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A Tetramer of BCL11A is Required for Stable Protein Production and Fetal Hemoglobin Silencing

GSE263968 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 92 samples Submitted 2025/04/04 Platform GPL24676Platform GPL18573
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 92 samples

What it is
ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
Organism
Homo sapiens (human)
Samples
92 samples: 30 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.
Summary (written by the submitters)
Down-regulation of BCL11A protein reverses the fetal (HbF, a2g2) to adult (HbA, a2β2) hemoglobin switch and is exploited in gene-based therapy for hemoglobin disorders. Due to reliance on ex vivo cell manipulation and marrow transplant, such therapies cannot lessen disease burden. To develop novel small molecule approaches, we interrogated the state of BCL11A protein in erythroid cells.
Read the full summary ↓
We report that tetramer formation mediated by a single zinc-finger (ZnF0) is required for production of steady-state protein. Beyond its role in protein stability, the tetramer state is necessary for g-globin gene repression, as an engineered monomer fails to engage a critical corepressor complex. These aspects of BCL11A protein production identify tetramer formation as a vulnerability for HbF silencing, and provide opportunities for drug discovery.
This dataset
Open GSE263968 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 GSE263968_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.

Also filed as BioProject PRJNA1100486 and SRA study SRP501823. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
30 conditions, mostly in triplicate
atac_HDP2_Day7_BCL11A_KO ×3 atac_HDP2_Day7_delN ×3 atac_HDP2_Day7_WT ×3 atac_HDP2_Day0_delZnF01_clone2 ×3 atac_HDP2_Day7_delZnF1 ×3 atac_HDP2_Day7_delZnF01_clone1 ×3 atac_HDP2_Day7_delZnF01_clone2 ×3 atac_HDP2_Day0_delZnF1 ×3 +35 more

Supports a between-group comparison across 79 samples.

How we read this: 30 replicated groups read from 92 sample titles; they account for 79 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.

Samples in this study

+ 52 more — browse all 92 samples with per-sample file links →

Datasets on a similar topic

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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.