Berberine directly targets AKR1B10 protein to modulate lipid and glucose metabolism disorders in NAFLD
RNA-seq (gene expression) · mouse · 16 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
- 16 samples: 4 × negative control mice vs 4 × negative control mice with BB vs 4 × AKR1B10 knockdown mice vs 4 × AKR1B10 knockdown mice with BBGroups 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
- Berberine directly targets AKR1B10 protein to modulate lipid and glucose metabolism disorders in NAFLDJournal of ethnopharmacology · 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 GSE252928_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 PRJNA1063255 and SRA study SRP482918. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 8 samples read as cases, 8 as controls.
How we read this: 4 replicated groups read from 16 sample titles; they account for 16 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.
- GSM8010450 negative control mice 1 negative control mice
- GSM8010451 negative control mice 2 negative control mice
- GSM8010452 negative control mice 3 negative control mice
- GSM8010453 negative control mice 4 negative control mice
- GSM8010454 negative control mice with BBR 1 negative control mice w…
- GSM8010455 negative control mice with BBR 2 negative control mice w…
- GSM8010456 negative control mice with BBR 3 negative control mice w…
- GSM8010457 negative control mice with BBR 4 negative control mice w…
- GSM8010458 AKR1B10 knockdown mice 1 AKR1B10 knockdown mice
- GSM8010459 AKR1B10 knockdown mice 2 AKR1B10 knockdown mice
- GSM8010460 AKR1B10 knockdown mice 3 AKR1B10 knockdown mice
- GSM8010461 AKR1B10 knockdown mice 4 AKR1B10 knockdown mice
- GSM8010462 AKR1B10 knockdown mice with BBR 1 AKR1B10 knockdown mice …
- GSM8010463 AKR1B10 knockdown mice with BBR 2 AKR1B10 knockdown mice …
- GSM8010464 AKR1B10 knockdown mice with BBR 3 AKR1B10 knockdown mice …
- GSM8010465 AKR1B10 knockdown mice with BBR 4 AKR1B10 knockdown mice …
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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.