Effect of abrogated DNA-binding of thyroid hormone receptor alpha on the gene expression in CD25- CD4+ naive T cells and CD25+ CD4+ regulatory T cells
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 16 samples: 16 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; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
- Paper
- Lack of canonical thyroid hormone receptor α signaling changes regulatory T cell phenotype in female miceiScience · 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 GSE246289_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 PRJNA1032448 and SRA study SRP468560. 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 16 sample titles: 16 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.
- GSM7866248 CD4 TRaWT biol rep 1 [1-529490-CD4_S1]
- GSM7866249 CD4 TRaWT biol rep 2 [4-529491-CD4_S4]
- GSM7866250 CD4 TRaWT biol rep 3 [19-529517-CD4_S19]
- GSM7866251 CD4 TRaWT biol rep 4 [22-529518-CD4_S22]
- GSM7866252 CD4 TRaGS biol rep 1 [7-529492-CD4_S7]
- GSM7866253 CD4 TRaGS biol rep 2 [16-530201-CD4_S16]
- GSM7866254 CD4 TRaGS biol rep 3 [31-534845-CD4_S31]
- GSM7866255 CD4 TRaGS biol rep 4 [34-535574-CD4_S34]
- GSM7866256 Treg TRaWT biol rep 1 [3-529490-Treg_S3]
- GSM7866257 Treg TRaWT biol rep 2 [6-529491-Treg_S6]
- GSM7866258 Treg TRaWT biol rep 3 [21-529517-Treg_S21]
- GSM7866259 Treg TRaWT biol rep 4 [24-529518-Treg_S24]
- GSM7866260 Treg TRaGS biol rep 1 [9-529492-Treg_S9]
- GSM7866261 Treg TRaGS biol rep 2 [18-530201-Treg_S18]
- GSM7866262 Treg TRaGS biol rep 3 [33-534845-Treg_S33]
- GSM7866263 Treg TRaGS biol rep 4 [36-535574-Treg_S36]
- GSE291447 Targeting CD11b+ regulatory B cells via RAS/RAF/PI3K pathway inhibition augments response to immune checkpoint blockade or CD40 agonism in metastatic melanoma 60 samples shares cd4, regulatory
- GSE285527 Receptor-tethered orthogonal IL-2 enhances regulatory T cell therapy 12 samples shares regulatory, receptor
- GSE278003 Single cell RNA sequencing of CD45+ immune cells from tumor and tumor-adjacent mammary adipose tissue in a postmenopausal breast cancer model of lean, obese, and weight loss Trem2+/+ and Trem2-/- mice 92 samples shares cd4
- GSE235059 ICOSL, OX40L, and CD30L Control Persistence of Asthmatic CD4 Trm Cells 80 samples shares cd4
- GSE201228 CD4+ T cell activation in absence of WNK1 72 samples shares cd4
- GSE222996 The immune landscape of the “deregulated host response” in sepsis: newly emerging MDSCs with high expression of CD47 leads to B cell suppression via App-CD74 signaling [RNA-seq] 61 samples shares cd4
- GSE325195 Dendritic cell redundancy enables priming of anti-tumor CD4 T cells in pancreatic cancer 30 samples shares cd4
- GSE325329 Transcriptomic profiling of macrophages that phagocytosed apoptotic Treg or conventional CD4⁺ T (Tconv) cells under different polarization conditions [RNA-Seq] 28 samples shares cd4
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.