Multiplex Single Cell Profiling of Chromatin Accessibility by Combinatorial Cellular Indexing [ATAC-seq]
Single-cell RNA-seq · human · 6 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Samples
- 6 samples: 3 × Control ExperimentsGroups 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.
Read the full summary ↓
Direct links to NCBI, 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.
Whole study · RAW.tar
Everything the authors deposited as one archive (GSE67446_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.
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 PRJNA279961 and SRA study SRP056738. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 3 samples.
How we read this: 1 replicated groups read from 6 sample titles; they account for 3 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.
- GSM1647121 GM12878 and Patski Mixture
- GSM1647122 GM12878 and HEK293T Mixture
- GSM1647123 GM12878 and HL-60 Mixture
- GSM1647124 Control Experiments Set 1 Control Experiments
- GSM1647125 Control Experiments Set 2 Control Experiments
- GSM1647126 Control Experiments Set 3 Control Experiments
- GSE65360 Single-cell chromatin accessibility data using scATAC-seq 1632 samples shares accessibility, chromatin, atac-seq
- GSE320163 Minimizing far-extending chromatin perturbation in genome editing preserves stem cell identity [ATAC-Seq] 377 samples shares chromatin, atac-seq
- GSE261634 Mutant p53 alters chromatin accessibility in hematopoietic stem and progenitor cells. 37 samples shares accessibility, chromatin
- GSE225993 Disruption of RNAPII transcription elongation links Oncogenic splicing factor mutations to replciation stress and targetable alterations in chromatin landscape [ATAC-seq] 16 samples shares chromatin, atac-seq
- GSE338103 Linker histone H1.0 and JUNB Interaction Maintains Lineage-Specific and Age-Dependent Chromatin Architecture to Safeguard Cell Identity [ATAC-seq] 14 samples shares chromatin, atac-seq
- GSE277747 Pooled CRISPR screens with joint single-nucleus chromatin accessibility and transcriptome profiling 1 samples shares accessibility, chromatin
- GSE273644 HDAC6 Inhibition Disrupts HDAC6-P300 Interaction Reshaping the Cancer Chromatin Landscape (ATAC-Seq) 12 samples shares chromatin, atac-seq
- GSE291155 Unlocking single cell chromatin accessibility in formalin-fixed paraffin-embedded tissues by scFFPE-ATAC 8 samples shares accessibility, chromatin
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.