A two-step de-differentiation and maturation of primary human hepatocytes in vitro with efficient metabolic and regenerative capacities
RNA-seq (gene expression) · human · 24 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
- 24 samples: 24 samples, each with a distinct title — no replicated groupsGroups 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
- A two-step strategy to expand primary human hepatocytes in vitro with efficient metabolic and regenerative capacitiesStem cell research & therapy · 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 GSE261962_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 PRJNA1089630 and SRA study SRP496512. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 24 sample titles: 24 distinct titles with little repetition. 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.
- GSM8155219 NHEM, replicate1, RNAseq
- GSM8155220 NHEM, replicate2, RNAseq
- GSM8155221 NHEM, replicate3, RNAseq
- GSM8155222 NHEM, replicate4, RNAseq
- GSM8155223 NHEM, replicate5, RNAseq
- GSM8155224 NHEM, replicate6, RNAseq
- GSM8155225 NHEM, replicate7, RNAseq
- GSM8155226 NHEM, replicate8, RNAseq
- GSM8155227 NHEM, replicate9, RNAseq
- GSM8155228 5C, replicate1, RNAseq
- GSM8155229 5C, replicate2, RNAseq
- GSM8155230 6C, replicate1, RNAseq
- GSM8155231 6C, replicate2, RNAseq
- GSM8155232 fresh, replicate1, RNAseq
- GSM8155233 HEM_LS, replicate1, RNAseq
- GSM8155234 HEM_LS, replicate2, RNAseq
- GSM8155235 HEM, replicate1, RNAseq
- GSM8155236 HEM, replicate2, RNAseq
- GSM8155237 BHEM, replicate1, RNAseq
- GSM8155238 BHEM, replicate2, RNAseq
- GSM8155239 BHEM, replicate3, RNAseq
- GSM8155240 BHEM, replicate4, RNAseq
- GSM8155241 BHEM, replicate5, RNAseq
- GSM8155242 BHEM, replicate6, RNAseq
- GSE228249 Transcriptome analysis of primary human hepatocytes-derived organoids [RNA-seq] 82 samples shares hepatocytes, primary
- GSE307755 Direct contact between iPSC-derived macrophages and hepatocytes drives reciprocal acquisition of Kupffer cell identity and hepatocyte maturation 53 samples shares hepatocytes, maturation
- GSE226019 Restored glyoxylate metabolism in induced-hepatocytes after CRISPR/Cas-mediated AGXT gene correction and direct cell reprogramming of Primary Hyperoxaluria Type 1 fibroblasts 39 samples shares hepatocytes, primary
- GSE306280 Yellow fever vaccine propagation in primary human hepatocytes triggers antiviral and cytolytic responses 36 samples shares hepatocytes, primary
- GSE334407 Physiologically relevant media are associated with overlapping metabolic responses in primary human hepatocytes and Huh7 cells 30 samples shares hepatocytes, primary
- GSE247407 Induction ofsteatosis in primary human hepatocytes manifests into hepatic pathophysiology of metabolic dysfunction-associated liver disease 30 samples shares hepatocytes, primary
- GSE298576 Mass generation and long-term expansion of hepatocyte organoids from adult primary hepatocytes 24 samples shares hepatocytes, primary
- GSE324107 Comparable Transcriptomic Profiles of HepaRG and HuH7 Cells Cultured in Chemically Defined and Serum-Based Media Using Primary Human Hepatocytes as Reference 20 samples shares hepatocytes, primary
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.