Lianrong Pu

PlasChain improves long plasmid reconstruction from metagenome assemblies by addressing fragmentation and false positives, outperforming existing methods in recovering long plasmids.

VACmap improves detection of complex genomic rearrangements like inversions and duplications, which are critical for understanding diseases such as cardiovascular disease and Parkinson's disease.

The paper introduces 4CAC, a classifier that identifies four microbial classes from metagenome assemblies, outperforming existing methods on both short and long reads.

The paper introduces new minimizer orders for large k-values using decycling sets, improving efficiency in DNA sequencing analysis.

3CAC improves phage and plasmid classification in metagenomic assemblies by leveraging assembly graph proximity, outperforming existing tools in precision and recall.

The paper demonstrates that using universal hitting sets improves de Bruijn graph construction efficiency by reducing runtime and memory usage in genome assembly.

The paper introduces an algorithm to find longest common exemplar subsequences between genomes, validated on human and gorilla chromosomes, identifying conserved pseudo genes.