Virus Expression Database
Submitted by Aaron F Carlin (San Diego, USA) on Aug 08 2018
Platform: ngs – Illumina HiSeq 2000 (Homo sapiens)
Pubmed: 30206152
Summary Interpretation of genome-wide investigations of host-pathogen interactions are often obscured by analyses of mixed populations of infected and uninfected cells. Thus, we developed a system whereby we simultaneously characterize and compare genome-wide transcriptional and epigenetic changes in pure populations of virally-infected and neighboring uninfected cells to identify viral-regulated host-responses. Using patient-derived unmodified Zika viruses (ZIKV) infecting primary human macrophages, we reveal that ZIKV suppresses host transcription by multiple mechanisms. ZIKV infection causes both targeted suppression of type I interferon responses and general suppression by reducing RNA polymerase II protein levels and DNA occupancy. Simultaneous evaluation of transcriptomic and epigenetic features of infected and uninfected cells provide a powerful method for identifying coincident evolution of dominant pro-viral or anti-viral mechanisms.
| ID | Title | Cell Type | Timepoint | Reported Virus | Virus Species | Exclusion Reason |
|---|---|---|---|---|---|---|
| GSM3324430 | Human1_RNA_Mock_24h | macrophage  |
24 hrs | mock | Uninfected | |
| GSM3324431 | Human1_RNA_FSS_ZIKVnegative_24h | macrophage |
24 hrs | none | Uninfected | |
| GSM3324432 | Human1_RNA_FSS_ZIKVpositive_24h | macrophage |
24 hrs | ZIKV | Zika virus | |
| GSM3324433 | Human1_RNA_SD001_ZIKVnegative_24h | macrophage |
24 hrs | none | Uninfected | |
| GSM3324434 | Human1_RNA_SD001_ZIKVpositive_24h | macrophage |
24 hrs | ZIKV | Zika virus | |
| GSM3324435 | Human3_RNA_Mock_24h | macrophage |
24 hrs | mock | Uninfected | |
| GSM3324436 | Human3_RNA_FSS_ZIKVnegative_24h | macrophage |
24 hrs | none | Uninfected | |
| GSM3324437 | Human3_RNA_FSS_ZIKVpositive_24h | macrophage |
24 hrs | ZIKV | Zika virus | |
| GSM3324438 | Human3_RNA_SD001_ZIKVnegative_24h | macrophage |
24 hrs | none | Uninfected | |
| GSM3324439 | Human3_RNA_SD001_ZIKVpositive_24h | macrophage |
24 hrs | ZIKV | Zika virus | |
| GSM3324440 | Human4_RNA_Mock_24h | macrophage |
24 hrs | mock | Uninfected | |
| GSM3324441 | Human4_RNA_ZIKVnegative_12h | macrophage |
12 hrs | none | Uninfected | |
| GSM3324442 | Human4_RNA_ZIKVnegative_18h | macrophage |
18 hrs | none | Uninfected | |
| GSM3324443 | Human4_RNA_ZIKVnegative_24h | macrophage |
24 hrs | none | Uninfected | |
| GSM3324444 | Human4_RNA_ZIKVpositive_12h | macrophage |
12 hrs | ZIKV | Zika virus | |
| GSM3324445 | Human4_RNA_ZIKVpositive_18h | macrophage |
18 hrs | ZIKV | Zika virus | |
| GSM3324446 | Human4_RNA_ZIKVpositive_24h | macrophage |
24 hrs | ZIKV | Zika virus | |
| GSM3324447 | Human5_RNA_Mock_24h | macrophage |
24 hrs | mock | Uninfected | |
| GSM3324448 | Human5_RNA_ZIKVnegative_12h | macrophage |
12 hrs | none | Uninfected | |
| GSM3324449 | Human5_RNA_ZIKVnegative_18h | macrophage |
18 hrs | none | Uninfected | |
| GSM3324450 | Human5_RNA_ZIKVnegative_24h | macrophage |
24 hrs | none | Uninfected | |
| GSM3324451 | Human5_RNA_ZIKVpositive_12h | macrophage |
12 hrs | ZIKV | Zika virus | |
| GSM3324452 | Human5_RNA_ZIKVpositive_18h | macrophage |
18 hrs | ZIKV | Zika virus | |
| GSM3324453 | Human5_RNA_ZIKVpositive_24h | macrophage |
24 hrs | ZIKV | Zika virus | |
| GSM3324454 | Human6_RNA_Mock_24h | macrophage |
24 hrs | mock | Uninfected | |
| GSM3324455 | Human6_RNA_ZIKVnegative_12h | macrophage |
12 hrs | none | Uninfected | |
| GSM3324456 | Human6_RNA_ZIKVnegative_18h | macrophage |
18 hrs | none | Uninfected | |
| GSM3324457 | Human6_RNA_ZIKVnegative_24h | macrophage |
24 hrs | none | Uninfected | |
| GSM3324458 | Human6_RNA_ZIKVpositive_12h | macrophage |
12 hrs | ZIKV | Zika virus | |
| GSM3324459 | Human6_RNA_ZIKVpositive_18h | macrophage |
18 hrs | ZIKV | Zika virus | |
| GSM3324460 | Human6_RNA_ZIKVpositive_24h | macrophage |
24 hrs | ZIKV | Zika virus |