Epigenetic landscape, key transcriptional regulators, and in vivo identification of human Tr1 cells
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 72 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
- 72 samples: 17 conditions, mostly in duplicateGroups 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
- Epigenetic landscape, key transcriptional regulators, and in vivo identification of human Tr1 cellsScience advances · 2026
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 GSE333877_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 PRJNA1473142 and SRA study SRP704183. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 2 samples read as cases, 4 as controls.
How we read this: 17 replicated groups read from 72 sample titles; they account for 61 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.
- GSM8132840 GEX, Patient month 9
- GSM8132841 ATAC, Patient month 9
- GSM8132842 GEX, healthy donor BC0202 GEX, healthy donor BC
- GSM8132843 ATAC, healthy donor BC0202
- GSM8132844 GEX, healthy donor BC5087 GEX, healthy donor BC
- GSM8132845 ATAC, healthy donorBC5087
- GSM9766346 Tr1_d4147 Tr1_d
- GSM9766347 Tr1_d0587 Tr1_d
- GSM9766348 Tr1_d0008 Tr1_d
- GSM9766349 Teff_d4147 Teff_d
- GSM9766350 Teff_d0008 Teff_d
- GSM9766351 DN_d4147 DN_d
- GSM9766352 DN_d0587 DN_d
- GSM9766353 DN_d0008 DN_d
- GSM9766354 CD4_d4147 CD4_d
- GSM9766355 CD4_d0587 CD4_d
- GSM9766356 CD4_d0008 CD4_d
- GSM9776300 GE_SampleB
- GSM9776301 GE_SampleC
- GSM9776302 VDJ_SampleB
- GSM9776303 VDJ_SampleC
- GSM9776304 ATAC_Day0_d1 ATAC_Day0_d
- GSM9776305 ATAC_Day0_d2 ATAC_Day0_d
- GSM9776306 ATAC_Day3_d1 ATAC_Day3_d
- GSM9776307 ATAC_Day3_d2 ATAC_Day3_d
- GSM9776308 ATAC_Day6_d1 ATAC_Day6_d
- GSM9776309 ATAC_Day6_d2 ATAC_Day6_d
- GSM9776310 ATAC_Day9_d1 ATAC_Day9_d
- GSM9776311 ATAC_Day9_d2 ATAC_Day9_d
- GSM9776312 GE_Day0_d1 GE_Day0_d
- GSM9776313 GE_Day0_d2 GE_Day0_d
- GSM9776314 GE_Day3_d1 GE_Day3_d
- GSM9776315 GE_Day3_d2 GE_Day3_d
- GSM9776316 GE_Day6_d1 GE_Day6_d
- GSM9776317 GE_Day6_d2 GE_Day6_d
- GSM9776318 GE_Day9_d1 GE_Day9_d
- GSM9776319 GE_Day9_d2 GE_Day9_d
- GSM9776320 GE_BC1042
- GSM9776321 ATAC_BC1042
- GSM9776384 Tr1_d4147 Tr1_d
+ 32 more — browse all 72 samples with per-sample file links →
- GSE261033 Epigenetic landscape, key transcriptional regulators, and in vivo identification of human Tr1 cells [scMultiome] 28 samples shares epigenetic, regulators, vivo
- GSE299348 Single-cell epigenetic, transcriptional, protein, and TCR states of HIV-1-infected cells in gut 117 samples shares epigenetic
- GSE270506 Epigenetic heterogeneity and state-specific transcriptional programs determine differential drug response in osteosarcoma. 279 samples shares epigenetic
- GSE291147 Mapping convergent regulators of melanoma drug resistance by PerturbFate 320 samples shares regulators
- GSE309515 Independent cell type-specific expression and distal regulation of the 9p21 locus cell cycle regulators: p14ARF, p16INK4A, p15INK4A, and ANRIL 72 samples shares regulators
- GSE256354 Hypomethylating agents induce epigenetic and transcriptional heterogeneity with implications for acute myeloid leukemia cell self-renewal 2765 samples shares epigenetic
- GSE306915 Integrated epigenetic and genetic programming of primary human T cells [RNA-seq] 77 samples shares epigenetic
- GSE306993 Transcriptional and epigenetic targets of MEF2C in human microglia contribute to cellular functions related to autism risk and age-related disease. 76 samples shares epigenetic
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.