Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (scRNA-seq - mus musculus)
Single-cell RNA-seq · mouse · 10 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
- 10 samples: 10 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
- Loss of BAP1 defines a unique subtype of TP53-mutated de novo AML and confers sensitivity to BCL-xL inhibitorsBlood · 2025
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 GSE266948_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 PRJNA1108762 and SRA study SRP506224. 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 10 sample titles: 10 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.
- GSM8257329 SQ1023_WT
- GSM8257330 CL1859_p53
- GSM8257331 CL1801_BAP1
- GSM8257332 CL1786_DKO_ERY
- GSM8257333 CL1785_DKO_ERY
- GSM8257334 CL1777_DKO_ERY
- GSM8257335 CL1937_DKO_AML
- GSM8257336 CL2016_DKO_AML
- GSM8257337 CL1936_DKO_ERY
- GSM8257338 CL1956_DKO_ERY
- GSE171815 Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (RNA-seq - mus musculus) 27 samples shares bap1, tp53, myelo-erythroid, cooperates, deficiency, progenitor, transform
- GSE173547 Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (ChIP-seq - mus musculus) 17 samples shares bap1, tp53, myelo-erythroid, cooperates, deficiency, progenitor, transform
- GSE279386 Tp53 and Tet2 mutations cooperatively transform progenitors (RNA-Seq) 24 samples shares tp53, progenitor, transform
- GSE285355 Tp53 and Tet2 mutations cooperatively transform GMP (RNA-Seq) 12 samples shares tp53, transform
- GSE207938 Epigenetic plasticity cooperates with emergent cell-cell interactions to drive neoplastic tissue remodeling in the pancreas [scRNA-seq] 49 samples shares cooperates, scrna-seq
- GSE264051 Dysregulated innate immune signaling cooperates with RUNX1 mutations to transform an MDS-like disease to AML (RNA-Seq) 12 samples shares cooperates, transform
- GSE247403 DDX41 heterozygosity impairs hematopoietic progenitor cell fitness and cooperates with p53 mutation to drive malignancy [CD71] 10 samples shares cooperates, progenitor
- GSE247404 DDX41 heterozygosity impairs hematopoietic progenitor cell fitness and cooperates with p53 mutation to drive malignancy [LSK] 7 samples shares cooperates, progenitor
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.