Evidence of a gut-adipose-liver axis: microbiota encroachment in metabolic dysfunction-associated steatotic liver disease
RNA-seq (gene expression) · human · 39 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
- Homo sapiens (human)
- Samples
- 39 samples: 13 × Healthy vs 13 × Steatosis vs 13 × FibrosisGroups 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 GSE282757_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 PRJNA1190373 and SRA study SRP547393. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 39 samples.
How we read this: 3 replicated groups read from 39 sample titles; they account for 39 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.
- GSM8650033 Healthy 1 Healthy
- GSM8650034 Steatosis 1 Steatosis
- GSM8650035 Steatosis 2 Steatosis
- GSM8650036 Steatosis 3 Steatosis
- GSM8650037 Steatosis 4 Steatosis
- GSM8650038 Steatosis 5 Steatosis
- GSM8650039 Steatosis 6 Steatosis
- GSM8650040 Healthy 2 Healthy
- GSM8650041 Steatosis 7 Steatosis
- GSM8650042 Steatosis 8 Steatosis
- GSM8650043 Healthy 3 Healthy
- GSM8650044 Steatosis 9 Steatosis
- GSM8650045 Steatosis 10 Steatosis
- GSM8650046 Healthy 4 Healthy
- GSM8650047 Fibrosis 1 Fibrosis
- GSM8650048 Steatosis 11 Steatosis
- GSM8650049 Healthy 5 Healthy
- GSM8650050 Healthy 6 Healthy
- GSM8650051 Healthy 7 Healthy
- GSM8650052 Steatosis 12 Steatosis
- GSM8650053 Fibrosis 2 Fibrosis
- GSM8650054 Healthy 8 Healthy
- GSM8650055 Fibrosis 3 Fibrosis
- GSM8650056 Healthy 9 Healthy
- GSM8650057 Healthy 10 Healthy
- GSM8650058 Steatosis 13 Steatosis
- GSM8650059 Healthy 11 Healthy
- GSM8650060 Healthy 12 Healthy
- GSM8650061 Healthy 13 Healthy
- GSM8650062 Fibrosis 4 Fibrosis
- GSM8650063 Fibrosis 5 Fibrosis
- GSM8650064 Fibrosis 6 Fibrosis
- GSM8650065 Fibrosis 7 Fibrosis
- GSM8650066 Fibrosis 8 Fibrosis
- GSM8650067 Fibrosis 9 Fibrosis
- GSM8650068 Fibrosis 10 Fibrosis
- GSM8650069 Fibrosis 11 Fibrosis
- GSM8650070 Fibrosis 12 Fibrosis
- GSM8650071 Fibrosis 13 Fibrosis
- GSE281797 Transcriptomic profiles of liver biopsies in obese patients with metabolic dysfunction-associated steatotic liver disease 94 samples shares dysfunction-associated, steatotic, liver
- GSE303090 Mature Polarized Hepatocyte Organoids Derived from Human Embryonic Stem Cells for Modeling the Pathogenesis and Progression of Metabolic Dysfunction-Associated Steatotic Liver Disease and Therapeutic Drug Screening 12 samples shares dysfunction-associated, steatotic, liver
- GSE318806 P21+TREM2+-Senescent Macrophages Fuel Inflammaging and Metabolic Dysfunction-Associated Steatotic Liver Disease. [Blood] 9 samples shares dysfunction-associated, steatotic, liver
- GSE269926 Single nucleus RNA-sequencing integrated into risk variant colocalization discovers 17 cell-type-specific abdominal obesity genes for metabolic dysfunction-associated steatotic liver disease [scRNA-seq] 8 samples shares dysfunction-associated, steatotic, liver
- GSE244832 Multi-Modal Comparison of human Hepatic Stellate Cells identifies novel therapeutic targets for Metabolic Dysfunction-Associated Steatotic Liver Disease 36 samples shares dysfunction-associated, steatotic, liver
- GSE269929 Single nucleus RNA-sequencing integrated into risk variant colocalization discovers 17 cell-type-specific abdominal obesity genes for metabolic dysfunction-associated steatotic liver disease [ATAC-seq] 24 samples shares dysfunction-associated, steatotic, liver
- GSE287554 NSD2 aggravates metabolic dysfunction-associated steatotic liver disease progression by suppressing TFEB-mediated autophagy-lysosomal pathway 2 samples shares dysfunction-associated, steatotic, liver
- GSE274114 Metabolic dysfunction-associated steatohepatitis reduces interferon and macrophage liver gene signatures in chronic HBV patients 39 samples shares dysfunction-associated, liver
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.