RNA sequencing in untreated (UN), sodium arsenite (SA) and heat shock (HS) stressed HeLa,HUVEC and THP-1 cells
RNA-seq (gene expression) · human · 18 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
- 18 samples: 9 conditions, mostly in duplicateGroups 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
- De novo assembly of nuclear stress bodies rearranges and enhances NFIL3 to restrain acute inflammatory responsesCell · 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 GSE278916_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 PRJNA1169616 and SRA study SRP536890. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 9 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8557425 RNA-seq_HeLa_UN_rep1 RNA-seq_HeLa_UN
- GSM8557426 RNA-seq_HeLa_UN_rep2 RNA-seq_HeLa_UN
- GSM8557427 RNA-seq_HeLa_HS_rep1 RNA-seq_HeLa_HS
- GSM8557428 RNA-seq_HeLa_HS_rep2 RNA-seq_HeLa_HS
- GSM8557429 RNA-seq_HeLa_SA_rep1 RNA-seq_HeLa_SA
- GSM8557430 RNA-seq_HeLa_SA_rep2 RNA-seq_HeLa_SA
- GSM8557431 RNA-seq_HUVEC_UN_rep1 RNA-seq_HUVEC_UN
- GSM8557432 RNA-seq_HUVEC_UN_rep2 RNA-seq_HUVEC_UN
- GSM8557433 RNA-seq_HUVEC_HS_rep1 RNA-seq_HUVEC_HS
- GSM8557434 RNA-seq_HUVEC_HS_rep2 RNA-seq_HUVEC_HS
- GSM8557435 RNA-seq_HUVEC_SA_rep1 RNA-seq_HUVEC_SA
- GSM8557436 RNA-seq_HUVEC_SA_rep2 RNA-seq_HUVEC_SA
- GSM8557437 RNA-seq_THP-1_UN_rep1 RNA-seq_THP-1_UN
- GSM8557438 RNA-seq_THP-1_UN_rep2 RNA-seq_THP-1_UN
- GSM8557439 RNA-seq_THP-1_HS_rep1 RNA-seq_THP-1_HS
- GSM8557440 RNA-seq_THP-1_HS_rep2 RNA-seq_THP-1_HS
- GSM8557441 RNA-seq_THP-1_SA_rep1 RNA-seq_THP-1_SA
- GSM8557442 RNA-seq_THP-1_SA_rep2 RNA-seq_THP-1_SA
- GSE280307 ATAC-sequencing in untreated (UN), sodium arsenite (SA) and heat shock (HS) stressed THP-1 cells 6 samples shares thp-1, untreated, arsenite, stressed, sodium, shock, heat
- GSE277764 Nanopore long-read RNA sequencing in untreated (UN), sodium arsenite (SA) and heat shock (HS) stressed HeLa cells 12 samples shares untreated, arsenite, stressed, sodium, shock, heat
- GSE312820 Effect of cantharidin sodium treatment on gene expression in AGS and MKN1 gastric cancer cell lines (treated vs. untreated groups) 12 samples shares untreated, sodium
- GSE313992 Comparative Immunotoxicity and Transcriptomic Profiling of Seven PFAS in THP-1 Macrophages 252 samples shares thp-1
- GSE327840 RNA-seq profiling of LPS tolerance in monocytes, THP-1, fibroblasts, smooth muscle cells, and endothelial cells 58 samples shares thp-1
- GSE288064 RNA sequencing of HUVEC, HCMEC and human primary skeletal muscle cells in response to in vitro mechanical loading 36 samples shares huvec
- GSE308610 Transcriptomic profiling of THP-1 and RPMI-8226 cells stimulated with innate immune agonists 26 samples shares thp-1
- GSE279106 Transcriptome analysis of HUVECs and those transduced with hiHepPC-inducing factors in culture with or without CHIR99021 [RNA-Seq] 25 samples shares huvec
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.