Early-life stress alters chromatin modifications in VTA to prime stress sensitivity
RNA-seq (gene expression) · mouse · 13 samples
- What it is
- RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
- Organism
- Mus musculus (mouse)
- Samples
- 13 samples: 5 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
- Early-life stress alters chromatin modifications in VTA to prime stress sensitivitybioRxiv : the preprint server for biology · 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 GSE324599_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.
Also filed as BioProject PRJNA1435924 and SRA study SRP682981. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 10 samples.
How we read this: 5 replicated groups read from 13 sample titles; they account for 10 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.
- GSM9580024 VTA_gfp_ctrl_f_9230
- GSM9580025 VTA_gfp_ctrl_m_9224 VTA_gfp_ctrl_m
- GSM9580026 VTA_gfp_ctrl_m_9242 VTA_gfp_ctrl_m
- GSM9580027 VTA_gfp_sd_f_9237 VTA_gfp_sd_f
- GSM9580028 VTA_gfp_sd_f_9252 VTA_gfp_sd_f
- GSM9580029 VTA_gfp_sd_m_9226 VTA_gfp_sd_m
- GSM9580030 VTA_gfp_sd_m_9240 VTA_gfp_sd_m
- GSM9580031 VTA_setd7_ctrl_f_9238 VTA_setd7_ctrl_f
- GSM9580032 VTA_setd7_ctrl_f_9247 VTA_setd7_ctrl_f
- GSM9580033 VTA_setd7_ctrl_m_9225 VTA_setd7_ctrl_m
- GSM9580034 VTA_setd7_ctrl_m_9243 VTA_setd7_ctrl_m
- GSM9580035 VTA_setd7_sd_f_9248
- GSM9580036 VTA_setd7_sd_m_9228
- GSE268468 Persistent open chromatin state in early-life stress-activated cells of the VTA 10 samples shares vta, early-life, chromatin, stress
- GSE303538 Stress resilience is associated with transcriptional remodeling in the VTA 34 samples shares vta, stress
- GSE276173 STAT3S727 Phosphorylation in VTA Dopaminergic Neurons Competed by O-GlcNAcylation Regulates Acute Stress-Induced Anxiety and Reward Inhibition [RNA-Seq stress] 10 samples shares vta, stress
- GSE219229 Unbiased profiling of clinical kinase inhibitors’ effects in activated macrophages using chromatin modifications as high-content readouts [RNA-Seq] 180 samples shares modifications, chromatin
- GSE218968 Unbiased profiling of clinical kinase inhibitors’ effects in activated macrophages using chromatin modifications as high-content readouts [Chromatin associated RNA-seq] 27 samples shares modifications, chromatin
- GSE219240 Unbiased profiling of clinical kinase inhibitors’ effects in activated macrophages using chromatin modifications as high-content readouts 789 samples shares modifications, chromatin
- GSE219239 Unbiased profiling of clinical kinase inhibitors’ effects in activated macrophages using chromatin modifications as high-content readouts [ChIP-Seq] 564 samples shares modifications, chromatin
- GSE223050 The activity of early-life gene regulatory elements is hijacked in aging through pervasive AP-1–linked chromatin opening 336 samples shares early-life, 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.