Transcriptomic profiling of human RPTECs following TNFα and IFNγ stimulation at early and late time points
RNA-seq (gene expression) · human · 20 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
- 20 samples: 8 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.
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 GSE319877_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 PRJNA1335268. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 8 replicated groups read from 20 sample titles; they account for 20 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.
- GSM9528356 Control 3 h replicate 1 Control 3 h
- GSM9528357 Control 3 h replicate 2 Control 3 h
- GSM9528358 Control 3 h replicate 3 Control 3 h
- GSM9528359 Control 12 h replicate 1 Control 12 h
- GSM9528360 Control 12 h replicate 2 Control 12 h
- GSM9528361 Control 12 h replicate 3 Control 12 h
- GSM9528362 IFNγ 3 h replicate 1 IFNγ 3 h
- GSM9528363 IFNγ 3 h replicate 2 IFNγ 3 h
- GSM9528364 IFNγ 12 h replicate 1 IFNγ 12 h
- GSM9528365 IFNγ 12 h replicate 2 IFNγ 12 h
- GSM9528366 TNFα 3 h replicate 1 TNFα 3 h
- GSM9528367 TNFα 3 h replicate 2 TNFα 3 h
- GSM9528368 TNFα 12 h replicate 1 TNFα 12 h
- GSM9528369 TNFα 12 h replicate 2 TNFα 12 h
- GSM9528370 TNFα + IFNγ 3 h replicate 1 TNFα + IFNγ 3 h
- GSM9528371 TNFα + IFNγ 3 h replicate 2 TNFα + IFNγ 3 h
- GSM9528372 TNFα + IFNγ 3 h replicate 3 TNFα + IFNγ 3 h
- GSM9528373 TNFα + IFNγ 12 h replicate 1 TNFα + IFNγ 12 h
- GSM9528374 TNFα + IFNγ 12 h replicate 2 TNFα + IFNγ 12 h
- GSM9528375 TNFα + IFNγ 12 h replicate 3 TNFα + IFNγ 12 h
- GSE287198 Adipose tissue gene expression profiling in women with overweight or obesity following early vs. late time-restricted eating 30 samples shares following, early, late
- GSE315599 Primary human fibroblasts and keratinocytes stimulated with IL-17A and/or TNF 32 samples shares tnf, late
- GSE328951 The embryonic origins of site-specific arthritis; Bulk RNA sequencing of CD34+(Pi16+) fibroblasts stimulated with TNF and IL1b. 24 samples shares tnf, late
- GSE329806 Effects of GLI1, GLI3, and GLI1/3 knockdown on rhematoid arthritis synovial fibroblasts stimulated with TNF-alpha 15 samples shares tnf, late
- GSE216688 Identification of a transcription factor network that regulates anti-TNF mediated IL-10 expression in human CD4+ T-cells 16 samples shares tnf, late
- GSE313527 Plasma Extracellular Vesicle Modulate Immune Cell Transcriptional Responses Following Acute Myocardial Infarction 74 samples shares following, late
- GSE276889 Mitochondria isolated from male skeletal muscle contain a small and distinct population of microRNA that are differentially expressed following acute endurance exercise 33 samples shares following, late
- GSE314805 Prostate Tumor Immune Microenvironment Changes Following Immunotherapy Shared by Patients who Developed Anti-Tumor Response or Immune-Related Adverse Events 24 samples shares following, late
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.