Transciptional profiling of polyIC-treated or untreated, polyIC-experience or naive primary murine alveolar macrophages
RNA-seq (gene expression) · mouse · 12 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
- 12 samples: 3 × ctrl_ctrl vs 3 × ctrl_pic vs 3 × polyIC_ctrl vs 3 × polyIC_polyICGroups 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
- Antiviral innate immune memory in alveolar macrophages following SARS-CoV-2 infection ameliorates secondary influenza A virus diseaseImmunity · 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 GSE264683_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 PRJNA1103797 and SRA study SRP503658. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM8225623 ctrl_ctrl_1 ctrl_ctrl
- GSM8225624 ctrl_ctrl_2 ctrl_ctrl
- GSM8225625 ctrl_ctrl_3 ctrl_ctrl
- GSM8225626 ctrl_pic_1 ctrl_pic
- GSM8225627 ctrl_pic_2 ctrl_pic
- GSM8225628 ctrl_pic_3 ctrl_pic
- GSM8225629 polyIC_ctrl_1 polyIC_ctrl
- GSM8225630 polyIC_ctrl_2 polyIC_ctrl
- GSM8225631 polyIC_ctrl_3 polyIC_ctrl
- GSM8225632 polyIC_polyIC_1 polyIC_polyIC
- GSM8225633 polyIC_polyIC_2 polyIC_polyIC
- GSM8225634 polyIC_polyIC_3 polyIC_polyIC
- GSE272755 Transcriptional effects of lysosome stress on mouse bone marrow-derived macrophages and primary microglia 263 samples shares macrophages, primary
- 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, alveolar
- GSE264083 Mycobacterium abscessus infection in fetal liver derived alveolar-like macrophages activates distinct inflammatory responses compared to myeloid-derived macrophages 36 samples shares macrophages, alveolar
- GSE182637 Influenza-induced activation of recruited alveolar macrophages during the early inflammatory phase drives lung injury and lethality 27 samples shares macrophages, alveolar
- GSE303772 Ontogenically distinct alveolar macrophages mediate cigarette smoke-induced inflammation and damage [RNA-Seq] 24 samples shares macrophages, alveolar
- GSE314207 Alveolar Macrophages Undergo a Postnatal Transition from a Hyperphagocytic and Proinflammatory Profile to a Tolerogenic Profile 24 samples shares macrophages, alveolar
- GSE279117 HIF1α deletion promotes mitochondrial repurposing in bone marrow-derived macrophages, but not in tissue-resident alveolar macrophages 24 samples shares macrophages, alveolar
- GSE295483 Type-I interferon priming signal balances anti-bacterial and anti-tumor trained immunity in alveolar macrophages [RNA-seq] 19 samples shares macrophages, alveolar
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.