CD8+ T cells are primed by cDC1 and exacerbate tau-mediated neurodegeneration
RNA-seq (gene expression) · mouse · 14 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
- 14 samples: 13 distinct titles, 1 of them repeatedGroups 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.
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 GSE311230_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 PRJNA1368838 and SRA study SRP648348. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 14 sample titles: 13 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.
- GSM9321733 FE4 KO DN
- GSM9321734 FE4 KO NeuN
- GSM9321735 FE4 KO PU1
- GSM9321736 FE4 WT DN
- GSM9321737 FE4 WT NeuN
- GSM9321738 FE4 WT PU1
- GSM9321739 TFE4 KO DN
- GSM9321740 TFE4 KO NeuN
- GSM9321741 TFE4 KO PU1
- GSM9321742 TFE4 WT DN
- GSM9321743 TFE4 WT NeuN
- GSM9321744 TFE4 WT PU1
- GSM9321745 TFE4 KO DN rep2
- GSM9321746 TFE4 KO PU1 rep2
- GSE329774 Metabolically and epigenetically reprogrammed splenic TRNP1hiCD8+ T cells exacerbate liver fibrosis 93 samples shares cd8, exacerbate
- GSE326200 Absence of Clec1a in murine cDC1s decrease IFN responses to necrotic cells 237 samples shares cdc1
- GSE337601 XCR1+ and CD11b+ migratory dendritic cells cooperate for the crosspriming of intratumoral CD8+ T cells with a tissue-resident memory phenotype [RNA-Seq] 36 samples shares cd8
- GSE331107 The transcription factor AFF3 is necessary to maintain metabolic quiescence in naïve CD8 T cells and prevent premature immune aging 30 samples shares cd8
- GSE316541 α2,6-Sialoglycan-regulated anti-tumor immunity of tumor-infiltrating CD8+ T cells in the tumor microenvironment [CD8+T] 27 samples shares cd8
- GSE261642 PLPP1-deficiency-mediated ferroptosis induced by PD-1 signaling impairs antitumor activity of intratumoral CD8+ T cells I 23 samples shares cd8
- GSE266454 AGED CD8+ T CELLS DRIVE COGNITIVE DECLINE VIA GZMK 21 samples shares cd8
- GSE290839 PD-1 regulates tumor-infiltrating CD8+ T cells in both a cell-intrinsic and cell-extrinsic fashion [scRNA-seq] 20 samples shares cd8
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.