TY  - JOUR
AU  - Cerrizuela, Santiago
AU  - Kaya, Oguzhan
AU  - Kremer, Lukas P M
AU  - Sarvari, Andrea
AU  - Ellinger, Tobias
AU  - Straub, Jannes
AU  - Brunken, Jan
AU  - Sanz-Morejon, Andres
AU  - Korkmaz, Aylin
AU  - Martin-Villalba, Ana
TI  - Protocol update to: High-throughput scNMT protocol for multiomics profiling of single cells from mouse brain and pancreatic organoids.
JO  - STAR Protocols
VL  - 6
IS  - 3
SN  - 2666-1667
CY  - Cambridge, MA
PB  - Cell Press
M1  - DKFZ-2025-01545
SP  - 103980
PY  - 2025
N1  - #EA:A290#LA:A290#
AB  - 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.
KW  - Bioinformatics (Other)
KW  - Cell Biology (Other)
KW  - Genomics (Other)
KW  - Molecular Biology (Other)
KW  - Neuroscience (Other)
KW  - RNA-seq (Other)
KW  - Sequence analysis (Other)
KW  - Single Cell (Other)
LB  - PUB:(DE-HGF)16
C6  - pmid:40711871
DO  - DOI:10.1016/j.xpro.2025.103980
UR  - https://inrepo02.dkfz.de/record/303194
ER  -