Immunosuppressive monocytes are enriched in hepatocellular carcinoma patients with liver dysfunction in a phase II trial of combination sorafenib and nivolumab
RNA-seq (gene expression) · human · 210 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)
- Topic
- Hepatocellular carcinomaThis series is part of our curated briefing on it.
- Samples
- 210 samples: 38 conditions, mostly in duplicateGroups 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
- Phase II trial with nivolumab and sorafenib in HCC identified enrichment of immunosuppressive monocytes in patients with Child-Pugh B liver dysfunctionJHEP reports : innovation in hepatology · 2026
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 GSE318420_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 PRJNA1418700 and SRA study SRP654876. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 143 samples read as cases, 42 as controls.
How we read this: 38 replicated groups read from 210 sample titles; they account for 108 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.
- GSM9371441 HCC PBMC patient A-07 timepoint C2D1 scRNA-seq replicate 1 HCC PBMC patient A-07 t…
- GSM9371442 HCC PBMC patient B-23 timepoint C3D1 scRNA-seq
- GSM9371443 HCC PBMC patient B-21 timepoint C1D1 scRNA-seq
- GSM9371444 HCC PBMC patient B-10 timepoint C2D1 scRNA-seq
- GSM9371445 HCC PBMC patient B-03 timepoint C1D1 scRNA-seq
- GSM9371446 HCC PBMC patient B-22 timepoint C3D1 scRNA-seq
- GSM9371447 HCC PBMC patient A-04 timepoint C2D1 scRNA-seq replicate 1 HCC PBMC patient A-04 t…
- GSM9371448 PBMC healthy donor scRNA-seq replicate 1-1 PBMC healthy donor scRN…
- GSM9371449 HCC PBMC patient A-32 timepoint C1D1 scRNA-seq
- GSM9371450 HCC PBMC patient A-12 timepoint baseline scRNA-seq replicate 1 HCC PBMC patient A-12 t…
- GSM9371451 HCC PBMC patient A-04 timepoint C2D1 scRNA-seq replicate 2 HCC PBMC patient A-04 t…
- GSM9371452 HCC PBMC patient B-17 timepoint C1D1 scRNA-seq
- GSM9371453 HCC PBMC patient B-12 timepoint C2D1 scRNA-seq
- GSM9371454 HCC PBMC patient B-22 timepoint C2D15 scRNA-seq
- GSM9371455 HCC PBMC patient B-08 timepoint C1D1 scRNA-seq
- GSM9371456 PBMC healthy donor scRNA-seq replicate 1-3 PBMC healthy donor scRN…
- GSM9371457 HCC PBMC patient B-13 timepoint C2D1 scRNA-seq
- GSM9371458 HCC PBMC patient B-02 timepoint C1D1 scRNA-seq
- GSM9371459 HCC PBMC patient A-08 timepoint C1D1 scRNA-seq replicate 1 HCC PBMC patient A-08 t…
- GSM9371460 HCC PBMC patient A-12 timepoint baseline scRNA-seq replicate 2 HCC PBMC patient A-12 t…
- GSM9371461 HCC PBMC patient B-09 timepoint baseline scRNA-seq
- GSM9371462 HCC PBMC patient A-21 timepoint baseline scRNA-seq
- GSM9371463 HCC PBMC patient A-07 timepoint C2D1 scRNA-seq replicate 2 HCC PBMC patient A-07 t…
- GSM9371464 HCC PBMC patient B-03 timepoint C7D1 scRNA-seq
- GSM9371465 HCC PBMC patient B-23 timepoint C1D15 scRNA-seq
- GSM9371466 HCC PBMC patient B-05 timepoint C1D1 scRNA-seq
- GSM9371467 HCC PBMC patient B-14 timepoint C2D1 scRNA-seq replicate 1 HCC PBMC patient B-14 t…
- GSM9371468 HCC PBMC patient A-05 timepoint C4D1 scRNA-seq replicate 1 HCC PBMC patient A-05 t…
- GSM9371469 PBMC healthy donor scRNA-seq replicate 1-5 PBMC healthy donor scRN…
- GSM9371470 HCC PBMC patient A-30 timepoint C1D1 scRNA-seq replicate 1 HCC PBMC patient A-30 t…
- GSM9371471 HCC PBMC patient B-10 timepoint C1D1 scRNA-seq
- GSM9371472 HCC PBMC patient B-17 timepoint C2D1 scRNA-seq
- GSM9371473 HCC PBMC patient B-11 timepoint baseline scRNA-seq replicate 1 HCC PBMC patient B-11 t…
- GSM9371474 HCC PBMC patient B-17 timepoint Safety follow up scRNA-seq
- GSM9371475 HCC PBMC patient B-12 timepoint C1D1 scRNA-seq
- GSM9371476 HCC PBMC patient B-06 timepoint C1D1 scRNA-seq
- GSM9371477 HCC PBMC patient B-02 timepoint C2D1 scRNA-seq
- GSM9371478 HCC PBMC patient B-08 timepoint C7D1 scRNA-seq
- GSM9371479 PBMC healthy donor scRNA-seq replicate 1-6 PBMC healthy donor scRN…
- GSM9371480 HCC PBMC patient A-02 timepoint C1D1 scRNA-seq
+ 170 more — browse all 210 samples with per-sample file links →
- GSE109211 Molecular predictors of prevention of recurrence in hepatocellular carcinoma with sorafenib as adjuvant treatment in the phase 3 STORM trial 140 samples same disease briefing · shares hepatocellular, sorafenib
- GSE14520 Gene expression data of human hepatocellular carcinoma (HCC) 488 samples same disease briefing · shares hepatocellular
- GSE10143 Gene Expression in Fixed Tissues and Outcome in Hepatocellular Carcinoma 387 samples same disease briefing · shares hepatocellular
- GSE107170 Molecular Signature of Hepatitis D Virus-Associated Hepatocellular Carcinoma 307 samples same disease briefing · shares hepatocellular
- GSE10186 Integrative Transcriptome Analysis Reveals Common Molecular Subtypes of Human Hepatocellular Carcinoma 118 samples same disease briefing · shares hepatocellular
- GSE105130 Comprehensive analysis of Transcriptome Profiles in Hepatocellular Carcinoma patients 52 samples same disease briefing · shares hepatocellular
- GSE140228 Landscape and Dynamics of Single Immune Cells in Hepatocellular Carcinoma 41 samples same disease briefing · shares hepatocellular
- GSE114564 Identification of novel serum biomarkers in early-stage HCC patients. 118 samples same disease briefing
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.