Fusion oncoproteins and cooperating mutations define disease phenotypes in NUP98-rearranged leukemia
Single-cell RNA-seq · human · 13 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 13 samples: 13 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
- Fusion oncoproteins and cooperating mutations define disease phenotypes in NUP98-rearranged leukemiaBlood · 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 GSE287716_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 PRJNA1214292 and SRA study SRP559242. 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 13 sample titles: 13 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.
- GSM8750258 SJAML061263_R3 (10X 3'GEX)
- GSM8750259 SJALL040121_D2 (10X 3'GEX)
- GSM8750260 SJAML031254_D5 (10X 3'GEX)
- GSM8750261 SJTALL005_D2 (10X 3'GEX)
- GSM8750262 cord blood CD34 + NUP98::KDM5A+Cas9_gRNA_AAVS_control (10X 3'GEX)
- GSM8750263 cord blood CD34 + NUP98::KDM5A+Cas9+gRNA_RB1_1 (10X 3'GEX)
- GSM8750264 cord blood CD34 + NUP98::KDM5A+Cas9+gRNA_RB1_2 (10X 3'GEX)
- GSM8750265 cord blood CD34 + NUP98::KDM5A+Cas9+gRNA_WT1_1 (10X 3'GEX)
- GSM8750266 SJAML016582_D4 (10X 3'GEX)
- GSM8750267 SJAML061252_R3 (10X 3'GEX)
- GSM8750268 SJAML015363_D7 (10X 3'GEX)
- GSM8750269 SJAML001441_D2 (10X 5'GEX)
- GSM8750270 SJAML001441_R3 (10X 5'GEX)
- GSE287297 Fusion oncoproteins and cooperating mutations define disease phenotypes in NUP98-rearranged leukemia [RNA-seq] 70 samples shares nup98-rearranged, oncoproteins, cooperating, phenotypes, mutations, leukemia, fusion, define
- GSE234552 Tracking of donor and recipient immune and leukemia phenotypes after allogeneic stem cell transplantation using mitochondrial DNA mutations. [ASAP-Seq 2] 30 samples shares phenotypes, mutations, leukemia
- GSE275725 Tracking of donor and recipient immune and leukemia phenotypes after allogeneic stem cell transplantation using mitochondrial DNA mutations. [ASAP-Seq 4] 22 samples shares phenotypes, mutations, leukemia
- GSE234555 Tracking of donor and recipient immune and leukemia phenotypes after allogeneic stem cell transplantation using mitochondrial DNA mutations. [ASAP-Seq 3] 14 samples shares phenotypes, mutations, leukemia
- GSE234556 Tracking of donor and recipient immune and leukemia phenotypes after allogeneic stem cell transplantation using mitochondrial DNA mutations. [Tapestri] 10 samples shares phenotypes, mutations, leukemia
- GSE234551 Tracking of donor and recipient immune and leukemia phenotypes after allogeneic stem cell transplantation using mitochondrial DNA mutations. [ASAP-Seq 1] 9 samples shares phenotypes, mutations, leukemia
- GSE267611 Seclidemstat blocks the transcriptional function of multiple FET-fusion oncoproteins 70 samples shares oncoproteins, fusion
- GSE251806 An integrative multiparametric approach stratifies distinct phenotypes of blast phase chronic myelomonocytic leukemia with differential maturation status and drug sensitivity profiles 49 samples shares phenotypes, leukemia
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.