Beifang Niu

RabbitCD-HIT: Distributed High-Sensitivity Greedy Incremental Clustering for Billion-Scale Protein Sequences in Hours

RabbitCD-HIT clusters billion-scale protein sequences efficiently, achieving faster performance than CD-HIT on large datasets.

RabbitVar: ultra-fast and accurate somatic small-variant calling on multi-core architectures

RabbitVar is a somatic variant caller that achieves high accuracy and efficiency for small variants in cancer genomics, outperforming existing tools on real-world datasets.

RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches

RabbitTClust clusters large bacterial genome datasets using MinHash sketches, achieving fast processing times for millions of genomes.

OncoPubMiner: A platform for oncology publication mining

OncoPubMiner is a platform that mines oncology publications to create structured knowledge bases, enabling efficient and accurate gathering of precision oncology insights from scientific articles.

Germline determinants of the somatic mutation landscape in 2,642 cancer genomes

This study identifies germline genetic variants influencing somatic mutation patterns in 2,642 cancer genomes across 39 cancer types.

Comprehensive Molecular Characterization of Mitochondrial Genomes in Human Cancers

This study characterizes mitochondrial genomes in 2,700 cancer patients across 37 types using whole-genome sequencing and RNA-seq, revealing mutational patterns, truncating mutations, and nuclear transfer of mitochondrial DNA.