybakov, Sergei; Schaar, Anna; Valiollah Pour Amiri, Valeh; Weiler, Philipp J.; Xing, Galen Share Save
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Probing cell identity hierarchies by fate titration and collision during direct reprogramming Hersbach, Bob A.; Fischer, David S.; Masserdotti, Giacomo; Deeksha; Mojzisova, Karolina; Waltzhoeni, Thomas; Rodriguez-Terrones, Diego; Heinig, Matthias; Theis, Fabian J.; Goetz, Magdalena; Stricker, Stefan H. Share Save
Cell-Type-Specific Impact of Glucocorticoid Receptor Activation on the Developing Brain: A Cerebral Organoid Study Cruceanu, Cristiana; Dony, Leander; Krontira, Anthi C.; Fischer, David S.; Roeh, Simone; Di Giaimo, Rossella; Kyrousi, Christina; Kaspar, Lea; Arloth, Janine; Czamara, Darina; Gerstner, Nathalie; Martinelli, Silvia; Wehner, Stefanie; Breen, Michael S.; Koedel, Maik; Sauer, Susann; Sportelli, Vincenza; Rex-Haffner, Monika; Cappello, Silvia; Theis, Fabian J.; Binder, Elisabeth B. Share Save
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Ultra-high sensitivity mass spectrometry quantifies single-cell proteome changes upon perturbation Brunner, Andreas-David; Thielert, Marvin; Vasilopoulou, Catherine; Ammar, Constantin; Coscia, Fabian; Mund, Andreas; Hoerning, Ole B.; Bache, Nicolai; Apalategui, Amalia; Lubeck, Markus; Richter, Sabrina; Fischer, David S.; Raether, Oliver; Park, Melvin A.; Meier, Florian; Theis, Fabian J.; Mann, Matthias Share Save
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Squidpy: a scalable framework for spatial omics analysis Palla, Giovanni; Spitzer, Hannah; Klein, Michal; Fischer, David; Schaar, Anna Christina; Kuemmerle, Louis Benedikt; Rybakov, Sergei; Ibarra, Ignacio L.; Holmberg, Olle; Virshup, Isaac; Lotfollahi, Mohammad; Richter, Sabrina; Theis, Fabian J. Share Save
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Sfaira accelerates data and model reuse in single cell genomics Fischer, David S.; Dony, Leander; Konig, Martin; Moeed, Abdul; Zappia, Luke; Heumos, Lukas; Tritschler, Sophie; Holmberg, Olle; Aliee, Hananeh; Theis, Fabian J. Share Save
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Single-cell RNA sequencing reveals ex vivo signatures of SARS-CoV-2-reactive T cells through 'reverse phenotyping' Fischer, David S.; Ansari, Meshal; Wagner, Karolin, I; Jarosch, Sebastian; Huang, Yiqi; Mayr, Christoph H.; Strunz, Maximilian; Lang, Niklas J.; D'Ippolito, Elvira; Hammel, Monika; Mateyka, Laura; Weber, Simone; Wolff, Lisa S.; Witter, Klaus; Fernandez, Isis E.; Leuschner, Gabriela; Milger, Katrin; Frankenberger, Marion; Nowak, Lorenz; Heinig-Menhard, Katharina; Koch, Ina; Stoleriu, Mircea G.; Hilgendorff, Anne; Behr, Juergen; Pichlmair, Andreas; Schubert, Benjamin; Theis, Fabian J.; Busch, Dirk H.; Schiller, Herbert B.; Schober, Kilian Share Save
Asc-1 regulates white versus beige adipocyte fate in a subcutaneous stromal cell population Suwandhi, Lisa; Altun, Irem; Karlina, Ruth; Miok, Viktorian; Wiedemann, Tobias; Fischer, David; Walzthoeni, Thomas; Lindner, Christina; Boettcher, Anika; Heinzmann, Silke S.; Israel, Andreas; Khalil, Ahmed Elagamy Mohamed Mahmoud; Braun, Alexander; Pramme-Steinwachs, Ines; Burtscher, Ingo; Schmitt-Kopplin, Philippe; Heinig, Matthias; Elsner, Martin; Lickert, Heiko; Theis, Fabian J.; Ussar, Siegfried Share Save
Single-cell meta-analysis of SARS-CoV-2 entry genes across tissues and demographics Muus, Christoph; Luecken, Malte D.; Eraslan, Gokcen; Sikkema, Lisa; Waghray, Avinash; Heimberg, Graham; Kobayashi, Yoshihiko; Vaishnav, Eeshit Dhaval; Subramanian, Ayshwarya; Smillie, Christopher; Jagadeesh, Karthik A.; Duong, Elizabeth Thu; Fiskin, Evgenij; Triglia, Elena Torlai; Ansari, Meshal; Cai, Peiwen; Lin, Brian; Buchanan, Justin; Chen, Sijia; Shu, Jian; Haber, Adam L.; Chung, Hattie; Montoro, Daniel T.; Adams, Taylor; Aliee, Hananeh; Allon, Samuel J.; Andrusivova, Zaneta; Angelidis, Ilias; Ashenberg, Orr; Bassler, Kevin; Becavin, Christophe; Benhar, Inbal; Bergenstrahle, Joseph; Bergenstrahle, Ludvig; Bolt, Liam; Braun, Emelie; Bui, Linh T.; Callori, Steven; Chaffin, Mark; Chichelnitskiy, Evgeny; Chiou, Joshua; Conlon, Thomas M.; Cuoco, Michael S.; Cuomo, Anna S. E.; Deprez, Marie; Duclos, Grant; Fine, Denise; Fischer, David S.; Ghazanfar, Shila; Gillich, Astrid; Giotti, Bruno; Gould, Joshua; Guo, Minzhe; Gutierrez, Austin J.; Habermann, Arun C.; Harvey, Tyler; He, Peng; Hou, Xiaomeng; Hu, Lijuan; Hu, Yan; Jaiswal, Alok; Ji, Lu; Jiang, Peiyong; Kapellos, Theodoros S.; Kuo, Christin S.; Larsson, Ludvig; Leney-Greene, Michael A.; Lim, Kyungtae; Litvinukova, Monika; Ludwig, Leif S.; Lukassen, Soeren; Luo, Wendy; Maatz, Henrike; Madissoon, Elo; Mamanova, Lira; Manakongtreecheep, Kasidet; Leroy, Sylvie; Mayr, Christoph H.; Mbano, Ian M.; McAdams, Alexi M.; Nabhan, Ahmad N.; Nyquist, Sarah K.; Penland, Lolita; Poirion, Olivier B.; Poli, Sergio; Qi, CanCan; Queen, Rachel; Reichart, Daniel; Rosas, Ivan; Schupp, Jonas C.; Shea, Conor, V; Shi, Xingyi; Sinha, Rahul; Sit, Rene, V; Slowikowski, Kamil; Slyper, Michal; Smith, Neal P.; Sountoulidis, Alex; Strunz, Maximilian; Sullivan, Travis B.; Sun, Dawei; Talavera-Lopez, Carlos; Tan, Peng; Tantivit, Jessica; Travaglini, Kyle J.; Tucker, Nathan R.; Vernon, Katherine A.; Wadsworth, Marc H.; Waldman, Julia; Wang, Xiuting; Xu, Ke; Yan, Wenjun; Zhao, William; Ziegler, Carly G. K. Share Save
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