Beifang Niu

30 papers Journal 23Unranked 7
YearRankTypeTitle / Venue / Authors
2026 J jnl
RabbitVar: Ultra-fast and accurate somatic small-variant calling on multi-core architectures.
Future Gener. Comput. Syst.
Hao Zhang, Lin Gan, Zekun Yin, Lifeng Yan, Honglei Song, Qixin Chang, Tong Zhang, Yanjie Wei, Beifang Niu, Bertil Schmidt, Weiguo Liu
2025 J jnl
Review of deep learning-based pathological image classification: From task-specific models to foundation models.
Future Gener. Comput. Syst.
Haijing Luan, Kaixing Yang, Taiyuan Hu, Jifang Hu, Siyao Liu, Ruilin Li, Jiayin He, Rui Yan, Xiaobing Guo, Niansong Qian, Beifang Niu
2024 J jnl
A comprehensive performance evaluation, comparison, and integration of computational methods for detecting and estimating cross-contamination of human samples in cancer next-generation sequencing analysis.
J. Biomed. Informatics
Huijuan Chen, Bing Wang, Lili Cai, Xiaotian Yang, Yali Hu, Yiran Zhang, Xue Leng, Wen Liu, Dongjie Fan, Beifang Niu, Qiming Zhou
2024 J jnl
Peridynamic modeling for multiscale heat transport of phonon Boltzmann transport equation.
Comput. Phys. Commun.
Weier Liu, Yangde Feng, Ruilin Li, Chenhan Bai, Beifang Niu
2024 — conf
Transformer-Based Multi-Scale Fusion for Robust Predicting Microsatellite Instability from Pathological Images.
BIBM
Taiyuan Hu, Haijing Luan, Rui Yan, Jifang Hu, Kaixing Yang, Xinyin Han, Weier Liu, Jiayin He, Xiaohong Duan, Ruilin Li, Fa Zhang, Beifang Niu
2023 — conf
Multi-class Cancer Classification of Whole Slide Images Through Transformer and Multiple Instance Learning.
ISBRA
Haijing Luan, Taiyuan Hu, Jifang Hu, Ruilin Li, Detao Ji, Jiayin He, Xiaohong Duan, Chunyan Yang, Yajun Gao, Fan Chen, Beifang Niu
2023 J jnl
OncoCTMiner: streamlining precision oncology trial matching via molecular profile analysis.
Database J. Biol. Databases Curation
Quan Xu, Yueyue Liu, Dawei Sun, Xiaoqian Huang, Feihong Li, Jincheng Zhai, Yang Li, Qiming Zhou, Niansong Qian, Beifang Niu
2022 J jnl
ACMViz: a visual analytics approach to understand DRL-based autonomous control model.
J. Vis.
Shiyu Cheng, Xiaochen Li, Guihua Shan, Beifang Niu, Yang Wang, Maokang Luo
2022 J jnl
OncoPubMiner: a platform for mining oncology publications.
Briefings Bioinform.
Quan Xu, Yueyue Liu, Jifang Hu, Xiaohong Duan, Niuben Song, Jiale Zhou, Jincheng Zhai, Junyan Su, Siyao Liu, Fan Chen, Wei Zheng, Zhongjia Guo, Hexiang Li, Qiming Zhou, Beifang Niu
2022 — conf
RabbitQCPlus: More Efficient Quality Control for Sequencing Data.
BIBM
Lifeng Yan, Zekun Yin, Hao Zhang, Zhan Zhao, Mingkai Wang, André Müller, Robin Kobus, Yanjie Wei, Beifang Niu, Bertil Schmidt, Weiguo Liu
2021 J jnl
Comprehensive fundamental somatic variant calling and quality management strategies for human cancer genomes.
Briefings Bioinform.
Xiaoyu He, Shanyu Chen, Ruilin Li, Xinyin Han, Zhipeng He, Danyang Yuan, Shuying Zhang, Xiaohong Duan, Beifang Niu
2021 J jnl
Comprehensive review and evaluation of computational methods for identifying FLT3-internal tandem duplication in acute myeloid leukaemia.
Briefings Bioinform.
Danyang Yuan, Xiaoyu He, Xinyin Han, Chunyan Yang, Fei Liu, Shuying Zhang, Haijing Luan, Ruilin Li, Jiayin He, Xiaohong Duan, Dongliang Wang, Qiming Zhou, Sujun Gao, Beifang Niu
2021 J jnl
MSIsensor-ct: microsatellite instability detection using cfDNA sequencing data.
Briefings Bioinform.
