RNA Sequencing of macrophages harboring redox-diverse Mycobacterium tuberculosis.
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 × Uninfected vs 3 × Bystande vs 3 × Oxidized vs 3 × ReducedGroups 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
- Bioenergetic reprogramming of macrophages reduces drug tolerance in Mycobacterium tuberculosisNature communications · 2025
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 GSE283664_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 PRJNA1195004 and SRA study SRP549877. 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.
- GSM8669090 Uninfected 1 Uninfected
- GSM8669091 Uninfected 2 Uninfected
- GSM8669092 Uninfected 3 Uninfected
- GSM8669093 Bystander 1 Bystande
- GSM8669094 Bystander 2 Bystande
- GSM8669095 Bystander 3 Bystande
- GSM8669096 Oxidized 1 Oxidized
- GSM8669097 Oxidized 2 Oxidized
- GSM8669098 Oxidized 3 Oxidized
- GSM8669099 Reduced 1 Reduced
- GSM8669100 Reduced 2 Reduced
- GSM8669101 Reduced 3 Reduced
- GSE325061 Ubiquitylation by the GID/CTLH complex regulates the metabolic and innate immune response of macrophages to infection by Mycobacterium tuberculosis 12 samples shares mycobacterium, tuberculosis, macrophages
- GSE189297 RNA sequencing of wild type or calcineurin-deficient mouse bone marrow-derived dendritic cells stimulated with or without lipoarabinomannan (LAM) from Mycobacterium tuberculosis Aoyama-B 10 samples shares mycobacterium, tuberculosis
- GSE315842 Cytomegalovirus as a risk factor for exacerbation of Mycobacterium tuberculosis: development of a Mtb-CMV mouse model infection 54 samples shares mycobacterium, tuberculosis
- GSE264083 Mycobacterium abscessus infection in fetal liver derived alveolar-like macrophages activates distinct inflammatory responses compared to myeloid-derived macrophages 36 samples shares mycobacterium, macrophages
- GSE284562 Transport stress induces immune dysregulation and exacerbates Mycobacterium tuberculosis infection in mice 28 samples shares mycobacterium, tuberculosis
- GSE232854 Control of Mycobacterium abscessus pulmonary infection requires IFN- γ Induced formation of foam macrophages 22 samples shares mycobacterium, macrophages
- GSE281697 Systems-level computational translation of mouse and human transcriptomics reveals a role for the unfolded protein response in Mycobacterium tuberculosis infection 20 samples shares mycobacterium, tuberculosis
- GSE272755 Transcriptional effects of lysosome stress on mouse bone marrow-derived macrophages and primary microglia 263 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.