Songbo Wang

The paper shows that somatic variants' transcriptomic impact depends on cellular context, not just sequence, using single-cell transcriptomics and new tools.

The paper develops LTR_Stream to cluster LTR-RTs in Papaver species, revealing complex interactions between retrotransposons and the host genome, including effects of allopolyploidization.

Swave identifies structural variants from pangenome graphs, revealing complex SV patterns and pathogenic variants in human populations.

Pindel-TD detects tandem duplications with high precision and recall using a pattern growth approach, outperforming existing methods on simulated and real data.

This study generates haplotype-resolved assemblies and a variant benchmark for a Chinese monozygotic twin quartet using advanced sequencing and computational methods.

This study compares read-based and assembly-based strategies for detecting structural variants using long-read data and finds that assembly-based methods are more consistent with sufficient coverage, while read-based methods offer higher sensitivity at lower coverage.

The paper uses long-read sequencing to identify HBV integration-driven genome rearrangements in HCC and links them to immune and metabolic dysfunction.

The paper presents a high-quality Arabidopsis thaliana genome assembly using long-read sequencing and Hi-C data, resolving previously missing regions and centromeres.

Mako detects complex structural variants using a graph-based pattern growth approach, achieving 70% validation rate on real data and identifying 15 CSV types including two novel ones.