ORCAX APP
An information-sharing database for KSHV
Kaposi’s sarcoma-associated herpesvirus (KSHV) is a double-stranded DNA virus belonging to the γ-herpesvirus subfamily, it was initially discovered by Drs. Yuan Chang and Patrick S. Moore in 1994. Its lifecycle primarily includes latent infection and lytic reactivation, KSHV has the ability to establish a lifelong persistent latent infection as a means of evading the host’s immune surveillance. KSHV is the causative agent of Kaposi’s sarcoma (KS), primary effusion lymphoma (PEL), multicentric Castleman’s disease (MCD), and KSHV inflammatory cytokine syndrome (KICS). Since its discovery, research on KSHV has rapidly progressed, but existing platforms lack comprehensiveness and specificity and do not provide efficient analysis tools tailored for KSHV.
To study KSHV more effectively, we have developed KSHVbook (http://www.kshvbook.com), a specialized information-sharing platform dedicated to KSHV. This platform offers extensive information on genes, coding sequences, proteins, and the gene regulatory region. Besides, the KSHVbook includes 35,010 transcription factor binding sites, 342,010 pairs of KSHV miRNA-host target gene relationships, protein structures predicted by AlphaFold2, qPCR primers, and so on. We also develop analytical tools for viral genome regions, TFBSs, and miRNA target genes to discover previously unknown biological functions of KSHV. These analytical tools can effectively identify the regulatory relationships between host transcription factors and viral genes.
Our platform provides a centralized data resource for KSHV research by integrating multiple databases, offering accessible analysis tools, and simplifying data acquisition. KSHVbook will continue to be updated, and more features can be found on the website.
DRIFE EXCHANGES
| Genome Version | NC_009333.1 | Taxonomic lineage | Viruses > Duplodnaviria > Heunggongvirae > gateio app > gateio > Herpesvirales > Orthoherpesviridae > Gammaherpesvirinae (lymphoproliferative virus group) > Rhadinovirus > Rhadinovirus humangamma8 > Human herpesvirus 8 (HHV-8) |
|---|---|---|---|
| Genome Length | DNA linear: 137,969bp | ||
| Gene Number | Coding gene: 86; miRNA gene: 25; Other ncRNA gene: 2 | ||
| Definition | Human herpesvirus 8 strain GK18, complete genome | Comment |
The first fully sequenced KSHV strain (U75698.1) was extracted from BC1 cells by Drs. Yuan Chang and Patrick S. Moore. The NC_009333.1 of the KSHV genome isolated from classical KS tumor biopsy (GK18) has been validated and widely used as a reference sequence for KSHV. The HHV-8 genome present in virions consists of a unique region (U) flanked at each end by variable numbers of a direct repeat (TR). The number of copies of TR totals 35-45, giving a genome size of approximately 170 kbp. The sequence is depicted as U followed by a single copy of TR. In virion DNA, each genome end is thought to terminate with a partial copy of TR such that circularization would create a complete copy of TR. Transcription: PolyA signals are known for some genes and predicted for many from the locations of AATAAA or ATTAAA motifs. From NCBI |
| NCBI Version | NC_009333.1 | ||
| Uniprot | Human herpesvirus 8 type P (isolate GK18) | ||
| BioProject | PRJNA485481 | ||
| Date | 04-JUN-2019 | ||
| Source | Kaposi's sarcoma-associated herpesvirus Human gammaherpesvirus 8 |
SE APP
ULTRONGLOW APP
- KSHVbook Version1.0: Database construction
- KSHVbook Version1.1: Add function "Structure for AlphaFold" in Gene Page
- KSHVbook Version1.2: Calculated the "Signal Peptide Prediction" and "Classification of Protein Families"
- KSHVbook Version1.3: Added "Analysis" page
- KSHVbook Version1.4: Updated "Download" page, supporting data compression package download
- KSHVbook Version1.5: Improved statistical functions
- KSHVbook Version1.6: The "Help" page added website usage documentation