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  title={RegVelo: gene-regulatory-informed dynamics of single cells},
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  journal={bioRxiv},
  pages={2024--12},
  year={2024},
  publisher={Cold Spring Harbor Laboratory}
}

@article{lange2022cellrank,
  title={CellRank for directed single-cell fate mapping},
  author={Lange, Marius and Bergen, Volker and Klein, Michal and Setty, Manu and Reuter, Bernhard and Bakhti, Mostafa and Lickert, Heiko and Ansari, Meshal and Schniering, Janine and Schiller, Herbert B and others},
  journal={Nature methods},
  volume={19},
  number={2},
  pages={159--170},
  year={2022},
  publisher={Nature Publishing Group US New York}
}

@article{weiler2024cellrank,
  title={CellRank 2: unified fate mapping in multiview single-cell data},
  author={Weiler, Philipp and Lange, Marius and Klein, Michal and Pe’er, Dana and Theis, Fabian},
  journal={Nature Methods},
  pages={1--10},
  year={2024},
  publisher={Nature Publishing Group US New York}
}

@article{bergen2020generalizing,
  title={Generalizing RNA velocity to transient cell states through dynamical modeling},
  author={Bergen, Volker and Lange, Marius and Peidli, Stefan and Wolf, F Alexander and Theis, Fabian J},
  journal={Nature biotechnology},
  volume={38},
  number={12},
  pages={1408--1414},
  year={2020},
  publisher={Nature Publishing Group US New York}
}

@article{gayoso2024deep,
  title={Deep generative modeling of transcriptional dynamics for RNA velocity analysis in single cells},
  author={Gayoso, Adam and Weiler, Philipp and Lotfollahi, Mohammad and Klein, Dominik and Hong, Justin and Streets, Aaron and Theis, Fabian J and Yosef, Nir},
  journal={Nature methods},
  volume={21},
  number={1},
  pages={50--59},
  year={2024},
  publisher={Nature Publishing Group US New York}
}

@article{hu2024single,
  title={Single-cell multi-omics, spatial transcriptomics and systematic perturbation decode circuitry of neural crest fate decisions},
  author={Hu, Zhiyuan and Mayes, Sarah and Wang, Weixu and Santos-Pereira, Jose M and Theis, Fabian and Sauka-Spengler, Tatjana},
  journal={bioRxiv},
  pages={2024--09},
  year={2024},
  publisher={Cold Spring Harbor Laboratory}
}