Abstract
Background:
The global effect of HIV infection on the host cell gene expression profiles in healthy HIV-infected patients, as long-term non-progressors, remains largely unknown. To identify the cellular genes related with HIV infection and delayed disease progression in vivo, the host gene expression profiles between healthy HIV-infected Koreans and AIDS patients were investigated.
Methods:
Differential expression gene analysis was performed via oligonucleotide microarray with using Magic-oligo 10K chip. Ten HIV-uninfected persons and 10 HIV-infected patients (healthy HIV-infected patients vs. AIDS patients. respectively) were studied.
Results:
Only 10.8% (1,097 genes) of the total genes, that is, 331 up-regulated genes and 766 down-regulated genes were differentially expressed with more than a two-fold change in the HIV-infected persons as compared to those of the HIV-uninfected persons. Especially, 97 genes (8.8%) among 1,097 genes were commonly up- or down-regulated in both the healthy HIV-infected patients and the AIDS patients. 187 genes were differently expressed on the gene expression analysis between the healthy HIV-infected patients and the AIDS patients. Twenty-eight genes out of them showed very significant differences with a P value <0.01. Especially, tripartite motif (TRIM) 14 protein and interferon gamma receptor 2 were dramatically up-regulated in healthy HIV-infected patients, while death-associated protein, DNA directed RNA polymerase II polypeptide A and STAT were overexpressed in AIDS patients.
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Fig. 1
Distribution of the changes of gene expression profiles in healthy HIV-infected and AIDS patients compared to those of HIV-uninfected persons. The upper and lower show whole gene expression profiles and the distribution of differentially expressed genes (DEGs) with>two-fold change between healthy HIV-infected and AIDS patients, respectively. A and H represent AIDS patients and Healthy HIV-in-fected persons. (A and H) means DEGs that were commonly expressed in two groups and (A or H) means the total number of differentially expressed genes with>two fold change in two groups. Each value of fold change was presented in log 2.
![kjh-42-33f1.tif](/upload/SynapseXML/0072kjh/thumb/kjh-42-33f1.gif)
Fig. 2
The functional distribution of differentially expressed genes in HIV-infected patients. DEGs were divided into 7 categories based on their function. Numbers mean the percentages of genes in each category compared to total number of genes regulated. (A) The distribution of 331 up-regulated genes based on their cellular function. Genes that involved in signaling/communication were mostly up-regulated. (B) The distribution of overexpressed signaling/communication related genes in HIV-infected patients according to sub-categories. Signaling/communication genes were further divided into 10 classes. Receptors, ligands, and kinases genes were mostly up-regulated. (C) The distribution of 766 down-regulated genes based on their cellular function. (D) Distribution of down-regulated signaling/communication related genes in HIV-infected patients according to sub-categories. Signaling/communication genes were further divided into 10 classes. Receptors related genes were mostly down-regulated.
![kjh-42-33f2.tif](/upload/SynapseXML/0072kjh/thumb/kjh-42-33f2.gif)
Table 1.
The representative genes that were commonly up-regulated in Healthy HIV-infected and AIDS groups compared to those of HIV-uninfected group
Table 2.
The representative genes that were simultaneously down-regulated in Healthy HIV-infected and AIDS groups compared to those of HIV-uninfected group
Table 3.
Gene lists showing the significant difference with P<0.01 in gene expression profiles between healthy HIV-infected and AIDS patients by the univariate test