Xinyin Han, Shuying Zhang, Daniel Cui Zhou, Dongliang Wang, Xiaoyu He, Danyang Yuan, Ruilin Li, Jiayin He, Xiaohong Duan, Michael C. Wendl, Li Ding, Beifang Niu
2021 J jnl
RabbitQC: high-speed scalable quality control for sequencing data.
Bioinform.
Zekun Yin, Hao Zhang, Meiyang Liu, Wen Zhang, Honglei Song, Haidong Lan, Yanjie Wei, Beifang Niu, Bertil Schmidt, Weiguo Liu
2021 J jnl
Visual analysis of meteorological satellite data via model-agnostic meta-learning.
J. Vis.
Shiyu Cheng, Han-Wei Shen, Guihua Shan, Beifang Niu, Weihua Bai
2020 — conf
Change-Encryption: Encryption Using Spatiotemporal Information as a Function Model.
CSCloud/EdgeCom
Chuangchuang Dai, Haijing Luan, Qingbing Yu, Xiaoyu He, Yunhao Wang, Bincheng Shuai, Xiaobing Guo, Zhonghua Lu, Beifang Niu
2020 — conf
Digital Currency Investment Strategy Framework Based on Ranking.
ICA3PP (3)
Chuangchuang Dai, Xueying Yang, Meikang Qiu, Xiaobing Guo, Zhonghua Lu, Beifang Niu
2020 J jnl
HotSpot3D web server: an integrated resource for mutation analysis in protein 3D structures.
Bioinform.
Shanyu Chen, Xiaoyu He, Ruilin Li, Xiaohong Duan, Beifang Niu
2019 — conf
DGCF: A Distributed Greedy Clustering Framework for Large-scale Genomic Sequences.
BIBM
Zekun Yin, Xiaoming Xu, Kaichao Fan, Ruilin Li, Weizhong Li, Weiguo Liu, Beifang Niu
2019 — conf
Distributed Parameter Optimization Scheduling Strategy and System Design Based on Mesos.
BigDataSecurity/HPSC/IDS
Shuo Li, Zhonghua Lu, Yongze Sun, Sungen Deng, Beifang Niu
2019 J jnl
Gclust: A Parallel Clustering Tool for Microbial Genomic Data.
Genom. Proteom. Bioinform.
Ruilin Li, Xiaoyu He, Chuangchuang Dai, Haidong Zhu, Xianyu Lang, Wei Chen, Xiaodong Li, Dan Zhao, Yu Zhang, Xinyin Han, Tie Niu, Yi Zhao, Rongqiang Cao, Rong He, Zhonghua Lu, Xuebin Chi, Weizhong Li, Beifang Niu
2019 J jnl
How Big Data and High-performance Computing Drive Brain Science.
Genom. Proteom. Bioinform.
Shanyu Chen, Zhipeng He, Xinyin Han, Xiaoyu He, Ruilin Li, Haidong Zhu, Dan Zhao, Chuangchuang Dai, Yu Zhang, Zhonghua Lu, Xuebin Chi, Beifang Niu
2014 J jnl
MSIsensor: microsatellite instability detection using paired tumor-normal sequence data.
Bioinform.
Beifang Niu, Kai Ye, Qunyuan Zhang, Charles Lu, Mingchao Xie, Michael D. McLellan, Michael C. Wendl, Li Ding
2013 J jnl
MGAviewer: a desktop visualization tool for analysis of metagenomics alignment data.
Bioinform.
Zhengwei Zhu, Beifang Niu, Jing Chen, Sitao Wu, Shulei Sun, Weizhong Li
2012 J jnl
CD-HIT: accelerated for clustering the next-generation sequencing data.
Bioinform.
LiMin Fu, Beifang Niu, Zhengwei Zhu, Sitao Wu, Weizhong Li
2012 J jnl
Ultrafast clustering algorithms for metagenomic sequence analysis.
Briefings Bioinform.
Weizhong Li, LiMin Fu, Beifang Niu, Sitao Wu, John C. Wooley
2011 J jnl
FR-HIT, a very fast program to recruit metagenomic reads to homologous reference genomes.
Bioinform.
Beifang Niu, Zhengwei Zhu, LiMin Fu, Sitao Wu, Weizhong Li
2010 J jnl
Artificial and natural duplicates in pyrosequencing reads of metagenomic data.
BMC Bioinform.
Beifang Niu, LiMin Fu, Shulei Sun, Weizhong Li
2010 J jnl
CD-HIT Suite: a web server for clustering and comparing biological sequences.
Bioinform.
Ying Huang, Beifang Niu, Ying Gao, LiMin Fu, Weizhong Li
2007 J jnl
ScBioGrid: a commodity supercomputing environment supporting bioinformatics research.
Int. J. Comput. Math.
Beifang Niu, Xianyu Lang, Zhonghua Lu, Xuebin Chi