Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (RNA-seq - mus musculus)
RNA-seq (gene expression) · mouse · 27 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 27 samples: 27 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 GSE171815_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA720955 and SRA study SRP314258. 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 27 sample titles: 27 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.
- GSM8157789 CL999_WT
- GSM8157790 CL713_WT
- GSM8157791 BP1964_WT
- GSM8157792 CL801_WT
- GSM8157793 CL1033_BAP1
- GSM8157794 CL748_BAP1
- GSM8157795 CL750_BAP1
- GSM8157796 CL967_BAP1
- GSM8157797 CL1770_PEL
- GSM8157798 CL1707_PEL
- GSM8157799 CL993_AEL
- GSM8157800 CL666_AML
- GSM8157801 JA181_AEL
- GSM8157802 CL476_AML
- GSM8157803 CL1785_PEL
- GSM8157804 CL1782_AEL
- GSM8157805 CL1777_PEL
- GSM8157806 CL1776_AEL
- GSM8157807 CL641_AML
- GSM8157808 CL670_AML
- GSM8157809 CL1663_BAP1_HET
- GSM8157810 CL582_BAP1_HET
- GSM8157811 CL668_BAP1_HET
- GSM8157812 CL1779_p53
- GSM8157813 CL1806_p53
- GSM8157814 CL694_p53
- GSM8157815 CL711_p53
- GSE266948 Loss of BAP1 cooperates with TP53 deficiency to transform a common myelo-erythroid progenitor (scRNA-seq - mus musculus) 10 samples shares bap1, tp53, myelo-erythroid, cooperates, deficiency, progenitor, transform, musculus
- 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, musculus
- 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
- GSE121709 Role of BAP1 in pancreatic cancer (ChIP-seq Mus musculus) 14 samples shares bap1, musculus
- 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.