STAT3 regulates pathogen control and clearance in macrophages by reprogramming inflammation-induced microbial defense response
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 18 samples: 18 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.
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 GSE282695_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 PRJNA1189814 and SRA study SRP547162. 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 18 sample titles: 18 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.
- GSM8648892 CreER S1, no LPS treatment
- GSM8648893 CreER S2, no LPS treatment
- GSM8648894 CreER S3, no LPS treatment
- GSM8648895 CreER S1, LPS treatment 1h
- GSM8648896 CreER S2, LPS treatment 1h
- GSM8648897 CreER S3, LPS treatment 1h
- GSM8648898 CreER S1, LPS treatment 6h
- GSM8648899 CreER S2, LPS treatment 6h
- GSM8648900 CreER S3, LPS treatment 6h
- GSM8648901 CreER Stat3f/f S1, no LPS treatment
- GSM8648902 CreER Stat3f/f S2, no LPS treatment
- GSM8648903 CreER Stat3f/f S3, no LPS treatment
- GSM8648904 CreER Stat3f/f S1, LPS treatment 1h
- GSM8648905 CreER Stat3f/f S2, LPS treatment 1h
- GSM8648906 CreER Stat3f/f S3, LPS treatment 1h
- GSM8648907 CreER Stat3f/f S1, LPS treatment 6h
- GSM8648908 CreER Stat3f/f S2, LPS treatment 6h
- GSM8648909 CreER Stat3f/f S3, LPS treatment 6h
- GSE261139 Tumour-derived Extracellular Vesicle and Particle Reprogramming of Interstitial Macrophages in the Lung Pre-Metastatic Niche Enhances Vascular Permeability and Metastatic Potential 16 samples shares reprogramming, macrophages
- GSE284505 Chronic sleep deprivation promotes experimental autoimmune uveitis through STAT1 phosphorylation, ISG15 expression and enhanced pathogenicity of macrophages 12 samples shares macrophages, pathogen
- GSE267270 Synthetic trimeric Interleukin-6 receptor complexes with a STAT3 phosphorylation dominated activation profile 16 samples shares stat3
- GSE298411 RP105 exerts hepatoprotective effects in sepsis by modulating the SOCS2/JAK2/STAT3 signaling pathway 10 samples shares stat3
- GSE319684 Timecourse of FACS sorted Ly6C+ monocytes, tissue resident alveolar macrophages (trAMs), monocyte derived alveolar macrophages (bmAMs) and epithelial cells from SARS-CoV-2 (maVie16) vs. IAV (PR8) infected mouse lungs 176 samples shares macrophages
- GSE300757 Efferocytosis induces proangiogenic function and chromatin remodeling in tumor-associated macrophages 127 samples shares macrophages
- GSE319035 P21+TREM2+-Senescent Macrophages Fuel Inflammaging and Metabolic Dysfunction-Associated Steatotic Liver Disease [NAFLD_time_course] 77 samples shares macrophages
- GSE280514 Spatially-restricted and ontogenically-distinct hepatic macrophages are required for tissue repair. 48 samples shares macrophages
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.