## 2 Results
### RNA Sequencing (RNA-seq) Analysis of Annotated Gene Transcripts
\begin{table}
\begin{tabular}{|l|l|l|l|l|} \hline
**Ensembl Gene ID** & **Gene Name** & **Description** & **Fold Change** & **FDR** \\ \hline ENSG00000006327 & TNFR12A & Fuocosyltransferasetransferase 1 & **5.13** & 286.27 \\ \hline
**ENGG00000184545** & **DUSPS* ** & **Dual specificity phosphatase 8** & **5.05** & **87.30** \\ \hline ENSG00000130766 & SESN2 & Sestrin 2 & 4.84 & 593.42 \\ \hline ENSG0000070669 & ASNS & Asparagine synthetase & 4.80 & 577.30 \\ \hline ENSG00000136997 & MYC & v-myc myelocytomatosis viral oncogene homolog & 4.71 & 991.67 \\ \hline
**ENGG0000168679** & **SLC16A4** & **Solute carrier family 16 (monocarboxylic acid transporters), member 4** & **4.65** & **24.23** \\ \hline ENSG00000099889 & ARVCF & Armadillo repeat gene deletes in velocardiofacial syndrome & 4.53 & 240.65 \\ \hline
**ENGG0000162772** & **ATG3** & **Activating transcription factor 3** & **4.47** & **695.61** \\ \hline
**ENGG000016048** & **AKNA** & **AI-hook transcription factor** & **4.45** & **773.28** \\ \hline
**ENGG0000167861** & **C17 or28** & **Chromosome 17 open reading frame 28** & **4.43** & **142.87** \\ \hline
**ENGG0000138685** & **FGF2** & **Fibroblast growth factor 2** & **4.08** & **23.78** \\ \hline ENSG00000105327 & BBC3 & BCL2 binding component 3 & 4.06 & 230.60 \\ \hline ENSG00000111087 & GL11 & Glioma-associated oncogene homolog 1 (zinc finger protein) & 4.02 & 41.66 \\ \hline ENSG00000065911 & MTHED2 & Methylenetetrahydrofolate dehydrogenase (NADP+ dependent) 2, & 4.00 & 693.07 \\ \hline
**ENGG00000115520** & **COQ10B** & **Coenzyme Q10 homolog B (S. cerevisiae)** & **3.96** & **22.43** \\ \hline
**ENGG00000105499** & **PLA2G4C4** ** & **Phospholipase A2, group IVC (cytosolic, calcium-independent)** & **3.92** & **44.14** \\ \hline
**ENGG00000065600** & **TMEM20E** & **Transmembrane protein 206** & **3.90** & **57.11** \\ \hline ENSG00000108551 & RASDI & **RAS**, dexamethasone-induced 1 & 3.89 & 70.16 \\ \hline
**ENGG0000152137** & **HSPB** & **Heat shock 22 kDa protein 8** & **3.87** & **64.97** \\ \hline ENSG00000112182 & BACH2 & BTB and CNC homology 1, basic leucine zipper transcription factor 2 & 3.83 & 76.67 \\ \hline
**ENGG0000157765** & **SLC34A2** & **Homo sapiens cDNA FLJ90534 fits, highly similar to Homo sapiens sodium** & **3.80** & **41.45** \\ \hline
**ENSEG00000163393** & **SLC22A15** & **Solute carrier family 22 (organic cation transporter), member 15** & **3.77** & **104.50** \\ \hline ENSG0000168003 & SLC3A2 & Solute carrier family 3 (activators of dibasic and neutral amino acid transport), member 2 & 3.77 & 1977.88 \\ \hline
**ENGG0000164949** & **GEM** & **GTP binding protein overexpressed in skeletal muscle (GEM)** & **3.71** & **51.70** \\ \hline
**ENGG0000107281** & **NPDC1** & **Neural proliferation, differentiation and control, 1** & **3.68** & **38.82** \\ \hline \end{tabular}
\end{table} 
Table 1: _Cont._ \begin{table}
\begin{tabular}{|l|l|l|l|l|} \hline
**Ensembl Gene ID** & **Gene Name** & **Description** & **Fold Change** & **FDR** \\ \hline
**EnsG00000154025** & **SLC5A10** & **Solute carrier family 5 (sodium/glucose cotransporter), member 10** & **3.67** & **50.35** \\ \hline
**EnsG00000196517** & **SLC6A9** & **Solute carrier family 6 (neurotransmitter transporter, glycine, member 9** & **3.65** & **153.70** \\ \hline
**EnsG0000166173** & **LARP6** & **La ribonucleoprotein domain family, member 6** & **3.62** & **146.96** \\ \hline
**EnsG0000184371** & **CSF1** & **Colony stimulating factor 1 (macrophage)** & **3.58** & **132.33** \\ \hline
**EnsG0000120129** & **DUSP1** & **Dual specificity phosphatase 1 (DUSP1)** & **3.53** & **446.22** \\ \hline \end{tabular}
\end{table} 
Table 2: The 25 most highly downregulated genes during acute HCV infection. Genes are presented in the order of fold change relative to controls and the time after HCV infection and FDR values are provided. Newly identified downregulated genes are shown in bold. A complete list of significantly upregulated genes are provided in Supplemental Materials.