GEO series

Comparison of metastasis-inclined microenvironment (MIM) and metastasis-averse microenvironment (MAM) HCC patients

GSE5093 Homo sapiens (human) Expression microarray 20 samples Submitted 2006/08/17 Platform GPL1262

At a glance

Expression microarray · human · 20 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: 20 samples
Data you can get: A processed expression table (series matrix) and the array files, from NCBI.

Summary (written by the submitters)

To determine the role of the hepatic microenvironment in HCC metastasis, we compared the gene expression profiles of 20 noncancerous surrounding hepatic tissues from two HCC patient groups, those with primary HCC together with venous metastasis which we termed a metastasis-inclined microenvironment (MIM) and those with HCC without detectable metastasis, which we termed a metastasis-averse microenvironment (MAM). Keywords: disease state design

This dataset

Open GSE5093 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 (GSE5093_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 PRJNA95341. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 16904609) ↗

Samples in this study

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+ 20 more — browse all 20 samples with per-sample file links →

More Hepatocellular carcinoma datasets

GSE14520 Gene expression data of human hepatocellular carcinoma (HCC) 488 samples same disease briefing · shares hcc
GSE14323 RMA expression data for liver samples from subjects with HCV, HCV-HCC, or normal liver 124 samples same disease briefing · shares hcc
GSE114564 Identification of novel serum biomarkers in early-stage HCC patients. 118 samples same disease briefing · shares hcc
GSE134630 Profiling of N6-Adenosine (m6A) methylation in HCCLM3 cells with shCtrl or shKIAA1429 6 samples same disease briefing · shares hcc
GSE104580 Using a novel gene signature for predicting the efficacy of the transarterial chemoembolization in patients with hepatocellular carcinoma. 147 samples same disease briefing
GSE10143 Gene Expression in Fixed Tissues and Outcome in Hepatocellular Carcinoma 387 samples same disease briefing
GSE107170 Molecular Signature of Hepatitis D Virus-Associated Hepatocellular Carcinoma 307 samples same disease briefing
GSE112790 Comprehensive molecular characterization of liver cancer and inheritance of the phenotypic traits during tumor recurrence [tissue] 198 samples same disease briefing

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