Fig. 2

Local haplotype of HBV-integrated genomic region in sample PVTT. a Human genomic region of chr1 and chr8 flanking HBV integrations are divided into segments (A~D) by viral insertions. Breakpoints are noted by circled numbers. Sequencing depth spectrum (red for tumor, light-blue for control) are displayed with copy numbers of segments. Dark-blue lines denote average depth of segments. For each segment junction, micro-homologies in bilateral twenty base-pairs (pink for one-bp size; red for larger). Mutations on HBV genome were denoted by red asterisks. Connection orientation of segments are noted by circled plus or minus symbol in red. b Constructed HBV_B2 genome is segmented (a~e) by breakpoints with circled numbers. c Resolved alleles of local haplotype are indicated as coloured segments connected string with copy times. The “circular junction” means HBV genome circular loop site. d Hybrid chromosome and copy number shift of chr1 and chr8 from normal cell to tumor cell. Parental homologous chromosomes are in different colors