GEO series

Histone Variant H1.0 Regulates Terminal Erythroid Differentiation via Phase Separation-Mediated Chromatin Organization

GSE314081 Homo sapiens (human) RNA-seq (gene expression) 18 samples Submitted 2026/06/27 Platform GPL24676

At a glance

RNA-seq (gene expression) · human · 18 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: Homo sapiens (human)
Samples: 18 samples: 18 samples, each with a distinct title — no replicated groupsGroups 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.

Summary (written by the submitters)

Mammalian erythroblasts require enucleation to form mature red blood cells during terminal stage of erythroid differentiation, in which chromatin and nuclear condensation are considered prerequisites for enucleation. Linker histone H1 is a key player in heterochromatin condensation and silencing, but it is unclear how H1 compresses chromatin and regulates erythroid differentiation.

Read the full summary ↓

Here, we demonstrated that H1.0 was significantly overexpressed in terminal erythropoiesis among all histone H1 variants, whose deletion resulted in abnormal chromatin and nuclear condensation, impaired enucleation and increased apoptosis in terminal erythropoiesis. In addition, we established that H1.0 deficiency decompressed chromatin by increasing chromatin long-range and proximal interactions and remodeling topologically associating domain (TAD) boundaries of the genome. We demonstrated that H1.0 compressed chromatin via binding to nucleosomal DNA to form a phase separation, which required the C/N-terminal intrinsically disordered region (C-IDR) and G domain (GD). A truncated H1.0 lacking the C-IDR failed to compress chromatin in H1.0-deleted erythroid cells, whereas a truncated H1.0 lacking the N-IDR partially rescues this defect. In conclusion, our findings suggest that H1.0 remodels chromatin high-order structure and regulates erythropoiesis through a phase separation mechanism, providing novel insights into the regulation of chromatin condensation and enucleation in terminal erythropoiesis.

This dataset

Open GSE314081 in finder → Find more human RNA-seq datasets →

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 GSE314081_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: 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 PRJNA1390068 and SRA study SRP655955. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

18 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 18 sample titles: 18 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.

Samples in this study

GSM9381269 Erythroid cells, shH1-0 rep1, Day15
GSM9381270 Erythroid cells, shH1-0 rep2, Day15
GSM9381271 Erythroid cells, shH1-0 rep3, Day15
GSM9381272 Erythroid cells, shLuci rep1, Day15
GSM9381273 Erythroid cells, shLuci rep2, Day15
GSM9381274 Erythroid cells, shLuci rep3, Day15
GSM9381275 HUDEP2 cells, H1-0-ΔC rep1, Day8
GSM9381276 HUDEP2 cells, H1-0-ΔC rep2, Day8
GSM9381277 HUDEP2 cells, H1-0-ΔC rep3, Day8
GSM9381278 HUDEP2 cells, H1-0-ΔN rep1, Day8
GSM9381279 HUDEP2 cells, H1-0-ΔN rep2, Day8
GSM9381280 HUDEP2 cells, H1-0-ΔN rep3, Day8
GSM9381281 HUDEP2 cells, sgControl rep1, Day8
GSM9381282 HUDEP2 cells, sgControl rep2, Day8
GSM9381283 HUDEP2 cells, sgControl rep3, Day8
GSM9381284 HUDEP2 cells, sgH1-0 rep1, Day8
GSM9381285 HUDEP2 cells, sgH1-0 rep2, Day8
GSM9381286 HUDEP2 cells, sgH1-0 rep3, Day8

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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.