Tissue-resident memory T cells- iPSC-cardiomyocyte co-cultures
RNA-seq (gene expression) · human · 16 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
- Homo sapiens (human)
- Samples
- 16 samples: 5 × CD4_TRM vs 4 × CD4_nonTRM vs 4 × CD8_TRM vs 3 × CD8_nonTRMGroups 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
- Tissue-resident memory T cells in epicardial adipose tissue comprise transcriptionally distinct subsets that are modulated in atrial fibrillationNature cardiovascular research · 2024
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 GSE256520_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 PRJNA1079821 and SRA study SRP491446. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 16 samples.
How we read this: 4 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8103227 CD4_nonTRM_1 CD4_nonTRM
- GSM8103229 CD4_nonTRM_2 CD4_nonTRM
- GSM8103232 CD4_nonTRM_3 CD4_nonTRM
- GSM8103234 CD4_nonTRM_4 CD4_nonTRM
- GSM8103236 CD4_TRM_1 CD4_TRM
- GSM8103238 CD4_TRM_2 CD4_TRM
- GSM8103240 CD4_TRM_3 CD4_TRM
- GSM8103242 CD4_TRM_4 CD4_TRM
- GSM8103244 CD4_TRM_5 CD4_TRM
- GSM8103247 CD8_nonTRM_1 CD8_nonTRM
- GSM8103249 CD8_nonTRM_2 CD8_nonTRM
- GSM8103251 CD8_nonTRM_3 CD8_nonTRM
- GSM8103253 CD8_TRM_1 CD8_TRM
- GSM8103255 CD8_TRM_2 CD8_TRM
- GSM8103257 CD8_TRM_3 CD8_TRM
- GSM8103259 CD8_TRM_4 CD8_TRM
- GSE305372 Human lungs maintain tissue-resident memory T cells against a broad spectrum of pathogens. 91 samples shares tissue-resident, memory
- GSE247264 Single-cell analysis reveals clonal expansions of pro-inflammatory tissue-resident memory Th17 cells in Crohn's disease 22 samples shares tissue-resident, memory
- GSE270533 Pathogen-induced tissue-resident memory TH17 (TRM17) cells amplify autoimmune kidney disease 18 samples shares tissue-resident, memory
- GSE335819 Single-Cell RNA sequencing reveals clonally-expanded CD4+ tissue-resident memory T cells in Histidyl-tRNA Synthetase-induced myositis [1] 16 samples shares tissue-resident, memory
- GSE252724 Tissue-resident memory T cells drive CD103-dependent salivary gland inflammatory infiltration in primary Sjogren's syndrome 10 samples shares tissue-resident, memory
- GSE301378 Single-cell RNA-seq and TCR profiling of tissue-resident memory T cells in the fallopian tube and matched ovarian cancer samples 32 samples shares tissue-resident, memory
- GSE284015 GZMK-expressing tissue-resident memory CD8+ T cells mediate human intestinal acute graft-versus-host disease 26 samples shares tissue-resident, memory
- GSE271896 Deep longitudinal immune profiling reveals reprogramming of memory T cells that links to B cell dysregulation with age 868 samples shares memory
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.