Differential regulation by CD47 and thrombospondin-1 of extramedullary erythropoiesis in mouse spleen
RNA-seq (gene expression) · mouse · 17 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
- 17 samples: 8 × S vs 3 × Wild Type vs 3 × CD47 Knockout vs 3 × TSP1 KnockoutGroups 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
- Differential regulation by CD47 and thrombospondin-1 of extramedullary erythropoiesis in mouse spleeneLife · 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 GSE239430_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 PRJNA999269 and SRA study SRP451794. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 6 samples read as cases, 3 as controls.
How we read this: 4 replicated groups read from 17 sample titles; they account for 17 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.
- GSM7664765 S40 S
- GSM7664766 S39 S
- GSM7664767 S38 S
- GSM7664769 S37 S
- GSM7664770 S36 S
- GSM7664771 S35 S
- GSM7664772 S34 S
- GSM7664773 S33 S
- GSM7664893 Wild Type Replicate 1 Wild Type
- GSM7664894 Wild Type Replicate 2 Wild Type
- GSM7664895 Wild Type Replicate 3 Wild Type
- GSM7664896 CD47 Knockout Replicate 1 CD47 Knockout
- GSM7664897 CD47 Knockout Replicate 2 CD47 Knockout
- GSM7664898 CD47 Knockout Replicate 3 CD47 Knockout
- GSM7664899 TSP1 Knockout Replicate 1 TSP1 Knockout
- GSM7664900 TSP1 Knockout Replicate 2 TSP1 Knockout
- GSM7664901 TSP1 Knockout Replicate 3 TSP1 Knockout
- GSE239427 Differential regulation by CD47 and thrombospondin-1 of extramedullary erythropoiesis in mouse spleen (scRNA-Seq) 9 samples shares cd47, thrombospondin-1, extramedullary, erythropoiesis, differential, spleen
- GSE239424 Differential regulation by CD47 and thrombospondin-1 of extramedullary erythropoiesis in mouse spleen (Bulk RNA-Seq) 8 samples shares cd47, thrombospondin-1, extramedullary, erythropoiesis, differential, spleen
- GSE319205 Thrombospondin-1:CD47 signaling contributes to the development of T cell exhaustion in cancer [scRNA_CD172KO] 4 samples shares cd47, thrombospondin-1
- GSE303017 Thrombospondin-1:CD47 signaling contributes to the development of T cell exhaustion in cancer. 2 samples shares cd47, thrombospondin-1
- GSE303291 Thrombospondin-1:CD47 signaling contributes to the development of T cell exhaustion in cancer II 2 samples shares cd47, thrombospondin-1
- GSE249739 Hemolytic stress leads to expansion of erythropoiesis in the spleen 4 samples shares erythropoiesis, spleen
- GSE288200 A rewired myeloid niche in spleen establishes stress erythropoiesis 9 samples shares erythropoiesis, spleen
- GSE226649 The immune landscape of the “deregulated host response” in sepsis: newly emerging MDSCs with high expression of CD47 leads to B cell suppression via App-CD74 signaling 64 samples shares cd47
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.