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@ARTICLE{MarotLassauzaie:181904,
      author       = {V. Marot-Lassauzaie and B. J. Bouman and F. D. Donaghy and
                      Y. Demerdash$^*$ and M. Essers$^*$ and L. Haghverdi},
      title        = {{T}owards reliable quantification of cell state
                      velocities.},
      journal      = {PLoS Computational Biology},
      volume       = {18},
      number       = {9},
      issn         = {1553-734X},
      address      = {San Francisco, Calif.},
      publisher    = {Public Library of Science},
      reportid     = {DKFZ-2022-02294},
      pages        = {e1010031 -},
      year         = {2022},
      note         = {DKFZ-ZMBH Alliance},
      abstract     = {A few years ago, it was proposed to use the simultaneous
                      quantification of unspliced and spliced messenger RNA (mRNA)
                      to add a temporal dimension to high-throughput snapshots of
                      single cell RNA sequencing data. This concept can yield
                      additional insight into the transcriptional dynamics of the
                      biological systems under study. However, current methods for
                      inferring cell state velocities from such data (known as RNA
                      velocities) are afflicted by several theoretical and
                      computational problems, hindering realistic and reliable
                      velocity estimation. We discuss these issues and propose new
                      solutions for addressing some of the current challenges in
                      consistency of data processing, velocity inference and
                      visualisation. We translate our computational conclusion in
                      two velocity analysis tools: one detailed method κ-velo and
                      one heuristic method eco-velo, each of which uses a
                      different set of assumptions about the data.},
      cin          = {A011},
      ddc          = {610},
      cid          = {I:(DE-He78)A011-20160331},
      pnm          = {311 - Zellbiologie und Tumorbiologie (POF4-311)},
      pid          = {G:(DE-HGF)POF4-311},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:36170235},
      doi          = {10.1371/journal.pcbi.1010031},
      url          = {https://inrepo02.dkfz.de/record/181904},
}