| Gene set: L0_SM_L1 (C2:CLIN:0029) | | Standard name | L0_SM_L1 |
| Systematic name | C2:CLIN:0029 |
| Brief description | Genes highly expressed in non-tumor liver with hepatitis virus infection vs. liver without hepatitis virus infection. |
| Category | C2: Curated |
| Sub-category | CLIN: Clinical |
| Full description or Abstract | Using high-density oligonucleotide array, we comprehensively analyzed
expression levels of 12600 genes in 50 hepatocellular carcinoma
(HCC) samples with positive hepatitis C virus (HCV) serology (well
(G1), moderately (G2), and poorly (G3) differentiated tumors)
and 11 non-tumorous livers (L1 and L0) with and without HCV infection.
We searched for discriminatory genes of transition (L0 vs. L1,
L1 vs. G1, G1 vs. G2, G2 vs. G3) with a supervised learning method,
and then arranged the samples by self-organizing map (SOM) with
the discriminatory gene sets. The SOM arranged the five clusters
on a unique sigmoidal curve in the order L0, L1, G1, G2, and G3.
The sample arrangement reproduced development-related features
of HCC such as p53 abnormality. Strikingly, G2 tumors without
venous invasion were located closer to the G1 cluster, and most
G2 tumors with venous invasion were located closer to the G3 cluster
(P=0.001 by Fisher's exact test). Our present profiling data will
serve as a framework to understand the relation between the development
and dedifferentiation of HCC. |
| Publication URL | 15710396 |
| External links | na |
| Keywords & MeSH headings | Male,Neoplastic,RNA,Messenger/analysis/genetics,Middle Aged,Oligonucleotide Array Sequence Analysis,Gene Expression Profiling,Hepacivirus/physiology,classification,Female,Neoplasm Staging,Humans,Carcinoma,pathology,Protein p53/genetics,genetics,Reverse Transcriptase Polymerase Chain Reaction,Gene Expression Regulation,Reproducibility of Results,Hepatitis C/complications/genetics,Hepatocellular |
| Organism | Human |
| Contributed by | Yujin Hoshida |
| Source platform | HG_U95Av2 |
| Download | grp|xml|map |
| Genes | 15 genes, 22 accessions (Toggle view) | Accession | Gene | Title | Links |
|---|
| M13560 | | AL008726 | | Z69043 | | AL022723 | | D32129 | | U50523 | | M63138 | | U47101 | | L13977 | | J03909 | | D32053 | | AF102803 | | U81554 | | AI362017 | | AF017115 | | M36035 | | AF038962 | | AL080080 | | M81757 | | M83664 | | M21186 | | L09159 |
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