Ye Qiu

Sustained cross-species transmission of gammacoronavirus in wild birds reveled by viral characterization in China

The paper characterizes five new gammacoronavirus strains in wild birds, revealing cross-species transmission between marine mammals, poultry, and wild birds.

Virome analysis provides new insights into the pathogenesis mechanism and treatment of SLE disease

This study analyzes the virome in SLE patients and controls, finding higher viral positivity in patients and suggesting viral infections may worsen disease severity.

VIGA: an one-stop tool for eukaryotic Virus Identification and Genome Assembly from next-generation-sequencing data

VIGA is a tool for eukaryotic virus identification and genome assembly from NGS data, showing improved performance in assembling complete genomes and revealing virome differences in disease states.

vsRNAfinder: a novel method for identifying high-confidence viral small RNAs from small RNA-Seq data

vsRNAfinder identifies high-confidence viral small RNAs from sRNA-Seq data, outperforming existing methods in sensitivity.

Prediction of coronavirus 3C-like protease cleavage sites using machine-learning algorithms

This study develops a random forest model to predict coronavirus 3CL protease cleavage sites, achieving high accuracy on both viral and host protein datasets.

Prokaryotic virus Host Predictor: a Gaussian model for host prediction of prokaryotic viruses in metagenomics

This paper introduces PHP, a Gaussian model for predicting hosts of prokaryotic viruses in metagenomics, achieving higher accuracy than existing methods.

Characterization of the substitution hotspots in SARS-CoV-2 genome using BioAider and detection of a SR-rich region in N protein providing further evidence of its animal origin

The paper develops BioAider for analyzing SARS-CoV-2 genomic variations, identifies 14 substitution hotspots, and detects a SR-rich region in the N protein suggesting animal origin.