Flagellar regulation in enterotoxigenic E. coli modulates innate immune activation
RNA-seq (gene expression) · human · 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
- Homo sapiens (human)
- 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 GSE331118_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 PRJNA1466919 and SRA study SRP700965. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 8 samples read as cases, 4 as controls.
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.
- GSM9739290 organoid-01, control
- GSM9739291 organoid-01, infected H10407
- GSM9739293 organoid-01, infected E24377A
- GSM9739294 organoid-11, control
- GSM9739295 organoid-11, infected H10407
- GSM9739296 organoid-11, infected E24377A
- GSM9739298 organoid-24, control
- GSM9739299 organoid-24, infected H10407
- GSM9739300 organoid-24, infected E24377A
- GSM9739301 organoid-25, control
- GSM9739302 organoid-25, infected H10407
- GSM9739303 organoid-25, infected E24377A
- GSE254732 Inhibition of PCSK9 with evolocumab modulates lipoproteins and monocyte activation in high-risk ASCVD subjects 215 samples shares activation, modulates
- GSE253006 Differential effects of tofacitinib on macrophage activation contribute to lack of response in ulcerative colitis patients 23 samples shares activation, coli
- GSE318645 Dual Immune Checkpoint Blockade Induces Distinct Systemic and Intratumoral Immune Activation in Recurrent Glioblastoma 226 samples shares activation
- GSE309174 Stem cell activation in organ culture reveals novel transcriptional programs underlying metabolic, fibrotic, vascular, and immune dysregulation in uterine leiomyomas 25 samples shares activation
- GSE211434 Diverse immune suppressing cancer communications with myeloid cells prevent T cell activation and recruitment and provide resistance to cell cycle inhibitor therapy 81 samples shares activation
- GSE318865 Placental gene signatures associated with high neonatal adiposity: role for immune cell activation 79 samples shares activation
- GSE306950 Dysregulated NK Cell Activation and Myeloid-Lymphoid Imbalance Underpin COPD Progression: Insights from High-Dimensional Immune Profiling and Smoking-Induced Immune Remodeling 35 samples shares activation
- GSE270732 The immune profile of circulating autoreactive CD4 T cells is imprinted through tissue activation during autoimmune liver diseases (Exp 1) 13 samples shares activation
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.