FOXO1 enhances CAR T cell stemness, metabolic fitness and efficacy [human_FOXO1OE_stimulation/rest_RNAseq]
RNA-seq (gene expression) · human · 18 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
- 18 samples: 6 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
- FOXO1 enhances CAR T cell stemness, metabolic fitness and efficacyNature · 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 GSE263257_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 PRJNA1096359 and SRA study SRP499842. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8188705 control_non-stimulated_1 control_non-stimulated
- GSM8188706 control_non-stimulated_2 control_non-stimulated
- GSM8188707 control_non-stimulated_3 control_non-stimulated
- GSM8188708 control_stimulated_1 control_stimulated
- GSM8188709 control_stimulated_2 control_stimulated
- GSM8188710 control_stimulated_3 control_stimulated
- GSM8188711 control_stimulated&rest_1 control_stimulated&rest
- GSM8188712 control_stimulated&rest_2 control_stimulated&rest
- GSM8188713 control_stimulated&rest_3 control_stimulated&rest
- GSM8188714 FOXO1_non-stimulated_1 FOXO1_non-stimulated
- GSM8188715 FOXO1_non-stimulated_2 FOXO1_non-stimulated
- GSM8188716 FOXO1_non-stimulated_3 FOXO1_non-stimulated
- GSM8188717 FOXO1_stimulated_1 FOXO1_stimulated
- GSM8188718 FOXO1_stimulated_2 FOXO1_stimulated
- GSM8188719 FOXO1_stimulated_3 FOXO1_stimulated
- GSM8188720 FOXO1_stimulated&rest_1 FOXO1_stimulated&rest
- GSM8188721 FOXO1_stimulated&rest_2 FOXO1_stimulated&rest
- GSM8188722 FOXO1_stimulated&rest_3 FOXO1_stimulated&rest
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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.