Histone lactylation during host–pathogen interaction: An intimate and persistent affair between Pseudomonas aeruginosa quorum-sensing signaling and host lactate
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 cells vs 3 × PA14 infected cells vs 3 × mvfR mutant infected cells vs 3 × mvfR mutant supplemented with 2-AA in infected cellsGroups 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 GSE302311_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 PRJNA1289845 and SRA study SRP599964. 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.
- GSM9101676 Uninfected cells_1 Uninfected cells
- GSM9101677 Uninfected cells_2 Uninfected cells
- GSM9101678 Uninfected cells_3 Uninfected cells
- GSM9101679 PA14 infected cells_1 PA14 infected cells
- GSM9101680 PA14 infected cells_2 PA14 infected cells
- GSM9101681 PA14 infected cells_3 PA14 infected cells
- GSM9101682 mvfR mutant infected cells_1 mvfR mutant infected ce…
- GSM9101683 mvfR mutant infected cells_2 mvfR mutant infected ce…
- GSM9101684 mvfR mutant infected cells_3 mvfR mutant infected ce…
- GSM9101685 mvfR mutant supplemented with 2-AA in infected cells_1 mvfR mutant supplemente…
- GSM9101686 mvfR mutant supplemented with 2-AA in infected cells_2 mvfR mutant supplemente…
- GSM9101687 mvfR mutant supplemented with 2-AA in infected cells_3 mvfR mutant supplemente…
- GSE272417 Early Decline of Conventional NK Cells During Acute Pseudomonas aeruginosa Lung Infection 15 samples shares pseudomonas, aeruginosa
- GSE244474 T cell - DAM feedback loop drives CNS inflammation and neurodegenration in SPG15 at an early age via CCR5-CCL5 interaction [CD3+] 1135 samples shares interaction
- GSE255212 Transcriptomic Signatures of WNT-Driven Pathways and Granulosa Cell-Oocyte Interaction during Primordial Follicle Activation 762 samples shares interaction
- GSE262290 Metabolic modeling reveals the aging-associated decline of host–microbiome metabolic interactions in mice 156 samples shares interaction
- GSE278548 Metabolic modeling reveals the aging-associated decline of host-microbiome metabolic interactions in mice 119 samples shares interaction
- GSE252621 Interactions of Polychlorinated Biphenyls and Their Metabolites with the Brain and Liver Transcriptome of Female Mice 62 samples shares interaction
- GSE263738 Bi-directional immunosuppressive interactions between astrocytes and glioblastoma cells identified by barcoded viral tracing [Mouse Bulk RNA-Seq Dataset of Monocytes, T Cells and Astrocytes 63FG] 57 samples shares interaction
- GSE300176 Molecular Signatures and Signaling Interactions of the Hair Follicle Stem Cell Niche 56 samples shares interaction
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.