Direct effects of prolonged TNF-α and IL-6 exposure on neural activity in human iPSC-derived neuron-astrocyte co-cultures
RNA-seq (gene expression) · human · 31 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
- 31 samples: 8 × 25 pg/mL TNF S vs 8 × 10 ng/mL TNF S vs 8 × 100 ng/mL TNF S vs 7 × 0 pg/mL TNF SGroups 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
- Direct effects of prolonged TNF-α and IL-6 exposure on neural activity in human iPSC-derived neuron-astrocyte co-culturesFrontiers in cellular neuroscience · 2025
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 GSE279308_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 PRJNA1171836 and SRA study SRP537981. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 31 samples.
How we read this: 4 replicated groups read from 31 sample titles; they account for 31 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.
- GSM8566365 0 pg/mL TNF S1 0 pg/mL TNF S
- GSM8566366 0 pg/mL TNF S2 0 pg/mL TNF S
- GSM8566367 0 pg/mL TNF S3 0 pg/mL TNF S
- GSM8566368 0 pg/mL TNF S4 0 pg/mL TNF S
- GSM8566369 0 pg/mL TNF S5 0 pg/mL TNF S
- GSM8566370 0 pg/mL TNF S6 0 pg/mL TNF S
- GSM8566371 0 pg/mL TNF S7 0 pg/mL TNF S
- GSM8566372 25 pg/mL TNF S1 25 pg/mL TNF S
- GSM8566373 25 pg/mL TNF S2 25 pg/mL TNF S
- GSM8566374 25 pg/mL TNF S3 25 pg/mL TNF S
- GSM8566375 25 pg/mL TNF S4 25 pg/mL TNF S
- GSM8566376 25 pg/mL TNF S5 25 pg/mL TNF S
- GSM8566377 25 pg/mL TNF S6 25 pg/mL TNF S
- GSM8566378 25 pg/mL TNF S7 25 pg/mL TNF S
- GSM8566379 25 pg/mL TNF S8 25 pg/mL TNF S
- GSM8566380 10 ng/mL TNF S1 10 ng/mL TNF S
- GSM8566381 10 ng/mL TNF S2 10 ng/mL TNF S
- GSM8566382 10 ng/mL TNF S3 10 ng/mL TNF S
- GSM8566383 10 ng/mL TNF S4 10 ng/mL TNF S
- GSM8566384 10 ng/mL TNF S5 10 ng/mL TNF S
- GSM8566385 10 ng/mL TNF S6 10 ng/mL TNF S
- GSM8566386 10 ng/mL TNF S7 10 ng/mL TNF S
- GSM8566387 10 ng/mL TNF S8 10 ng/mL TNF S
- GSM8566388 100 ng/mL TNF S1 100 ng/mL TNF S
- GSM8566389 100 ng/mL TNF S2 100 ng/mL TNF S
- GSM8566390 100 ng/mL TNF S3 100 ng/mL TNF S
- GSM8566391 100 ng/mL TNF S4 100 ng/mL TNF S
- GSM8566392 100 ng/mL TNF S5 100 ng/mL TNF S
- GSM8566393 100 ng/mL TNF S6 100 ng/mL TNF S
- GSM8566394 100 ng/mL TNF S7 100 ng/mL TNF S
- GSM8566395 100 ng/mL TNF S8 100 ng/mL TNF S
- GSE275227 Transcriptomic changes in Human Umbilical Vein Endothelial Cells (HUVEC) after exposure to Tumor Necrosis Factor-Alpha(TNF-a), AdipoRon, and Sphingosine Kinase Inhibitor (SKI-I) 12 samples shares tnf, exposure
- GSE325931 Microglial dynamics and ferroptosis induction in human iPSC-derived neuron-astrocyte-microglia tri-cultures 17 samples shares neuron-astrocyte, ipsc-derived
- GSE245060 Chronic and acute exposure to rotenone lead to distinct Parkinson’s disease-related phenotypes in human iPSC-derived peripheral neurons 15 samples shares ipsc-derived, exposure
- GSE339038 RNA-Seq of CD3+ T cells flow sorted from MLR assays with TNF/TNFR inhibitory compound combination treatments 64 samples shares tnf
- GSE276108 Cancer-associated fibroblast driven paracrine IL-6/STAT3 signalling promotes migration and dissemination in invasive lobular carcinoma 56 samples shares il-6
- GSE266348 TNF-mediated cell death: an actionable target for immunotherapy in T-ALL 50 samples shares tnf
- GSE272019 Opposing Regulation of TNF Responses and IL-1b+ Macrophages by PGE2-cAMP Signaling and IFN-g [RNA-seq] 48 samples shares tnf
- GSE317789 Single-cell and spatial profiling reveal cDC2A-CXCL13+ CD8+ T-epithelial cell crosstalk and cytotoxicity through TNFRSF9 in cutaneous and mucosal lichen planus 42 samples shares tnf
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.