The tissue-resident regulatory T cell pool is shaped by transient multi-tissue migration and a conserved residency program. Bulk RNA-Seq profiling of mouse tissue Tregs.
RNA-seq (gene expression) · mouse · 40 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
- 40 samples: 10 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
- The tissue-resident regulatory T cell pool is shaped by transient multi-tissue migration and a conserved residency programImmunity · 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 GSE265835_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 PRJNA1104296 and SRA study SRP503864. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 30 samples.
How we read this: 10 replicated groups read from 40 sample titles; they account for 30 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.
- GSM8229816 Blood_NoTreg_5
- GSM8229817 Blood_Treg_2 Blood_Treg
- GSM8229818 Blood_Treg_4 Blood_Treg
- GSM8229819 Blood_Treg_5 Blood_Treg
- GSM8229820 IEL_NoTreg_2
- GSM8229821 IEL_Treg_1 IEL_Treg
- GSM8229822 IEL_Treg_2 IEL_Treg
- GSM8229823 IEL_Treg_3 IEL_Treg
- GSM8229824 Kidney_NoTreg_6
- GSM8229825 Kidney_Treg_1 Kidney_Treg
- GSM8229826 Kidney_Treg_3 Kidney_Treg
- GSM8229827 Kidney_Treg_5 Kidney_Treg
- GSM8229828 LPL_NoTreg_3
- GSM8229829 LPL_Treg_1 LPL_Treg
- GSM8229830 LPL_Treg_2 LPL_Treg
- GSM8229831 LPL_Treg_3 LPL_Treg
- GSM8229832 Liver_NoTreg_2
- GSM8229833 Liver_Treg_1 Liver_Treg
- GSM8229834 Liver_Treg_3 Liver_Treg
- GSM8229835 Liver_Treg_4 Liver_Treg
- GSM8229836 Lung_NoTreg_5
- GSM8229837 Lung_Treg_1 Lung_Treg
- GSM8229838 Lung_Treg_5 Lung_Treg
- GSM8229839 Lung_Treg_6 Lung_Treg
- GSM8229840 LN_NoTreg_8
- GSM8229841 LN_Treg_10 LN_Treg
- GSM8229842 LN_Treg_6 LN_Treg
- GSM8229843 LN_Treg_7 LN_Treg
- GSM8229844 Pancreas_NoTreg_5
- GSM8229845 Pancreas_Treg_1 Pancreas_Treg
- GSM8229846 Pancreas_Treg_5 Pancreas_Treg
- GSM8229847 Pancreas_Treg_6 Pancreas_Treg
- GSM8229848 PP_NoTreg_2
- GSM8229849 PP_Treg_1 PP_Treg
- GSM8229850 PP_Treg_2 PP_Treg
- GSM8229851 PP_Treg_3 PP_Treg
- GSM8229852 Spleen_NoTreg_1
- GSM8229853 Spleen_Treg_2 Spleen_Treg
- GSM8229854 Spleen_Treg_3 Spleen_Treg
- GSM8229855 Spleen_Treg_4 Spleen_Treg
- GSE217662 Decoding Trp53 regulatory program with knockout cell transcriptomic landscape analyses [scRNA-seq] 247 samples shares regulatory, program
- GSE274992 Splenic fibroblasts control marginal zone B-cell movement and function via two distinct Notch2-dependent regulatory programs 119 samples shares regulatory, program
- GSE267967 Foxp3 and BATF cooperatively direct cis-regulatory programs and gene expression for functional differentiation of Treg cells [RNA-seq] 26 samples shares regulatory, program
- GSE287483 Competing dynamic gene regulatory networks involved in fibroblast reprogramming to haematopoietic progenitor cells [RNA-Seq] 12 samples shares regulatory, program
- GSE281190 Creb5 controls its own expression and directly induces the joint-interzone regulatory program [RNAseq_Prx1] 12 samples shares regulatory, program
- GSE322558 Physiologic variation in sperm miRNAs tunes embryonic gene regulatory programs and developmental outcomes 622 samples shares regulatory, program
- GSE217664 Decoding Trp53 regulatory program in various tissues and organs 404 samples shares regulatory, program
- GSE241378 Alternative splicing of a chromatin modifier alters the transcriptional regulatory programs of embryonic stem cell maintenance and neuronal differentiation. 36 samples shares regulatory, program
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.