The SAMD1 transcription factor coordinates hematopoietic lineage differentiation and H3K4 methylation status [CUT&RUN]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 22 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
- 22 samples: 22 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.
- Paper
- The SAMD1 transcription factor coordinates hematopoietic lineage differentiation and H3K4 methylation statusBlood advances · 2025
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 GSE280393_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1178302 and SRA study SRP541445. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 22 sample titles: 22 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.
- GSM8596661 HUDEP2, SAMD1, ctrl1, CUT&RUN
- GSM8596662 HUDEP2, SAMD1, ctrl2, CUT&RUN
- GSM8596663 HUDEP2, SAMD1, ko1, CUT&RUN
- GSM8596664 HUDEP2, SAMD1, ko2, CUT&RUN
- GSM8596665 HUDEP2, LSD1, ctrl1, CUT&RUN
- GSM8596666 HUDEP2, LSD1, ctrl2, CUT&RUN
- GSM8596667 HUDEP2, LSD1, ko1, CUT&RUN
- GSM8596668 HUDEP2, LSD1, ko2, CUT&RUN
- GSM8596669 HUDEP2, H3K4me2, ctrl1, CUT&RUN
- GSM8596670 HUDEP2, H3K4me2, ctrl2, CUT&RUN
- GSM8596671 HUDEP2, H3K4me2, ko1, CUT&RUN
- GSM8596672 HUDEP2, H3K4me2, ko2, CUT&RUN
- GSM8596673 HUDEP2, H3K4me3, ctrl1, CUT&RUN
- GSM8596674 HUDEP2, H3K4me3, ctrl2, CUT&RUN
- GSM8596675 HUDEP2, H3K4me3, ko1, CUT&RUN
- GSM8596676 HUDEP2, H3K4me3, ko2, CUT&RUN
- GSM8596677 HUDEP2, IgG, ctrl1,CUT&RUN
- GSM8596678 HUDEP2, IgG, ctrl2, CUT&RUN
- GSM8596679 HUDEP2, IgG, ko1, CUT&RUN
- GSM8596680 HUDEP2, IgG, ko2, CUT&RUN
- GSM8596681 HUDEP2, H3K27me3, ctrl, CUT&RUN
- GSM8596682 HUDEP2, H3K27me3, ko, CUT&RUN
- GSE267470 Dual targeting of processive transcription for Myc-driven circuitry in medulloblastoma [CUT&RUN] 12 samples shares cut, run, transcription
- GSE270503 Epigenetic heterogeneity and state-specific transcriptional programs determine differential drug response in osteosarcoma [Cut&Run] 56 samples shares cut, run, transcription
- GSE339365 Genome-wide H3K4me3 profiling of circulating immune cells reveals dynamic epigenetic reprogramming during acute critical COVID-19 120 samples shares h3k4, cut
- GSE303343 A unified network systems approach uncovers a core program underlying T follicular helper cell differentiation [CUT&RUN] 48 samples shares cut, run
- GSE287902 BPTF regulstes androgen receptor activity by enhancing chromatin accessibility and stabilizing the AR-FOXA1 interaction [Cut&Run] 40 samples shares cut, run
- GSE269555 Targeting the oncohistone-ASCL1 axis disrupts plasticity and suppresses pediatric gliomas [CUT&RUN] 39 samples shares cut, run
- GSE278910 Pooled CRISPR screens with joint single-nucleus chromatin accessibility and transcriptome profiling [CUT&RUN] 30 samples shares cut, run
- GSE301512 Chromatin topology dynamics of dexamethasone-treated trabecular meshwork identifies 78 causal genes for intraocular pressure and primary open angle glaucoma [CUT&Run] 30 samples shares cut, run
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.