GEO series

RACK1 maintains mouse hematopoietic stem cells by directly binding to and stabilizing LDB1 [scRNA-Seq]

GSE315109 Mus musculus (mouse) Single-cell RNA-seq 2 samples Submitted 2026/07/30 Platform GPL21273

At a glance

Single-cell RNA-seq · mouse · 2 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
Organism: Mus musculus (mouse)
Samples: 2 samples
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.

Summary (written by the submitters)

Hematopoietic stem cells (HSCs), with the capability of self-renewal and all blood lineages reconstruction, serve a crucial role in maintaining steady-state hematopoiesis within bone marrow during adulthood. The adaptor protein receptor for activated C kinase 1 (RACK1) has been implicated in the regulation of various transcription factors and signaling pathways by modulating their activation and/or stability.

Read the full summary ↓

However, the specific role of RACK1 in the transcriptional control of HSC fates has not been previously elucidated. Here, we reported that RACK1 is enriched in adult mouse hematopoietic progenitors. Adulthood Rack1 deletion in IFN-I-responsive cells leads to rapid and profound hematopoietic failure and HSC loss. Furthermore, prenatal deletion of Rack1 in hematopoietic cells results in reduced and defective HSCs in the fetal liver. Such phenotypes result from cell-intrinsic defects with enhanced apoptosis of HSCs. Single-cell RNA sequencing indicates that adulthood Rack1 deletion in IFN-I-responsive cells leads to aberrant lineage-geneset-scores of transcriptional HSCs and the emergence of HSC-like cells. Mechanistically, RACK1 prevents HSC loss through maintaining the protein level of LDB1. The direct interaction between RACK1 and LDB1 stabilizes LDB1 through suppressing its ubiquitination and subsequent degradation.

This dataset

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Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE315109_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

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.

Raw reads on ENA ↗

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 PRJNA1395001 and SRA study SRP658568. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Samples in this study

The sample list for this study is not cached yet. Press Load samples and it will be fetched from NCBI.

+ 2 more — browse all 2 samples with per-sample file links →

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