Human Immuno-Lung Organoid Model to Study Macrophage-Mediated Lung Cell Senescence Upon SARS-CoV-2 Infection
ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 14 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
- 14 samples: 14 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
- A Human Immuno-Lung Organoid Model to Study Macrophage-Mediated Lung Cell Senescence Upon SARS-CoV-2 InfectionAdvanced science (Weinheim, Baden-Wurttemberg, Germany) · 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 GSE287114_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 PRJNA1211137 and SRA study SRP557621. 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 14 sample titles: 14 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.
- GSM8738923 Alveolar organoid co-cultured with macrophage
- GSM8738924 Alveolar organoid co-cultured with macrophage, SARS-CoV-2 infected
- GSM8738925 Alveolar organoid co-cultured with 293T, SARS-CoV-2 infected
- GSM8738926 Airway organoid co-cultured with macrophage
- GSM8738927 Airway organoid co-cultured with macrophage, SARS-CoV-2 infected
- GSM8738928 Airway organoid co-cultured with 293T, SARS-CoV-2 infected
- GSM8738935 Alveolar organoid co-cultured with unstimulate macrophage (RNA)
- GSM8738936 Alveolar organoid co-cultured with proinflammatory macrophage (RNA)
- GSM8738937 Airway organoid co-cultured with unstimulate macrophage (RNA)
- GSM8738938 Airway organoid co-cultured with proinflammatory macrophage (RNA)
- GSM8738939 Alveolar organoid co-cultured with unstimulate macrophages (ATAC)
- GSM8738940 Alveolar organoid co-cultured with proinflammatory macrophages (ATAC)
- GSM8738941 Airway organoid co-cultured with unstimulate macrophages (ATAC)
- GSM8738942 Airway organoid co-cultured with proinflammatory macrophages (ATAC)
- GSE254266 Single-cell analysis of lung epithelial cells reveals age and cell population-specific responses to SARS-CoV-2 infection in ciliated cells 14 samples shares sars-cov-2, lung
- GSE288346 Multi-Omics Analysis of the Immunological State at Baseline and Following SARS-CoV-2 mRNA Vaccination in Lung Transplant Recipients [RNA-seq] 106 samples shares sars-cov-2, lung
- GSE288562 Multi-Omics Analysis of the Immunological State at Baseline and Following SARS-CoV-2 mRNA Vaccination in Lung Transplant Recipients 14 samples shares sars-cov-2, lung
- GSE216842 Transcriptomic landscape of human primary stromal cells (fibroblasts, endothelial cells and mesenchymal stem cells) upon therapy-induced senescence (genotoxic chemotherapy） 24 samples shares senescence, upon
- GSE331395 Replicative senescence in neural progenitors induces senescence-associated markers in midbrain organoids 24 samples shares senescence, organoid
- GSE270902 Twist1-induced suppression of oncogene-induced senescence in non-small cell lung cancer requires the transactivation domain of Twist1 12 samples shares senescence, lung
- GSE289648 Maternal acute SARS-CoV-2 infection impairs preimplantation embryo development and reprograms early offspring hematopoietic system 102 samples shares sars-cov-2
- GSE240766 SARS-CoV-2 infection of human pluripotent stem cell-derived vascular cells reveals smooth muscle cells as key mediators of vascular pathology during infection 101 samples shares sars-cov-2
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.