Hypoxia and inflammation induce synergistic transcriptome turnover in macrophages
RNA-seq (gene expression) · human · 19 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
- 19 samples: 19 samples, each with a distinct title — no replicated groupsGroups 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
- Hypoxia and inflammation induce synergistic transcriptome turnover in macrophagesCell reports · 2024
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 GSE245750_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 PRJNA1029883 and SRA study SRP467279. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 19 sample titles: 19 distinct titles with little repetition. 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.
- GSM7848483 Macrophage, resting, normoxia, 24hr, rep1 [S10]
- GSM7848484 Macrophage, resting, normoxia, 24hr, rep2 [S11]
- GSM7848485 Macrophage, resting, normoxia, 24hr, rep3 [S12]
- GSM7848486 Macrophage, activated, normoxia, 24hr, rep1 [S13]
- GSM7848487 Macrophage, activated, normoxia, 24hr, rep2 [S14]
- GSM7848488 Macrophage, activated, normoxia, 24hr, rep3 [S15]
- GSM7848489 Macrophage, activated, hypoxia, 24hr, rep1 [S16]
- GSM7848490 Macrophage, activated, hypoxia, 24hr, rep2 [S17]
- GSM7848491 Macrophage, activated, hypoxia, 24hr, rep3 [S18]
- GSM7848492 Macrophage, resting, normoxia, 2hr, unfed control [S01]
- GSM7848493 Macrophage, resting, normoxia, 2hr, 500uM s4U [S19]
- GSM8223877 Macrophage, resting, normoxia, 24hr, rep1 [S20]
- GSM8223878 Macrophage, resting, normoxia, 24hr, rep2 [S21]
- GSM8223879 Macrophage, resting, normoxia, 24hr, rep3 [S22]
- GSM8223880 Macrophage, resting, hypoxia, 24hr, rep1 [S23]
- GSM8223881 Macrophage, resting, hypoxia, 24hr, rep2 [S24]
- GSM8223882 Macrophage, resting, hypoxia, 24hr, rep3 [S25]
- GSM8223883 Macrophage, resting, normoxia, 24hr, noS4U [S26]
- GSM8223884 Macrophage, resting, hypoxia, 24hr, noS4U [S27]
- GSE289574 Multi-omics Analysis of Skeletal Muscle Identifies Dysregulation of Hypoxia-Induced Genes in Peripheral Artery Disease [RNA-seq] 40 samples shares hypoxia, induce
- GSE294918 IFNγ-induced memory in human macrophages is not sustained by epigenetic changes but the durability of the cytokine itself [RNA-Seq] 20 samples shares macrophages, induce
- GSE285257 Hypoxia impairs decitabine-induced expression of HLA-DR in acute myeloid leukaemia cell lines [RNA-seq] 18 samples shares hypoxia, induce
- GSE263919 Effect of CSF1R targeting on human macrophages in normoxia and hypoxia 16 samples shares macrophages, hypoxia
- GSE225645 Hypoxia-induced gene expression profiling of esophageal cancer cell lines 12 samples shares hypoxia, induce
- GSE251859 Perturbing LSD1 and WNT rewires transcription to synergistically induce AML differentiation (RNA-Seq) 12 samples shares synergistic, induce
- GSE307856 Methamphetamine Induces Metallothionein 1 Expression and an Inflammatory Phenotype in Primary Human HIV-infected Macrophages [JW81_JW82_JW84] 12 samples shares macrophages, induce
- GSE305018 Extracellular vesicles derived from pro-inflammatory M1 macrophages induce an inflammatory and invasive phenotype in melanoma cells. 12 samples shares macrophages, induce
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.