GEO series

Microarray expression data for tumor and adjacent non-tumor tissues from hepatocellular carcinoma patients

GSE76427 Homo sapiens (human) Expression microarray 167 samples Submitted 2017/05/26 Platform GPL10558

At a glance

Expression microarray · human · 167 samples

What it is: Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism: Homo sapiens (human)
Topic: Hepatocellular carcinomaThis series is part of our curated briefing on it.
Samples: 167 samples: 115 × Primary HCC tumor tissue, vs 52 × Adjacent non-tumor tissue,Groups are read from the sample names, not from the paper. Check the list below.
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

Here we aimed to develop a new molecular prognostic stratification system for hepatocellular carcinoma (HCC) patients after liver resection based on common prognostic factors for primary tumors (PTs) and adjacent non-tumor tissues (ANTTs). We studied global mRNA expression profiles from 115 PT tissue samples and 52 ANTT samples derived from 115 HCC patients.

Read the full summary ↓

Methods for the study included gene expression analysis, Functional Annotation/Gene Ontology analysis and unsupervised survival prognosis approach based on Cox hazards prognosis model. This study provides a practical prognostic system for reliable identification of the high-risk HCC patients subgroup with clearly described deregulated molecular machinery in both PTs and ANTTs.

This dataset

Open GSE76427 in finder → Find more human microarray datasets → Hepatocellular carcinoma landscape →

Download · which file do I need?

Direct links to NCBI, 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.

1 · Just have a look

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.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need.

All supplementary files ↗

3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE76427_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

What the files usually look like: For arrays the series matrix is normally the normalised expression table you want; the raw array files (CEL and similar) are in the RAW.tar.

Also filed as BioProject PRJNA307262. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 29117471) ↗

Study design

115 × Primary HCC tumor tissue, vs 52 × Adjacent non-tumor tissue,

Supports a between-group comparison across 167 samples.

How we read this: 2 replicated groups read from 167 sample titles; they account for 167 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.

Samples in this study

GSM2011285 Primary HCC tumor tissue, 19 Primary HCC tumor tissu…
GSM2011286 Primary HCC tumor tissue, 62 Primary HCC tumor tissu…
GSM2011287 Primary HCC tumor tissue, 21 Primary HCC tumor tissu…
GSM2011288 Primary HCC tumor tissue, 63 Primary HCC tumor tissu…
GSM2011289 Primary HCC tumor tissue, 46 Primary HCC tumor tissu…
GSM2011290 Primary HCC tumor tissue, 60 Primary HCC tumor tissu…
GSM2011291 Primary HCC tumor tissue, 8 Primary HCC tumor tissu…
GSM2011292 Primary HCC tumor tissue, 66 Primary HCC tumor tissu…
GSM2011293 Primary HCC tumor tissue, 17 Primary HCC tumor tissu…
GSM2011294 Primary HCC tumor tissue, 58 Primary HCC tumor tissu…
GSM2011295 Primary HCC tumor tissue, 61 Primary HCC tumor tissu…
GSM2011296 Primary HCC tumor tissue, 24 Primary HCC tumor tissu…
GSM2011297 Primary HCC tumor tissue, 25 Primary HCC tumor tissu…
GSM2011298 Primary HCC tumor tissue, 54 Primary HCC tumor tissu…
GSM2011299 Primary HCC tumor tissue, 83 Primary HCC tumor tissu…
GSM2011300 Primary HCC tumor tissue, 88 Primary HCC tumor tissu…
GSM2011301 Primary HCC tumor tissue, 85 Primary HCC tumor tissu…
GSM2011302 Primary HCC tumor tissue, 18 Primary HCC tumor tissu…
GSM2011303 Primary HCC tumor tissue, 73 Primary HCC tumor tissu…
GSM2011304 Primary HCC tumor tissue, 40 Primary HCC tumor tissu…
GSM2011305 Primary HCC tumor tissue, 53 Primary HCC tumor tissu…
GSM2011306 Primary HCC tumor tissue, 78 Primary HCC tumor tissu…
GSM2011307 Primary HCC tumor tissue, 16 Primary HCC tumor tissu…
GSM2011308 Primary HCC tumor tissue, 97 Primary HCC tumor tissu…
GSM2011309 Primary HCC tumor tissue, 41 Primary HCC tumor tissu…
GSM2011310 Primary HCC tumor tissue, 57 Primary HCC tumor tissu…
GSM2011311 Primary HCC tumor tissue, 99 Primary HCC tumor tissu…
GSM2011312 Primary HCC tumor tissue, 101 Primary HCC tumor tissu…
GSM2011313 Primary HCC tumor tissue, 76 Primary HCC tumor tissu…
GSM2011314 Primary HCC tumor tissue, 98 Primary HCC tumor tissu…
GSM2011315 Primary HCC tumor tissue, 6 Primary HCC tumor tissu…
GSM2011316 Primary HCC tumor tissue, 26 Primary HCC tumor tissu…
GSM2011317 Primary HCC tumor tissue, 3 Primary HCC tumor tissu…
GSM2011318 Primary HCC tumor tissue, 34 Primary HCC tumor tissu…
GSM2011319 Primary HCC tumor tissue, 72 Primary HCC tumor tissu…
GSM2011320 Primary HCC tumor tissue, 31 Primary HCC tumor tissu…
GSM2011321 Primary HCC tumor tissue, 22 Primary HCC tumor tissu…
GSM2011322 Primary HCC tumor tissue, 32 Primary HCC tumor tissu…
GSM2011323 Primary HCC tumor tissue, 102 Primary HCC tumor tissu…
GSM2011324 Primary HCC tumor tissue, 103 Primary HCC tumor tissu…

+ 127 more — browse all 167 samples with per-sample file links →

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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.