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| Home > Publications database > HIPSD&R-seq enables scalable genomic copy number and transcriptome profiling. |
| Home > Publications database > HIPSD&R-seq enables scalable genomic copy number and transcriptome profiling. |
| Journal Article | DKFZ-2024-02739 |
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2024
BioMed Central
London
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Please use a persistent id in citations: doi:10.1186/s13059-024-03450-0
Abstract: Single-cell DNA sequencing (scDNA-seq) enables decoding somatic cancer variation. Existing methods are hampered by low throughput or cannot be combined with transcriptome sequencing in the same cell. We propose HIPSD&R-seq (HIgh-throughPut Single-cell Dna and Rna-seq), a scalable yet simple and accessible assay to profile low-coverage DNA and RNA in thousands of cells in parallel. Our approach builds on a modification of the 10X Genomics platform for scATAC and multiome profiling. In applications to human cell models and primary tissue, we demonstrate the feasibility to detect rare clones and we combine the assay with combinatorial indexing to profile over 17,000 cells.
Keyword(s): Humans (MeSH) ; Single-Cell Analysis: methods (MeSH) ; Gene Expression Profiling: methods (MeSH) ; High-Throughput Nucleotide Sequencing: methods (MeSH) ; Genomics: methods (MeSH) ; Transcriptome (MeSH) ; Sequence Analysis, DNA: methods (MeSH) ; Sequence Analysis, RNA: methods (MeSH) ; DNA Copy Number Variations (MeSH) ; Single Cell DNA sequencing ; Single Cell copy Number profiling ; Single Cell multiome
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