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@ARTICLE{Cerrizuela:303194,
      author       = {S. Cerrizuela$^*$ and O. Kaya$^*$ and L. P. M. Kremer$^*$
                      and A. Sarvari$^*$ and T. Ellinger$^*$ and J. Straub$^*$ and
                      J. Brunken$^*$ and A. Sanz-Morejon$^*$ and A. Korkmaz$^*$
                      and A. Martin-Villalba$^*$},
      title        = {{P}rotocol update to: {H}igh-throughput sc{NMT} protocol
                      for multiomics profiling of single cells from mouse brain
                      and pancreatic organoids.},
      journal      = {STAR Protocols},
      volume       = {6},
      number       = {3},
      issn         = {2666-1667},
      address      = {Cambridge, MA},
      publisher    = {Cell Press},
      reportid     = {DKFZ-2025-01545},
      pages        = {103980},
      year         = {2025},
      note         = {#EA:A290#LA:A290#},
      abstract     = {Single-cell nucleosome, methylome, and transcriptome
                      (scNMT) sequencing is a recently developed method that
                      allows multiomics profiling of single cells. In this scNMT
                      protocol, we describe profiling of cells from mouse brain
                      and pancreatic organoids, using liquid handling platforms to
                      increase throughput from 96-well to 384-well plate format.
                      Our approach miniaturizes reaction volumes and incorporates
                      the latest Smart-seq3 protocol to obtain higher numbers of
                      detected genes and genomic DNA (gDNA) CpGs per cell. We
                      outline normalization steps to optimally distribute per-cell
                      sequencing depth. For complete details on the use and
                      execution of this protocol, please refer to Kremer et al.
                      and other works.1,2,3,4,5,6,7 This protocol is an update to
                      Cerrizuela et al.7.},
      keywords     = {Bioinformatics (Other) / Cell Biology (Other) / Genomics
                      (Other) / Molecular Biology (Other) / Neuroscience (Other) /
                      RNA-seq (Other) / Sequence analysis (Other) / Single Cell
                      (Other)},
      cin          = {A290},
      ddc          = {600},
      cid          = {I:(DE-He78)A290-20160331},
      pnm          = {311 - Zellbiologie und Tumorbiologie (POF4-311)},
      pid          = {G:(DE-HGF)POF4-311},
      typ          = {PUB:(DE-HGF)16},
      pubmed       = {pmid:40711871},
      doi          = {10.1016/j.xpro.2025.103980},
      url          = {https://inrepo02.dkfz.de/record/303194},
}