RNA-seq of Immortalized RAFLS treated with TNFα for 24h and DMSO or celastrol derivatives for 4h in human
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 × DMSO vs 3 × Cel vs 3 × Cel5 vs 3 × Cel6Groups 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.
Read the full summary ↓
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 GSE300831_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 PRJNA1282169 and SRA study SRP594687. 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.
- GSM9069336 DMSO-1 DMSO
- GSM9069337 DMSO-2 DMSO
- GSM9069338 DMSO-3 DMSO
- GSM9069339 Cel-1 Cel
- GSM9069340 Cel-2 Cel
- GSM9069341 Cel-3 Cel
- GSM9069342 Cel5-1 Cel5
- GSM9069343 Cel5-2 Cel5
- GSM9069344 Cel5-3 Cel5
- GSM9069345 Cel6-1 Cel6
- GSM9069346 Cel6-2 Cel6
- GSM9069347 Cel6-3 Cel6
- GSE335198 RNA-seq and ONT full-length transcriptome profiling of HCT116 and WiDr cells treated with DMSO, GSK025, or GSK715 19 samples shares dmso, rna-seq, treated
- GSE296117 A single-cell RNA-seq dataset of synovial fluid from rheumatoid arthritis treated with TNF-α/JAK inhibitor 18 samples shares tnf, rna-seq, treated
- GSE317483 RNA-seq of immortalized human podocytes treated with calcineurin inhibitors 12 samples shares immortalized, rna-seq, treated
- GSE339038 RNA-Seq of CD3+ T cells flow sorted from MLR assays with TNF/TNFR inhibitory compound combination treatments 64 samples shares tnf, rna-seq
- GSE297268 Alterations of splicing and gene expression in DMSO or 4OHT treated-IMR90 ER:HRAS G12V cells upon knockdown of SF3B1 and RBM39 48 samples shares dmso, treated
- GSE272019 Opposing Regulation of TNF Responses and IL-1b+ Macrophages by PGE2-cAMP Signaling and IFN-g [RNA-seq] 48 samples shares tnf, rna-seq
- GSE301583 Polysome seq of treated with Enzalutamide and untreated (DMSO)prostate cancer cell line with SPEN wt and SPEN KO 30 samples shares dmso, treated
- GSE22917 SAGE-Seq gene expression profiles of Hs578T, MCF7, and SUM159PT cells treated with STAT3 or non-targeting siRNAs, DMSO, or CXCR2, PTGIS, HAS1, PFKFB3, JAK, or NQO1 inhibitor 27 samples shares dmso, treated
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.