Jiang Yong Hu

Bamsnap-LRS: an automated batch visualization tool for long-read sequencing alignments

Bamsnap-LRS automates batch visualization of long-read sequencing alignments, supporting genomic, transcriptomic, and haplotype-aware analyses with publication-ready figure generation.

Context-aware simulation enables systematic optimization of long-read mapping parameters

The paper introduces CycSim, a context-aware simulator for long-read mapping that improves parameter optimization, achieving faster mapping and better accuracy across different sequencing platforms.

Redox Regulation of m6A Methyltransferase METTL3 in Human β-cells Controls the Innate Immune Response in Type 1 Diabetes

This study shows that m6A methylation, regulated by METTL3, controls the innate immune response in β-cells during T1D onset by modulating OAS mRNA stability.

NextPolish2: a repeat-aware polishing tool for genomes assembled using HiFi long reads

NextPolish2 improves genome accuracy by fixing base errors in HiFi assemblies without overcorrections or haplotype switch errors.

T2T-YAO: a Telomere-to-telomere Assembled Diploid Reference Genome for Han Chinese

The paper presents T2T-YAO, a telomere-to-telomere diploid reference genome for a Han Chinese male, offering improved haplotype resolution and genetic diversity compared to T2T-CHM13.

m6A mRNA Methylation Regulates Early Pancreatic β-Cell Differentiation

This study investigates the role of m6A methylation in early pancreatic β-cell differentiation in humans and mice, showing METTL14's essential role in this process.

An efficient error correction and accurate assembly tool for noisy long reads

NextDenovo corrects noisy Nanopore reads faster and more accurately than Canu and Necat; its maize and 35 human-genome assemblies are more contiguous, with fewer misassemblies, than Flye's.

Comparison of the two up-to-date sequencing technologies for genome assembly: HiFi reads of Pacbio Sequel II system and ultralong reads of Oxford Nanopore

This study compares genome assemblies from Pacbio HiFi and Oxford Nanopore ultralong reads in rice, finding that ONT provides better contiguity but more errors, while PB offers fewer errors but lower contiguity.

The Tung Tree (Vernicia Fordii) Genome Provides A Resource for Understanding Genome Evolution and Oil Improvement

The paper presents a high-quality tung tree genome, identifies oil-related genes, and provides insights into genome evolution and oil biosynthesis mechanisms.

NextSV: a meta-caller for structural variants from low-coverage long-read sequencing data

NextSV is a meta-caller for structural variants from low-coverage long-read sequencing data, providing sensitive and stringent call sets with balanced performance.