RNA sequestration in P-bodies sustains myeloid leukemia [HSPC_RNAseq]
RNA-seq (gene expression) · mouse · 24 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
- 24 samples: 8 conditions, mostly in triplicateGroups 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
- RNA sequestration in P-bodies sustains myeloid leukaemiaNature cell biology · 2024
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 GSE274860_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 PRJNA1148202 and SRA study SRP526421. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 8 replicated groups read from 24 sample titles; they account for 24 of them. 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.
- GSM8459525 WT HSC_1 WT HSC
- GSM8459526 WT HSC_2 WT HSC
- GSM8459527 WT HSC_3 WT HSC
- GSM8459528 WT MPP2_1 WT MPP2
- GSM8459529 WT MPP2_2 WT MPP2
- GSM8459530 WT MPP2_3 WT MPP2
- GSM8459531 WT MPP1_1 WT MPP1
- GSM8459532 WT MPP1_2 WT MPP1
- GSM8459533 WT MPP1_3 WT MPP1
- GSM8459534 WT MPP4_1 WT MPP4
- GSM8459535 WT MPP4_2 WT MPP4
- GSM8459536 WT MPP4_3 WT MPP4
- GSM8459537 KO HSC_1 KO HSC
- GSM8459538 KO HSC_2 KO HSC
- GSM8459539 KO HSC_3 KO HSC
- GSM8459540 KO MPP2_1 KO MPP2
- GSM8459541 KO MPP2_2 KO MPP2
- GSM8459542 KO MPP2_3 KO MPP2
- GSM8459543 KO MPP1_1 KO MPP1
- GSM8459544 KO MPP1_2 KO MPP1
- GSM8459545 KO MPP1_3 KO MPP1
- GSM8459546 KO MPP4_1 KO MPP4
- GSM8459547 KO MPP4_2 KO MPP4
- GSM8459548 KO MPP4_3 KO MPP4
- GSE249396 Bone marrow HSPCs differentiate into myeloid cells in depression 6 samples shares hspc, myeloid
- GSE281970 Single cell analysis reveals the myeloid-biased hematopoiesis and leukemic evolution programs initiated by Brd4 in HSPCs of mice with disuse osteoporosis 2 samples shares hspc, myeloid
- GSE311388 Nynrin Sustains Leukemia Stem Cell Viability via TXNIP Destabilization to Maintain Redox Homeostasis and Confer Venetoclax Resistance 8 samples shares sustains, leukemia
- GSE309284 Phosphorylated DEK sustains leukemia stem cells by enabling PBX3-driven transcriptional reprogramming [CUT&Tag] 19 samples shares sustains, leukemia
- GSE36348 The histone demethylase KDM1A sustains the oncogenic potential of MLL-AF9 leukemia stem cells 15 samples shares sustains, leukemia
- GSE36346 The histone demethylase KDM1A sustains the oncogenic potential of MLL-AF9 leukemia stem cells (ChIP-Seq data) 9 samples shares sustains, leukemia
- GSE309177 Phosphorylated DEK sustains leukemia stem cells by enabling PBX3-driven transcriptional reprogramming [ATAC-seq] 8 samples shares sustains, leukemia
- GSE36347 The histone demethylase KDM1A sustains the oncogenic potential of MLL-AF9 leukemia stem cells (expression data) 6 samples shares sustains, 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.