Wild-Type vs BTP2 Treated Th1 and Pathogenic Th17 cells_ 96h
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 12 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.
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 GSE287007_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 PRJNA1210684 and SRA study SRP557349. 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 12 sample titles: 12 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.
- GSM8736207 Th1_cells, Control, Day4, biorep1 [Control-1_Th1_S1]
- GSM8736208 pTh17_cells, Control, Day4, biorep1 [Control-1_pTh17_S7]
- GSM8736209 Th1_cells, BTP2 Treatment, Day4, biorep1 [Control-1_BTP2_Th1_S4]
- GSM8736210 pTh17_cells, BTP2 Treatment, Day4, biorep1 [Control-1_BTP2_pTh17_S10]
- GSM8736211 Th1_cells, Control, Day4, biorep1 [Control-2_Th1_S2]
- GSM8736212 pTh17_cells, Control, Day4, biorep1 [Control-2_pTh17_S8]
- GSM8736213 Th1_cells, BTP2 Treatment, Day4, biorep1 [Control-2_BTP2_Th1_S5]
- GSM8736214 pTh17_cells, BTP2 Treatment, Day4, biorep1 [Control-2_BTP2_pTh17_S11]
- GSM8736215 Th1_cells, Control, Day4, biorep1 [Control-3_Th1_S3]
- GSM8736216 pTh17_cells, Control, Day4, biorep1 [Control-3_pTh17_S9]
- GSM8736217 Th1_cells, BTP2 Treatment, Day4, biorep1 [Control-3_BTP2_Th1_S6]
- GSM8736218 pTh17_cells, BTP2 Treatment, Day4, biorep1 [Control-3_BTP2_pTh17_S12]
- GSE288624 Wild-Type vs ORAI 1/2/3 TKO_Pathogenic Th17 cells_ 6h vs 24h 12 samples shares th17, pathogenic, wild-type
- GSE290297 Population RNA-seq from Th17 cells differentiated in vitro under pathogenic (Th17p) and non-pathogenic (Th17n) conditions with DHEA or EGCG 79 samples shares th17, pathogenic
- GSE296201 A20’s Linear Ubiquitin Binding Motif Restrains Pathogenic Activation of TH17/22 cells and IL-22 Driven Enteritis [RNA-Seq] 18 samples shares th17, pathogenic
- GSE285450 Fructose specifically exacerbates pathogenic-Th17 cell differentiation and autoimmune diseases through ROS-EGFR signal 18 samples shares th17, pathogenic
- GSE298306 Immune-responsive gene-1: The mitochondrial Key to Th17 Cell Pathogenicity in CNS Autoimmunity 18 samples shares th17, pathogenic
- GSE306371 Unconventional role of HMGCS1 in driving pathogenic-Th17 cell immunity and autoimmune diseases 16 samples shares th17, pathogenic
- GSE282316 Gut-derived metabolites drive Th17 cell pathogenicity in Multiple Sclerosis 10 samples shares th17, pathogenic
- GSE296200 A20’s Linear Ubiquitin Binding Motif Restrains Pathogenic Activation of TH17/22 cells and IL-22 Driven Enteritis [ATAC-seq] 11 samples shares th17, pathogenic
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.