Mis-splicing of mitotic regulators sensitizes SF3B1-mutated human HSCs to CHK1 inhibition [RNA-seq]
Single-cell RNA-seq · human · 10 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
- 10 samples: 8 distinct titles, 2 of them repeatedGroups 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
- Mis-splicing of Mitotic Regulators Sensitizes SF3B1-Mutated Human HSCs to CHK1 InhibitionBlood cancer discovery · 2024
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 GSE263299_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 PRJNA1096661 and SRA study SRP499974. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 3 samples read as cases, 5 as controls.
How we read this: Read from 10 sample titles: 8 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.
- GSM8189304 CB CD34+ HSPCs, AAVS1 control
- GSM8189305 CB CD34+ HSPCs, SF3B1 mutant
- GSM8189306 PB CD34+ HSPCs, AAVS1 control
- GSM8189307 PB CD34+ HSPCs, SF3B1 mutant
- GSM8189308 PB CD34+ HSPCs, AAVS1 control, SMARTseq
- GSM8189309 PB CD34+ HSPCs, SF3B1 mutant, , SMARTseq
- GSM8189310 K562 WT replicate 1
- GSM8189311 K562 WT replicate 2
- GSM8189312 K562 MUT replicate 1
- GSM8189313 K562 MUT replicate 2
- GSE263300 Mis-splicing of mitotic regulators sensitizes SF3B1-mutated human HSCs to CHK1 inhibition [scRNA-seq] 2 samples shares chk1, sf3b1-mutated, mis-splicing, regulators, sensitizes, inhibition, mitotic, rna-seq
- GSE310927 PRMT5 Inhibition Triggers Functional ATM Deficiency and Sensitizes Pancreatic Cancer to CHK1 Blockade 36 samples shares chk1, sensitizes, inhibition
- GSE318655 TRRAP enables MMB-dependent mitotic transcription and determines sensitivity to CHK1 inhibition 25 samples shares chk1, inhibition, mitotic
- GSE280581 Intragenic Epigenetic Deregulation by IDH2 Mutations Synergizes with SRSF2 Mutations Causing Mis-splicing of Key Transcriptional Regulators [RNA-seq] 20 samples shares mis-splicing, regulators, rna-seq
- GSE294750 Synergistic Inhibition of CHK1 and MUS81 to target replicative stress in high-risk neuroblastoma 20 samples shares chk1, inhibition
- GSE286402 Resistance to BRAF inhibitors drives melanoma sensitivity to Chk1 inhibition 18 samples shares chk1, inhibition
- GSE290282 Large-scale tethered screen of RNA-binding proteins reveals novel regulators of poly(A) site selection [RNA-Seq] 92 samples shares regulators, rna-seq
- GSE279032 Genome-wide CRISPR screen identifies Menin and SUZ12 as regulators of human developmental timing [RNA-seq] 60 samples shares regulators, rna-seq
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.