Publications

Unified fate mapping in multiview single-cell data
Single-cell RNA sequencing allows us to model cellular state dynamics and fate decisions using expression similarity or RNA velocity to …
Philipp Weiler, Marius Lange, Michal Klein, Dana Pe’er, Fabian J. Theis
Code DOI
Unified fate mapping in multiview single-cell data
Mapping lineage-traced cells across time points with moslin
Simultaneous profiling of single-cell gene expression and lineage history holds enormous potential for studying cellular …
Marius Lange, Zoe Piran, Michal Klein, Bastiaan Spanjaard, Dominik Klein, Jan Philipp Junker, Fabian J. Theis, Mor Nitzan
Code DOI
Mapping lineage-traced cells across time points with moslin
Mapping cells through time and space with moscot
Single-cell genomics technologies enable multimodal profiling of millions of cells across temporal and spatial dimensions. Experimental …
Dominik Klein, Giovanni Palla, Marius Lange, Michal Klein, Zoe Piran, Manuel Gander, Laetitia Meng-Papaxanthos, Michael Sterr, Aimee Bastidas-Ponce, Marta Tarquis-Medina, Heiko Lickert, Mostafa Bakhti, Mor Nitzan, Marco Cuturi, Fabian J. Theis
Code DOI
Mapping cells through time and space with moscot
Modeling dynamical biological processes through the lens of single-cell genomics
Cells dynamically change their molecular state in many situations. Single-cell assays allow us to describe this state with …
Marius Lange
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Modeling dynamical biological processes through the lens of single-cell genomics
CellRank for directed single-cell fate mapping
Computational trajectory inference enables the reconstruction of cell state dynamics from single-cell RNA sequencing experiments. …
Marius Lange, Volker Bergen, Michal Klein, Manu Setty, Bernhard Reuter, Mostafa Bakhti, Heiko Lickert, Meshal Ansari, Janine Schniering, Herbert B Schiller, Dana Pe’er, Fabian J Theis
Code DOI
CellRank for directed single-cell fate mapping
Mapping lineage-traced single-cells across time-points
Simultaneous profiling of single-cell gene expression and lineage history holds enormous potential for studying cellular decision …
Marius Lange, Zoe Piran, Michal Klein, Fabian J. Theis, Mor Nitzan
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Mapping lineage-traced single-cells across time-points
Generalizing RNA velocity to transient cell states through dynamical modeling
RNA velocity has opened up new ways of studying cellular differentiation in single-cell RNA-sequencing data. It describes the rate of …
Volker Bergen, Marius Lange, Stefan Peidli, F Alexander Wolf, Fabian J Theis
Code DOI
Generalizing RNA velocity to transient cell states through dynamical modeling
Alveolar regeneration through a Krt8+ transitional stem cell state that persists in human lung fibrosis
The cell type specific sequences of transcriptional programs during lung regeneration have remained elusive. Using time-series single …
Maximilian Strunz, Lukas M Simon, Meshal Ansari, Jaymin J Kathiriya, Ilias Angelidis, Christoph H Mayr, George Tsidiridis, Marius Lange, Laura F Mattner, Min Yee, Paulina Ogar, Arunima Sengupta, Igor Kukhtevich, Robert Schneider, Zhongming Zhao, Carola Voss, Tobias Stoeger, Jens HL Neumann, Anne Hilgendorff, Jürgen Behr, Michael O’Reilly, Mareike Lehmann, Gerald Burgstaller, Melanie Königshoff, Harold A Chapman, Fabian J Theis, Herbert B Schiller
DOI
Alveolar regeneration through a Krt8+ transitional stem cell state that persists in human lung fibrosis
On monotonic estimates of the norm of the minimizers of regularized quadratic functions in Krylov spaces
We show that the minimizers of regularized quadratic functions restricted to their natural Krylov spaces increase in Euclidean norm as …
Coralia Cartis, Nicholas IM Gould, Marius Lange
DOI
Concepts and limitations for learning developmental trajectories from single cell genomics
Single cell genomics has become a popular approach to uncover the cellular heterogeneity of progenitor and terminally differentiated …
Sophie Tritschler, Maren Büttner, David S Fischer, Marius Lange, Volker Bergen, Heiko Lickert, Fabian J Theis
DOI
Concepts and limitations for learning developmental trajectories from single cell genomics
scSLAM-seq reveals core features of transcription dynamics in single cells
Single-cell RNA sequencing (scRNA-seq) has highlighted the important role of intercellular heterogeneity in phenotype variability in …
Florian Erhard, Marisa A. P. Baptista, Tobias Krammer, Thomas Hennig, Marius Lange, Panagiota Arampatzi, Christopher S. Jürges, Fabian J. Theis, Antoine-Emmanuel Saliba, Lars Dölken
DOI
scSLAM-seq reveals core features of transcription dynamics in single cells