Transcriptome analysis to compare alternative splicing between control and Ahed-deficient hematopoietic stem and progenitor cells (HSPCs) [RNA-Seq]
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 6 conditions, mostly in duplicateGroups 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
- A newly identified gene Ahed plays essential roles in murine haematopoiesisNature communications · 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 GSE218518_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 PRJNA904220 and SRA study SRP409158. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 6 replicated groups read from 12 sample titles; they account for 12 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.
- GSM6749311 FL_WT1_HSC_1201 FL_WT1_HSC
- GSM6749312 FL_WT2_HSC_1201 FL_WT2_HSC
- GSM6749313 FL_WT3_HSC_1201 FL_WT3_HSC
- GSM6749314 FL_cKO1_HSC_1201 FL_cKO1_HSC
- GSM6749315 FL_cKO2_HSC_1201 FL_cKO2_HSC
- GSM6749316 FL_cKO3_HSC_1201 FL_cKO3_HSC
- GSM6749317 FL_WT1_HSC_1222 FL_WT1_HSC
- GSM6749318 FL_WT2_HSC_1222 FL_WT2_HSC
- GSM6749319 FL_WT3_HSC_1222 FL_WT3_HSC
- GSM6749320 FL_cKO1_HSC_1222 FL_cKO1_HSC
- GSM6749321 FL_cKO2_HSC_1222 FL_cKO2_HSC
- GSM6749322 FL_cKO3_HSC_1222 FL_cKO3_HSC
- GSE310548 Distinct contributions of Etv2+ and Flk1+ progenitors to endothelial, hematopoietic, and cardiac lineages [RNA-seq] 21 samples shares hematopoietic, progenitor, rna-seq
- GSE248443 RNA helicase DDX5 maintains cardiac function by regulating CamkIIδ alternative splicing [RNA-seq] 12 samples shares alternative, splicing, rna-seq
- GSE269184 Dynamic expression of Erg controls fetal-to-adult maturation of the hematopoietic system [RNA-seq] 12 samples shares hematopoietic, control, rna-seq
- GSE265909 yHSC and oHSC scRNAseq with oHSC AThi ATlo Index Sorting. Assessing the transcriptional changes associated with autophagy engagement in old hematopoietic stem cells at single cell resolution. [scRNA-Seq] 563 samples shares hematopoietic, rna-seq
- GSE328655 A high-resolution, sex-stratified atlas of transcriptional and alternative splicing dynamics in the fasting mouse liver. 80 samples shares alternative, splicing
- GSE266509 A Bcl11a-driven mechanism maintaining hematopoietic stem cell functionality gives rise to dysfunction during aging [RNA-Seq] 52 samples shares hematopoietic, rna-seq
- GSE242179 Role of the histone variant H2A.Z.1 in memory, transcription, and alternative splicing is mediated by lysine modification 40 samples shares alternative, splicing
- GSE278208 STING Mediates Increased Self-Renewal and Lineage Skewing in DNMT3A-Mutated Hematopoietic Stem/Progenitor Cells 40 samples shares hematopoietic, 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.