% IMPORTANT: The following is UTF-8 encoded.  This means that in the presence
% of non-ASCII characters, it will not work with BibTeX 0.99 or older.
% Instead, you should use an up-to-date BibTeX implementation like “bibtex8” or
% “biber”.

@ARTICLE{Legnini:283151,
      author       = {I. Legnini and L. Emmenegger and A. Zappulo and A.
                      Rybak-Wolf and R. Wurmus and A. O. Martinez and C. C. Jara
                      and A. Boltengagen and T. Hessler and G. Mastrobuoni and S.
                      Kempa and R. Zinzen and A. Woehler and N. Rajewsky$^*$},
      title        = {{S}patiotemporal, optogenetic control of gene expression in
                      organoids.},
      journal      = {Nature methods},
      volume       = {20},
      number       = {10},
      issn         = {1548-7091},
      address      = {London [u.a.]},
      publisher    = {Nature Publishing Group},
      reportid     = {DKFZ-2023-01937},
      pages        = {1544-1552},
      year         = {2023},
      note         = {2023 Oct;20(10):1544-1552},
      abstract     = {Organoids derived from stem cells have become an
                      increasingly important tool for studying human development
                      and modeling disease. However, methods are still needed to
                      control and study spatiotemporal patterns of gene expression
                      in organoids. Here we combined optogenetics and gene
                      perturbation technologies to activate or knock-down RNA of
                      target genes in programmable spatiotemporal patterns. To
                      illustrate the usefulness of our approach, we locally
                      activated Sonic Hedgehog (SHH) signaling in an organoid
                      model for human neurodevelopment. Spatial and single-cell
                      transcriptomic analyses showed that this local induction was
                      sufficient to generate stereotypically patterned organoids
                      and revealed new insights into SHH's contribution to gene
                      regulation in neurodevelopment. With this study, we propose
                      optogenetic perturbations in combination with spatial
                      transcriptomics as a powerful technology to reprogram and
                      study cell fates and tissue patterning in organoids.},
      cin          = {BE01},
      ddc          = {610},
      cid          = {I:(DE-He78)BE01-20160331},
      pnm          = {899 - ohne Topic (POF4-899)},
      pid          = {G:(DE-HGF)POF4-899},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:37735569},
      doi          = {10.1038/s41592-023-01986-w},
      url          = {https://inrepo02.dkfz.de/record/283151},
}