NF-κB- and TET2-mediated macrophage reprogramming overrides the anti-inflammatory effects of hypoxia and improves responses in human cancer
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 88 samples
- What it is
- ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
- Organism
- Homo sapiens (human)
- Samples
- 88 samples: 29 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
- Data you can get
- A processed expression table (series matrix) and the array files, from NCBI.
- Paper
- NF-κB and TET2 promote macrophage reprogramming in hypoxia that overrides the immunosuppressive effects of the tumor microenvironmentScience advances · 2024
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 GSE261324_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: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.
Also filed as BioProject PRJNA1086485 and SRA study SRP494556. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 58 samples.
How we read this: 29 replicated groups read from 88 sample titles; they account for 58 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.
- GSM8140438 MO A MO A
- GSM8140439 MO B MO B
- GSM8140440 MO C MO C
- GSM8140441 MO D MO D
- GSM8140442 iMAC21 A iMAC21 A
- GSM8140443 iMAC21 B iMAC21 B
- GSM8140444 iMAC21 C iMAC21 C
- GSM8140445 iMAC21 D iMAC21 D
- GSM8140446 mMAC21 A mMAC21 A
- GSM8140447 mMAC21 B mMAC21 B
- GSM8140448 mMAC21 C mMAC21 C
- GSM8140449 mMAC21 D mMAC21 D
- GSM8140450 iMAC1 A iMAC1 A
- GSM8140451 iMAC1 B iMAC1 B
- GSM8140452 iMAC1 C iMAC1 C
- GSM8140453 iMAC1 D iMAC1 D
- GSM8140454 mMAC1 A mMAC1 A
- GSM8140455 mMAC1 B mMAC1 B
- GSM8140456 mMAC1 C mMAC1 C
- GSM8140457 mMAC1 D mMAC1 D
- GSM8140458 OC001_FOLR2 OC001_FOL
- GSM8140459 OC001_IL4I1 OC001_IL4I
- GSM8140460 OC001_TREM2 OC001_TREM
- GSM8140461 OC005_FOLR2 OC005_FOL
- GSM8140462 OC005_IL4I1 OC005_IL4I
- GSM8140463 OC005_TREM2 OC005_TREM
- GSM8140464 OC013_FOLR2 OC013_FOL
- GSM8140465 OC013_IL4I1 OC013_IL4I
- GSM8140466 OC013_TREM2 OC013_TREM
- GSM8140467 OC014_FOLR2
- GSM8140468 OC014_IL4I1
- GSM8140469 OC014_TREM2
- GSM8140470 OC03_FOLR2
- GSM8140471 OC03_IL4I1
- GSM8140472 OC03_TREM2
- GSM8140499 iMAC21_p65_A
- GSM8140500 mMAC21_p65_A
- GSM8140501 iMAC21_p65_B
- GSM8140502 mMAC21_p65_B
- GSM8140503 iMAC1_p65_A
+ 48 more — browse all 88 samples with per-sample file links →
- GSE292059 Inflammatory Epithelial and Macrophage Pathways Underlie Residual Asthma Exacerbations in Urban Children Treated with Mepolizumab 965 samples shares nf, macrophage
- GSE323311 Human Macrophages Encode Stimulus-Specific Information of Prior Exposures Through Trained Immunity 48 samples shares nf, macrophage
- GSE312129 Single-nuclei multiome and spatial analyses of early, untreated SSc skin identify a proinflammatory vascular niche of macrophage-fibroblast signaling 38 samples shares nf, macrophage
- GSE317257 Mapping Endothelial-Macrophage Interactions in Diabetic Vasculature: Role of TREM2 in Vascular Inflammation and Ischemic Respons 35 samples shares nf, macrophage
- GSE342301 SIRT2 deacylase modulators control B cell metabolic reprogramming in EBV infection and mitogenic activation 8 samples shares nf, reprogramming
- GSE307326 Continuous NRTI-based antiretroviral therapy induces progressive senescence-like reprogramming of alveolar macrophages [snMultiomics] 32 samples shares reprogramming, macrophage
- GSE282464 Molecular landscape of respiratory infection: A large-scale, multi-centre blood transcriptome dataset 377 samples shares nf
- GSE154200 Skin transcriptome of non-communicable inflammatory skin diseases 376 samples shares nf
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.