Gene expression of alveolar macrophage in mice with AT2 cell-specific Cpt1a deletion
RNA-seq (gene expression) · mouse · 11 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
- 11 samples: 11 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
- Alveolar epithelial cells mitigate neutrophilic inflammation in lung injury through regulating mitochondrial fatty acid oxidationNature communications · 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 GSE255949_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 PRJNA1077286 and SRA study SRP490013. 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 11 sample titles: 11 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.
- GSM8083254 Alveolar macrophages from control mouse (sample #1)
- GSM8083255 Alveolar macrophages from control mouse (sample #2)
- GSM8083256 Alveolar macrophages from control mouse (sample #3)
- GSM8083257 Alveolar macrophages from control mouse (sample #4)
- GSM8083258 Alveolar macrophages from control mouse (sample #5)
- GSM8083259 Alveolar macrophages from Cpt1a-KO mouse (sample #1)
- GSM8083260 Alveolar macrophages from Cpt1a-KO mouse (sample #2)
- GSM8083261 Alveolar macrophages from Cpt1a-KO mouse (sample #3)
- GSM8083262 Alveolar macrophages from Cpt1a-KO mouse (sample #4)
- GSM8083263 Alveolar macrophages from Cpt1a-KO mouse (sample #5)
- GSM8083264 Alveolar macrophages from Cpt1a-KO mouse (sample #6)
- GSE279117 HIF1α deletion promotes mitochondrial repurposing in bone marrow-derived macrophages, but not in tissue-resident alveolar macrophages 24 samples shares macrophage, alveolar, deletion
- 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 macrophage, alveolar
- GSE303772 Ontogenically distinct alveolar macrophages mediate cigarette smoke-induced inflammation and damage [RNA-Seq] 24 samples shares macrophage, alveolar
- GSE314207 Alveolar Macrophages Undergo a Postnatal Transition from a Hyperphagocytic and Proinflammatory Profile to a Tolerogenic Profile 24 samples shares macrophage, alveolar
- GSE281001 The C3-C3aR axis modulates trained immunity in alveolar macrophages 8 samples shares macrophage, alveolar
- GSE243165 Signal-responsive transcription factors cooperate to establish alveolar macrophage identity 42 samples shares macrophage, alveolar
- GSE268843 Gene expression analysis of macrophages exposed to LPS and LPS-coated beads 18 samples shares macrophage
- GSE140693 Differential gene expression in male mouse macrophages from BAL 16 samples shares macrophage
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.