Journal Article

DKFZ-2025-01545

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png Protocol update to: High-throughput scNMT protocol for multiomics profiling of single cells from mouse brain and pancreatic organoids.

Cerrizuela, S. (First author)DKFZ* ; Kaya, O. (First author)DKFZ* ; Kremer, L. P. M.DKFZ* ; Sarvari, A.DKFZ* ; Ellinger, T.DKFZ* ; Straub, J.DKFZ* ; Brunken, J.DKFZ* ; Sanz-Morejon, A.DKFZ* ; Korkmaz, A.DKFZ* ; Martin-Villalba, A. (Last author)DKFZ*

2025
Cell Press Cambridge, MA

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Please use a persistent id in citations: doi:10.1016/j.xpro.2025.103980

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.

Keyword(s): Bioinformatics ; Cell Biology ; Genomics ; Molecular Biology ; Neuroscience ; RNA-seq ; Sequence analysis ; Single Cell

Note: #EA:A290#LA:A290#

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Contributing Institute(s):

1. A290 Molekulare Neurobiologie (A290)

Research Program(s):

1. 311 - Zellbiologie und Tumorbiologie (POF4-311) (POF4-311)

Appears in the scientific report 2025

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; ; Article Processing Charges ; BIOSIS Previews ; Biological Abstracts ; Clarivate Analytics Master Journal List ; DOAJ Seal ; Emerging Sources Citation Index ; Fees ; SCOPUS ; Web of Science Core Collection

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