Dual nuclease single-cell lineage tracing by Cas9 and Cas12a
Single-cell RNA-seq · mouse · 26 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Mus musculus (mouse)
- Samples
- 26 samples: 26 samples, each with a distinct title — no replicated groupsGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Dual-nuclease single-cell lineage tracing by Cas9 and Cas12aCell reports · 2025
Read the full summary ↓
Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.
Processed table
The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE261211_RAW.tar (it can run to tens of gigabytes).
Raw sequencing reads
The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.
What the files usually look like: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1085760 and SRA study SRP494197. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 26 sample titles: 26 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.
- GSM8137704 nmpD3 scRNA-seq
- GSM8137705 nmoD15a scRNA-seq
- GSM8137706 nmoD15b scRNA-seq
- GSM8137707 nmoD15c scRNA-seq
- GSM8137708 nmoD30 scRNA-seq
- GSM8137709 nmpD3 amplicon-seq
- GSM8137710 nmoD15a amplicon-seq
- GSM8137711 nmoD15b amplicon-seq
- GSM8137712 nmoD15c amplicon-seq
- GSM8137713 nmoD30 amplicon-seq
- GSM8137714 ESC-4OHT-D2 bulk amplicon-seq
- GSM8137715 ESC-4OHT-D4 bulk amplicon-seq
- GSM8137716 ESC-4OHT-D6 bulk amplicon-seq
- GSM8137717 ESC-4OHT-D8 bulk amplicon-seq
- GSM8137718 ESC-dox-D2 bulk amplicon-seq
- GSM8137719 ESC-dox-D4 bulk amplicon-seq
- GSM8137720 ESC-dox-D6 bulk amplicon-seq
- GSM8137721 ESC-dox-D8 bulk amplicon-seq
- GSM8137722 HEK293T-4OHT-D1 bulk amplicon-seq
- GSM8137723 HEK293T-4OHT-D3 bulk amplicon-seq
- GSM8137724 HEK293T-4OHT-D5 bulk amplicon-seq
- GSM8137725 HEK293T-4OHT-D7 bulk amplicon-seq
- GSM8137726 HEK293T-dox-D1 bulk amplicon-seq
- GSM8137727 HEK293T-dox-D3 bulk amplicon-seq
- GSM8137728 HEK293T-dox-D5 bulk amplicon-seq
- GSM8137729 HEK293T-dox-D7 bulk amplicon-seq
- GSE236831 Rapid CRISPR/Cas12a-based dual-crRNA library screening in high fidelity reveals novel genetic interactions during hepatocarcinogenesis 62 samples shares cas12a, dual
- GSE249011 Bulk and single-cell RNA sequencing of human and murine eosinophil lineage cells 62 samples shares single-cell, lineage
- GSE249799 scNanoSeq-CUT&Tag: a long-read single-cell CUT&Tag sequencing method for efficient chromatin modification profiling within individual cells 46 samples shares single-cell, dual
- GSE246155 HuPSA and MoPSA Atlases Reveal Novel Cell Populations and Lineage Plasticity in Prostate Cancer at Single-Cell Level 2 samples shares single-cell, lineage
- GSE306957 Mitochondrial RNA cytosolic leakage drives the SASP [CRISPR/Cas9] 34 samples shares cas9
- GSE328692 Single-cell gene programs define subtype identity and metastatic trajectories in renal cell carcinoma 34 samples shares single-cell
- GSE202126 Single-cell Total-RNA Profiling Unveils Regulatory Hubs of Transcription Factors 1089 samples shares single-cell
- GSE272618 Single-Molecule Barcoding Technology for Single-Cell Genomics 140 samples shares single-cell
Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.