Cell-Type-Specific Epigenetic Priming of Gene Expression in Nucleus Accumbens by Cocaine [ATAC-seq]
ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 26 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
- Mus musculus (mouse)
- Samples
- 26 samples: 6 conditions, mostly with about 4 replicates eachGroups 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
- Cell type-specific epigenetic priming of gene expression in nucleus accumbens by cocaineScience advances · 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 GSE272458_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 PRJNA1136908 and SRA study SRP520549. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 6 replicated groups read from 26 sample titles; they account for 24 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.
- GSM8403030 D1_SS_1 D1_SS
- GSM8403031 D1_SS_2 D1_SS
- GSM8403032 D2_SC_1
- GSM8403033 D2_SS_1 D2_SS
- GSM8403034 D2_SS_2 D2_SS
- GSM8403035 D2_CC_1
- GSM8403036 D1_SC_1 D1_SC
- GSM8403037 D1_SC_2 D1_SC
- GSM8403038 D1_SC_3 D1_SC
- GSM8403039 D1_SC_4 D1_SC
- GSM8403040 D1_CS_1 D1_CS
- GSM8403041 D1_CS_2 D1_CS
- GSM8403042 D1_CS_3 D1_CS
- GSM8403043 D1_CS_4 D1_CS
- GSM8403044 D1_CC_1 D1_CC
- GSM8403045 D1_CC_2 D1_CC
- GSM8403046 D1_CC_3 D1_CC
- GSM8403047 D1_CC_4 D1_CC
- GSM8403048 D2_CS_1 D2_CS
- GSM8403049 D2_CS_2 D2_CS
- GSM8403050 D2_CS_3 D2_CS
- GSM8403051 D2_CS_4 D2_CS
- GSM8403052 D2_CS_5 D2_CS
- GSM8403053 D2_CS_6 D2_CS
- GSM8403054 D2_CS_7 D2_CS
- GSM8403055 D2_CS_8 D2_CS
- GSE272369 Cell-Type-Specific Epigenetic Priming of Gene Expression in Nucleus Accumbens by Cocaine 12 samples shares cell-type-specific, epigenetic, accumbens, priming, cocaine
- GSE298001 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [ATAC-Seq] 36 samples shares epigenetic, atac-seq, priming
- GSE298002 Stage-specific Epigenetic Priming Amplifies Gene Activation During Lineage Commitment [CUT&Run] 38 samples shares epigenetic, priming
- GSE271884 GFI1-driven transcriptional and epigenetic programs maintain memory CD8+ T cell persistence [ATAC-seq]. 30 samples shares epigenetic, atac-seq
- GSE236575 Adipose tissue retains an epigenetic memory of obesity after weight loss [ATAC-seq] 22 samples shares epigenetic, atac-seq
- GSE271883 Maternal high-fat diet alters Tet-mediated epigenetic regulation during heart development [ATAC-Seq] 12 samples shares epigenetic, atac-seq
- GSE247970 Cell of origin epigenetic priming determines susceptibility to Tet2 oncogenic mutation 76 samples shares epigenetic, priming
- GSE252551 Disease-associated astrocyte epigenetic memory promotes CNS pathology [ATAC-Seq and RNA-Seq] 32 samples shares epigenetic, atac-seq
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.