HSD17B13 liquid-liquid phase separation activates autocrine platelet-activating factor signaling in NASH
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 × HepaRG cells, HSD17B13, vs 3 × HepaRG cells, Control, vs 3 × KO mus hepatocytes, AAV human HSD17B13, vs 3 × KO mus hepatocytes, AAV control,Groups 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
- HSD17B13 liquid-liquid phase separation promotes leukocyte adhesion in chronic liver inflammationJournal of molecular cell biology · 2024
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 GSE238060_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 PRJNA997902 and SRA study SRP451004. 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.
- GSM7658117 HepaRG cells, HSD17B13, rep1 HepaRG cells, HSD17B13,
- GSM7658118 HepaRG cells, HSD17B13, rep2 HepaRG cells, HSD17B13,
- GSM7658119 HepaRG cells, HSD17B13, rep3 HepaRG cells, HSD17B13,
- GSM7658120 HepaRG cells, Control, rep1 HepaRG cells, Control,
- GSM7658121 HepaRG cells, Control, rep2 HepaRG cells, Control,
- GSM7658122 HepaRG cells, Control, rep3 HepaRG cells, Control,
- GSM7658123 KO mus hepatocytes, AAV human HSD17B13, rep1 KO mus hepatocytes, AAV…
- GSM7658124 KO mus hepatocytes, AAV human HSD17B13, rep2 KO mus hepatocytes, AAV…
- GSM7658125 KO mus hepatocytes, AAV human HSD17B13, rep3 KO mus hepatocytes, AAV…
- GSM7658126 KO mus hepatocytes, AAV control, rep1 KO mus hepatocytes, AAV…
- GSM7658127 KO mus hepatocytes, AAV control, rep2 KO mus hepatocytes, AAV…
- GSM7658128 KO mus hepatocytes, AAV control, rep3 KO mus hepatocytes, AAV…
- GSE205881 RNA Sequencing Facilitates Quantitative Analysis of Humanized Normal Livers, NASH Livers, and HCC Transcriptomes 66 samples shares nash
- GSE260956 Hepatic GPNMB aggravates NASH through binding to RYK [RNA-Seq] 8 samples shares nash
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.