Chromatin conformation dynamics during CD4+ Tcell activation implicates autoimmune disease associated genes and regulatory elements (HiC)
human · 6 samples
- Organism
- Homo sapiens (human)
- Samples
- 6 samples: 6 samples, each with a distinct title — no replicated groupsGroups 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.
- Paper
- Dynamic chromatin architecture identifies new autoimmune-associated enhancers for IL2 and novel genes regulating CD4+ T cell activationeLife · 2024
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 (GSE230342_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.
Also filed as BioProject PRJNA960642. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 6 sample titles: 6 distinct titles with little repetition. 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.
- GSM7220196 HiC Naïve CD4+ Tcell Unstimulated Donor ND517
- GSM7220197 HiC Naïve CD4+ Tcell Unstimulated Donor TMP442
- GSM7220198 HiC Naïve CD4+ Tcell 8hr Stimulated (TCR and CD28) Donor ND517
- GSM7220199 HiC Naïve CD4+ Tcell 8hr Stimulated (TCR and CD28) Donor TMP442
- GSM7220200 HiC Naïve CD4+ Tcell 24hr Stimulated (TCR and CD28) Donor ND517
- GSM7220201 HiC Naïve CD4+ Tcell 24hr Stimulated (TCR and CD28) Donor TMP442
- GSE242232 Autoantigen-specific CD4+ T cells acquire an exhausted phenotype and persist in human antigen-specific autoimmune diseases 928 samples shares cd4, autoimmune
- GSE282913 Gene Expression Analysis of CD4 T Cells in Autoimmune Pancreatitis: Treatment-Correlated Expression Profiles 45 samples shares cd4, autoimmune
- GSE324815 Intratumoral CD40 agonist sotigalimab in combination with pembrolizumab induces rapid activation of antigen presenting cells and drives anti-tumor responses in non-injected tumors in metastatic melanoma: Results of a phase 1/2 study 24 samples shares cd4, activation
- GSE298578 Single cell RNA profiling of blood CD4+ T cells identifies distinct helper and dysfunctional regulatory clusters in children with SLE (5' PBMC validation dataset) 14 samples shares cd4, regulatory
- GSE281238 Generalization of the sci-L3 method to achieve high-throughput linear amplification for replication template strand sequencing, genome conformation capture, and the joint profiling of RNA and chromatin accessibility 7 samples shares conformation, chromatin
- GSE277721 Genome-wide in vivo dynamics of cohesin-mediated loop extrusion and its role in transcription activation 176 samples shares activation, dynamics
- GSE298022 JNK activation dynamics drive distinct gene expression patterns over time mediated by mRNA stability 45 samples shares activation, dynamics
- GSE319709 Single-cell transcriptomics reveals etiology-specific T-cell heterogeneity in hepatocellular carcinoma and implicates regulatory 18 samples shares implicates, regulatory
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.