Assessment of chromatin state changes during human cortical interneuron development
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 91 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
- 91 samples: 25 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.
- Paper
- Defining cis-regulatory elements and transcription factors that control human cortical interneuron developmentiScience · 2024
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 GSE239400_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 PRJNA999225 and SRA study SRP451778. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 91 samples.
How we read this: 25 replicated groups read from 91 sample titles; they account for 91 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.
- GSM7664155 H9 WT D0 H3K27ac Replicate 1 H9 WT D0 H3K27ac
- GSM7664156 H9 WT D0 H3K27ac Replicate 2 H9 WT D0 H3K27ac
- GSM7664157 H9 WT D0 H3K27ac Replicate 3 H9 WT D0 H3K27ac
- GSM7664158 H9 WT D0 H3K27ac Replicate 4 H9 WT D0 H3K27ac
- GSM7664159 H9 WT D0 H3K27ac Replicate 5 H9 WT D0 H3K27ac
- GSM7664160 H9 WT D0 H3K27me3 Replicate 1 H9 WT D0 H3K27me3
- GSM7664161 H9 WT D0 H3K27me3 Replicate 2 H9 WT D0 H3K27me3
- GSM7664162 H9 WT D0 H3K27me3 Replicate 3 H9 WT D0 H3K27me3
- GSM7664163 H9 WT D0 H3K27me3 Replicate 4 H9 WT D0 H3K27me3
- GSM7664164 H9 WT D0 H3K27me3 Replicate 5 H9 WT D0 H3K27me3
- GSM7664165 H9 WT D0 H3K4me3 Replicate 1 H9 WT D0 H3K4me3
- GSM7664166 H9 WT D0 H3K4me3 Replicate 2 H9 WT D0 H3K4me3
- GSM7664167 H9 WT D0 H3K4me3 Replicate 3 H9 WT D0 H3K4me3
- GSM7664168 H9 WT D0 H3K4me3 Replicate 4 H9 WT D0 H3K4me3
- GSM7664169 H9 WT D0 H3K4me3 Replicate 5 H9 WT D0 H3K4me3
- GSM7664170 H9 WT D0 H3K4me3 Replicate 6 H9 WT D0 H3K4me3
- GSM7664171 H9 WT D0 H3K9me3 Replicate 1 H9 WT D0 H3K9me3
- GSM7664172 H9 WT D0 H3K9me3 Replicate 2 H9 WT D0 H3K9me3
- GSM7664173 H9 WT D0 H3K9me3 Replicate 3 H9 WT D0 H3K9me3
- GSM7664174 H9 WT D0 IgG Replicate 1 H9 WT D0 IgG
- GSM7664175 H9 WT D0 IgG Replicate 2 H9 WT D0 IgG
- GSM7664176 H9 WT D0 IgG Replicate 3 H9 WT D0 IgG
- GSM7664177 WT D15-V H3K27ac Replicate 1 WT D15-V H3K27ac
- GSM7664178 WT D15-V H3K27ac Replicate 2 WT D15-V H3K27ac
- GSM7664179 WT D15-V H3K27ac Replicate 3 WT D15-V H3K27ac
- GSM7664180 WT D15-V H3K27me3 Replicate 1 WT D15-V H3K27me3
- GSM7664181 WT D15-V H3K27me3 Replicate 2 WT D15-V H3K27me3
- GSM7664182 WT D15-V H3K27me3 Replicate 3 WT D15-V H3K27me3
- GSM7664183 WT D15-V H3K4me3 Replicate 1 WT D15-V H3K4me3
- GSM7664184 WT D15-V H3K4me3 Replicate 2 WT D15-V H3K4me3
- GSM7664185 WT D15-V H3K4me3 Replicate 3 WT D15-V H3K4me3
- GSM7664186 WT D15-V H3K4me3 Replicate 4 WT D15-V H3K4me3
- GSM7664187 WT D15-V H3K9me3 Replicate 1 WT D15-V H3K9me3
- GSM7664188 WT D15-V H3K9me3 Replicate 2 WT D15-V H3K9me3
- GSM7664189 WT D15-V H3K9me3 Replicate 3 WT D15-V H3K9me3
- GSM7664190 WT D15-V IgG Replicate 1 WT D15-V IgG
- GSM7664191 WT D15-V IgG Replicate 2 WT D15-V IgG
- GSM7664192 WT D15-V IgG Replicate 3 WT D15-V IgG
- GSM7664193 WT D15-D H3K27ac Replicate 1 WT D15-D H3K27ac
- GSM7664194 WT D15-D H3K27ac Replicate 2 WT D15-D H3K27ac
+ 51 more — browse all 91 samples with per-sample file links →
- GSE142751 Genome-wide maps of chromatin state in 142 cancer cell lines [cell line] 855 samples shares chromatin, state
- GSE327821 Single-molecule, single-cell profiling of linked chromatin states [Single_cell_CoCUT&Tag] 200 samples shares chromatin, state
- GSE327819 Single-molecule, single-cell profiling of linked chromatin states [Bulk_CoCUT&Tag] 35 samples shares chromatin, state
- GSE288843 Multiomic assessments of LNCaP and derived cell strains reveal determinants of prostate cancer pathobiology (ATAC-Seq) 30 samples shares assessment, state
- GSE314776 Decoding 3D chromatin architecture reveals distinct enhancer classes underlying hierarchical gene regulation in prostate cancer [ChIP-Seq] 24 samples shares chromatin, state
- GSE271175 Genome-wide maps of chromatin state in 142 cancer cell lines [patient] 22 samples shares chromatin, state
- GSE270126 Divergent medulloblastoma chromatin states disclose KDM2B as a selective dependency. 219 samples shares chromatin, state
- GSE270125 Divergent medulloblastoma chromatin states disclose KDM2B as a selective dependency [CUT&Run] 169 samples shares chromatin, state
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.