Effect of chronic hypoxia and role of stearoyl-CoA desaturase 1 (SCD1) on the inflammatory response of human primary macrophages
RNA-seq (gene expression) · human · 24 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
- 24 samples: 6 × siCtrl normoxia vs 6 × siSCD1 normoxia vs 6 × siCtrl hypoxia vs 6 × siSCD1 hypoxiaGroups 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
- Macrophage fatty acid metabolism under chronic hypoxia shapes γδ T cell recruitment via CCL22iScience · 2025
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 GSE286526_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 PRJNA1209864 and SRA study SRP556985. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 4 replicated groups read from 24 sample titles; they account for 24 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.
- GSM8728924 siCtrl normoxia 1 siCtrl normoxia
- GSM8728925 siCtrl normoxia 2 siCtrl normoxia
- GSM8728926 siCtrl normoxia 3 siCtrl normoxia
- GSM8728927 siCtrl normoxia 4 siCtrl normoxia
- GSM8728928 siCtrl normoxia 5 siCtrl normoxia
- GSM8728929 siCtrl normoxia 6 siCtrl normoxia
- GSM8728930 siSCD1 normoxia 1 siSCD1 normoxia
- GSM8728931 siSCD1 normoxia 2 siSCD1 normoxia
- GSM8728932 siSCD1 normoxia 3 siSCD1 normoxia
- GSM8728933 siSCD1 normoxia 4 siSCD1 normoxia
- GSM8728934 siSCD1 normoxia 5 siSCD1 normoxia
- GSM8728935 siSCD1 normoxia 6 siSCD1 normoxia
- GSM8728936 siCtrl hypoxia 1 siCtrl hypoxia
- GSM8728937 siCtrl hypoxia 2 siCtrl hypoxia
- GSM8728938 siCtrl hypoxia 3 siCtrl hypoxia
- GSM8728939 siCtrl hypoxia 4 siCtrl hypoxia
- GSM8728940 siCtrl hypoxia 5 siCtrl hypoxia
- GSM8728941 siCtrl hypoxia 6 siCtrl hypoxia
- GSM8728942 siSCD1 hypoxia 1 siSCD1 hypoxia
- GSM8728943 siSCD1 hypoxia 2 siSCD1 hypoxia
- GSM8728944 siSCD1 hypoxia 3 siSCD1 hypoxia
- GSM8728946 siSCD1 hypoxia 4 siSCD1 hypoxia
- GSM8728948 siSCD1 hypoxia 5 siSCD1 hypoxia
- GSM8728951 siSCD1 hypoxia 6 siSCD1 hypoxia
- GSE307859 Methamphetamine Induces Metallothionein 1 Expression and an Inflammatory Phenotype in Primary Human HIV-infected Macrophages 27 samples shares macrophages, primary
- GSE199345 Siglec-1−/FSClow alveolar macrophages exhibit pro-inflammatory phenotypes in chronic obstructive pulmonary disease 24 samples shares macrophages, chronic
- GSE307856 Methamphetamine Induces Metallothionein 1 Expression and an Inflammatory Phenotype in Primary Human HIV-infected Macrophages [JW81_JW82_JW84] 12 samples shares macrophages, primary
- GSE261696 Transcriptional characteristics of human primary, bone marrow-derived and iPSC-derived monocytes and macrophages [RNA-Seq] 19 samples shares macrophages, primary
- GSE245750 Hypoxia and inflammation induce synergistic transcriptome turnover in macrophages 19 samples shares macrophages, hypoxia
- GSE305549 Deciphering hypoxia related glioblastoma-associated macrophages and predicting prognostic markers by single-cell, spatially-resolved transcriptomics and experimental analysis 17 samples shares macrophages, hypoxia
- GSE263919 Effect of CSF1R targeting on human macrophages in normoxia and hypoxia 16 samples shares macrophages, hypoxia
- GSE262660 SCD1-dependant activation of GSK3β-NRF2-SLC7A11 pathway regulates lipid metabolism and suppresses ferroptosis in KRAS/STK11/KEAP1 co-mutant lung adenocarcinoma 36 samples shares scd1
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.