RNA sequencing of spheroids from HUVECs for differences in Cis- and Trans-signaling of IL-11
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: 3 × Spheroids, VEGF vs 3 × Spheroids, IL11_VEGF vs 3 × Spheroids, IL11Rec_VEGF vs 3 × Spheroids, IL11_IL11Rec_VEGFGroups 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
- Characterization of the angiomodulatory effects of Interleukin 11 cis- and trans-signaling in the retinaJournal of neuroinflammation · 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 GSE234142_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 PRJNA980188 and SRA study SRP441133. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM7446711 Spheroids, VEGF_1 Spheroids, VEGF
- GSM7446712 Spheroids, VEGF_2 Spheroids, VEGF
- GSM7446713 Spheroids, VEGF_3 Spheroids, VEGF
- GSM7446714 Spheroids, IL11_VEGF_1 Spheroids, IL11_VEGF
- GSM7446715 Spheroids, IL11_VEGF_2 Spheroids, IL11_VEGF
- GSM7446716 Spheroids, IL11_VEGF_3 Spheroids, IL11_VEGF
- GSM7446717 Spheroids, IL11Rec_VEGF_1 Spheroids, IL11Rec_VEGF
- GSM7446718 Spheroids, IL11Rec_VEGF_2 Spheroids, IL11Rec_VEGF
- GSM7446719 Spheroids, IL11Rec_VEGF_3 Spheroids, IL11Rec_VEGF
- GSM7446720 Spheroids, IL11_IL11Rec_VEGF_1 Spheroids, IL11_IL11Rec…
- GSM7446721 Spheroids, IL11_IL11Rec_VEGF_2 Spheroids, IL11_IL11Rec…
- GSM7446722 Spheroids, IL11_IL11Rec_VEGF_3 Spheroids, IL11_IL11Rec…
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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.