CD-HIT: accelerated for clustering the next-generation sequencing data von Fu, Limin, Niu, Beifang, Zhu, Zhengwei, Wu, Sitao, Li, Weizhong

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CD-HIT Suite: a web server for clustering and comparing biological sequences von Huang, Ying, Niu, Beifang, Gao, Ying, Fu, Limin, Li, Weizhong

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WebMGA: a customizable web server for fast metagenomic sequence analysis von Wu, Sitao, Zhu, Zhengwei, Fu, Liming, Niu, Beifang, Li, Weizhong

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Artificial and natural duplicates in pyrosequencing reads of metagenomic data von Niu, Beifang, Fu, Limin, Sun, Shulei, Li, Weizhong

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Red Blood Cells as Potential Repositories of MicroRNAs in the Circulatory System von Sun, Liping, Yu, Yang, Niu, Beifang, Wang, Deqing

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MSIsensor: microsatellite instability detection using paired tumor-normal sequence data von Niu, Beifang, Ye, Kai, Zhang, Qunyuan, Lu, Charles, Xie, Mingchao, McLellan, Michael D, Wendl, Michael C, Ding, Li

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Mutational landscape and significance across 12 major cancer types von Kandoth, Cyriac, McLellan, Michael D., Vandin, Fabio, Ye, Kai, Niu, Beifang, Lu, Charles, Xie, Mingchao, Zhang, Qunyuan, McMichael, Joshua F., Wyczalkowski, Matthew A., Leiserson, Mark D. M., Miller, Christopher A., Welch, John S., Walter, Matthew J., Wendl, Michael C., Ley, Timothy J., Wilson, Richard K., Raphael, Benjamin J., Ding, Li

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Pan-cancer network analysis identifies combinations of rare somatic mutations across pathways and protein complexes von Leiserson, Mark D M, Vandin, Fabio, Wu, Hsin-Ta, Dobson, Jason R, Eldridge, Jonathan V, Thomas, Jacob L, Papoutsaki, Alexandra, Kim, Younhun, Niu, Beifang, McLellan, Michael, Lawrence, Michael S, Gonzalez-Perez, Abel, Tamborero, David, Cheng, Yuwei, Ryslik, Gregory A, Lopez-Bigas, Nuria, Getz, Gad, Ding, Li, Raphael, Benjamin J

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RabbitTClust: enabling fast clustering analysis of millions of bacteria genomes with MinHash sketches von Xu, Xiaoming, Yin, Zekun, Yan, Lifeng, Zhang, Hao, Xu, Borui, Wei, Yanjie, Niu, Beifang, Schmidt, Bertil, Liu, Weiguo

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Case Report: SMARCA4 (BRG1)-deficient undifferentiated carcinoma of gallbladder with genetic analysis von Meng, Xiangpeng, Ma, Jia, Meng, Nan, Yun, Tianyu, Niu, Beifang

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Protein-structure-guided discovery of functional mutations across 19 cancer types von Niu, Beifang, Scott, Adam D, Sengupta, Sohini, Bailey, Matthew H, Batra, Prag, Ning, Jie, Wyczalkowski, Matthew A, Liang, Wen-Wei, Zhang, Qunyuan, McLellan, Michael D, Sun, Sam Q, Tripathi, Piyush, Lou, Carolyn, Ye, Kai, Mashl, R Jay, Wallis, John, Wendl, Michael C, Chen, Feng, Ding, Li

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Proteogenomic integration reveals therapeutic targets in breast cancer xenografts von Huang, Kuan-lin, Li, Shunqiang, Mertins, Philipp, Cao, Song, Gunawardena, Harsha P., Ruggles, Kelly V., Mani, D. R., Clauser, Karl R., Tanioka, Maki, Usary, Jerry, Kavuri, Shyam M., Xie, Ling, Yoon, Christopher, Qiao, Jana W, Wrobel, John, Wyczalkowski, Matthew A., Erdmann-Gilmore, Petra, Snider, Jacqueline E., Hoog, Jeremy, Singh, Purba, Niu, Beifang, Guo, Zhanfang, Sun, Sam Qiancheng, Sanati, Souzan, Kawaler, Emily, Wang, Xuya, Scott, Adam, Ye, Kai, McLellan, Michael D., Wendl, Michael C., Malovannaya, Anna, Held, Jason M., Gillette, Michael A., Fenyö, David, Kinsinger, Christopher R., Mesri, Mehdi, Rodriguez, Henry, Davies, Sherri R., Perou, Charles M., Ma, Cynthia, Reid Townsend, R., Chen, Xian, Carr, Steven A., Ellis, Matthew J., Ding, Li

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Prognostic Roles of ceRNA Network-Based Signatures in Gastrointestinal Cancers von Qi, Xin, Chen, Xingqi, Zhao, Yuanchun, Chen, Jiajia, Niu, Beifang, Shen, Bairong

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The performance of homopolymer detection using dichromatic and tetrachromatic fluorogenic next-generation sequencing platforms von Chen, HuiJuan, Wang, Bing, Cai, LiLi, Zhang, YiRan, Shu, YingShuang, Liu, Wen, Leng, Xue, Zhai, JinCheng, Niu, BeiFang, Zhou, QiMing, Cao, ShuNan

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Systematic discovery of complex insertions and deletions in human cancers von Ye, Kai, Wang, Jiayin, Jayasinghe, Reyka, Lameijer, Eric-Wubbo, McMichael, Joshua F, Ning, Jie, McLellan, Michael D, Xie, Mingchao, Cao, Song, Yellapantula, Venkata, Huang, Kuan-lin, Scott, Adam, Foltz, Steven, Niu, Beifang, Johnson, Kimberly J, Moed, Matthijs, Slagboom, P Eline, Chen, Feng, Wendl, Michael C, Ding, Li

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Dramatic response to local radiotherapy in a refractory metastatic mediastinal yolk sac tumor patient harboring a germline BRCA2 frameshift mutation: a case report von Cheng, Xi, Yu, Haiming, Li, Jinying, Han, Xiaona, Meng, Erhong, Zhou, Houqing, Wang, Dongliang, Niu, Beifang, Zhang, Xiaotao

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FR-HIT, a very fast program to recruit metagenomic reads to homologous reference genomes von Niu, Beifang, Zhu, Zhengwei, Fu, Limin, Wu, Sitao, Li, Weizhong

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Persistent response of furmonertinib plus anlotinib in a lung adenocarcinoma patient with an EGFR exon 20 insertion mutation: A case report von Chen, Xuesong, Zha, Wangjian, Su, Mei, Meng, Nan, Cao, Shuliang, Niu, Beifang, Qi, Xu

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Development and validation of a mutation-based model to predict immunotherapeutic efficacy in NSCLC von He, Ping, Liu, Jie, Xu, Qingyuan, Ma, Huaijun, Niu, Beifang, Huang, Gang, Wu, Wei

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Characterization and mitigation of artifacts derived from NGS library preparation due to structure-specific sequences in the human genome von Chen, HuiJuan, Zhang, YiRan, Wang, Bing, Liao, Rui, Duan, XiaoHong, Yang, ChunYan, Chen, Jing, Hao, YanTong, Shu, YingShuang, Cai, LiLi, Leng, Xue, Qian, Nian-Song, Sun, DaWei, Niu, Beifang, Zhou, Qiming

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