Venus: An efficient virus infection detection and fusion site discovery method using single-cell and bulk RNA-seq data
Fig 6
Venus’s classification of integration sites on HIV.
Reference sequences of each species are at the bottom of each read. Due to converging HIV and human gene orientations, some sequences require reading their complements, written above in colorful letters. (A) Class I Integration Sites: human reading into HIV U3 sequence (U3), HIV U5 reading into human sequences (U5), or known splice sites from both species (SS) (B) Class II Integration Sites: U5 or U3 sequences that read into noncoding human regions (NC), differentiated by genomic coordinates (C) Class III Integration Sites: sites mapped to the middle of HIV genes.