Comparison of untreated and vancomycin-treated macrophages, with or without Candida albicans infection
RNA-seq (gene expression) · mouse · 24 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
- 24 samples: 24 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 GSE269051_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 PRJNA1120019 and SRA study SRP511692. 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 24 sample titles: 24 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.
- GSM8305566 Exp1, Control, no infection
- GSM8305567 Exp1, Control, with Candida
- GSM8305568 Exp1, Vancomycin, no infection
- GSM8305569 Exp1, Vancomycin, with Candida
- GSM8305570 Exp2, Control, no infection
- GSM8305571 Exp2, Control, with Candida
- GSM8305572 Exp2, Vancomycin, no infection
- GSM8305573 Exp2, Vancomycin, with Candida
- GSM8305574 Exp3, Control, no infection
- GSM8305575 Exp3, Control, with Candida
- GSM8305576 Exp3, Vancomycin, no infection
- GSM8305577 Exp3, Vancomycin, with Candida
- GSM8305578 Exp4, Control, no infection
- GSM8305579 Exp4, Control, with Candida
- GSM8305580 Exp4, Vancomycin, no infection
- GSM8305581 Exp4, Vancomycin, with Candida
- GSM8305582 Exp5, Control, no infection
- GSM8305583 Exp5, Control, with Candida
- GSM8305584 Exp5, Vancomycin, no infection
- GSM8305585 Exp5, Vancomycin, with Candida
- GSM8305586 Exp6, Control, no infection
- GSM8305587 Exp6, Control, with Candida
- GSM8305588 Exp6, Vancomycin, no infection
- GSM8305589 Exp6, Vancomycin, with Candida
- GSE256002 Comparison of transcriptional changes in regenerating mice livers at baseline and 24-48 hours post 70% partial hepatectomy with or without etomoxir treatment 27 samples shares comparison, without
- GSE174676 Metabolic rewiring tunes dermal macrophages in staphylococcal skin infection 36 samples shares macrophages
- GSE313869 Impact of Fc engineering on the transcriptional profile of monocytes and interstitial macrophages in the lungs of Hu-FcgR Tg mice after MA30 infection 36 samples shares macrophages
- GSE264083 Mycobacterium abscessus infection in fetal liver derived alveolar-like macrophages activates distinct inflammatory responses compared to myeloid-derived macrophages 36 samples shares macrophages
- GSE232854 Control of Mycobacterium abscessus pulmonary infection requires IFN- γ Induced formation of foam macrophages 22 samples shares macrophages
- GSE337952 Transcriptomic Profiling of Murine Macrophages During Francisella tularensis Infection 20 samples shares macrophages
- GSE325061 Ubiquitylation by the GID/CTLH complex regulates the metabolic and innate immune response of macrophages to infection by Mycobacterium tuberculosis 12 samples shares macrophages
- GSE304706 Persistent ER stress in macrophages fuels age-related inflammation and vulnerability to infection 8 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.