Transcriptomic analysis of high-fat diet-fed mice treated with CYP4A inhibitors
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 × NCD, biol vs 3 × HFD, biol vs 3 × HFD + C1, biol vs 3 × HFD + C2, biolGroups 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
- Discovery of a selective cytochrome P450 4A inhibitor for the treatment of metabolic dysfunction-associated fatty liver diseaseClinical and translational medicine · 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 GSE229697_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 PRJNA955300 and SRA study SRP432596. 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.
- GSM7173366 NCD, biol rep 1 NCD, biol
- GSM7173367 NCD, biol rep 2 NCD, biol
- GSM7173368 NCD, biol rep 3 NCD, biol
- GSM7173369 HFD, biol rep 1 HFD, biol
- GSM7173370 HFD, biol rep 2 HFD, biol
- GSM7173371 HFD, biol rep 3 HFD, biol
- GSM7173372 HFD + C1, biol rep 1 HFD + C1, biol
- GSM7173373 HFD + C1, biol rep 2 HFD + C1, biol
- GSM7173374 HFD + C1, biol rep 3 HFD + C1, biol
- GSM7173375 HFD + C2, biol rep 1 HFD + C2, biol
- GSM7173376 HFD + C2, biol rep 2 HFD + C2, biol
- GSM7173377 HFD + C2, biol rep 3 HFD + C2, biol
- GSE298720 Global gene expression profiles were compared among IL1B-treated, Ad-OSCAR-treated, and control mice, with or without subsequent treatment with OSCAR inhibitors (Brivudine or Adefovir). 35 samples shares inhibitors, treated
- GSE211774 RNA-seq of bilateral frontal cortex tissues in mice treated with HDAC complex inhibitors 22 samples shares inhibitors, treated
- GSE249265 Transcriptomics of BMDM treated with PTEN in the presence or absence of STAT1 inhibitors 16 samples shares inhibitors, treated
- GSE246706 Liver-specific matrin-3 knockout alters the hepatic transcriptome of high-fat diet-fed mice [RNA-seq] 16 samples shares high-fat, diet-fed
- GSE274825 RNA sequencing of MC38 tumor cells from control-diet- and high-fat-diet-fed C57BL/6J mice 10 samples shares high-fat, diet-fed
- GSE201128 The response to lipopolysaccharide (LPS) of bone marrow derived macrophages treated with oxysterol binding protein (OSBP) inhibitors 30 samples shares inhibitors, treated
- GSE229409 Gene expression profile at single cell level of murine glioblastomas treated with and without anti-CSF-1R inhibitors 10 samples shares inhibitors, treated
- GSE337208 scRNA seq. of PDAC models treated with Kras inhibitors in combination with checkpoint immunotherapy 9 samples shares inhibitors, treated
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.