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BiTSC2: Bayesian inference of tumor clonal tree by joint analysis of single-cell SNV and CNA data 期刊论文
BRIEFINGS IN BIOINFORMATICS, 2022, 页码: 12
Authors:  Chen, Ziwei;  Gong, Fuzhou;  Wan, Lin;  Ma, Liang
Favorite  |  View/Download:27/0  |  Submit date:2022/06/21
single-cell DNA sequencing  intra-tumor heterogeneity  single nucleotide variation  copy number alteration  Bayesian modeling  cancer evolution  
Null-free False Discovery Rate Control Using Decoy Permutations 期刊论文
ACTA MATHEMATICAE APPLICATAE SINICA-ENGLISH SERIES, 2022, 卷号: 38, 期号: 2, 页码: 235-253
Authors:  He, Kun;  Li, Meng-jie;  Fu, Yan;  Gong, Fu-zhou;  Sun, Xiao-ming
Favorite  |  View/Download:35/0  |  Submit date:2022/06/21
multiple testing  false discovery rate  null distribution-free  p-value-free  decoy permutations  knockoff filter  
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022 期刊论文
NUCLEIC ACIDS RESEARCH, 2022, 卷号: 50, 期号: D1, 页码: D27-D38
Authors:  Xue, Yongbiao;  Bao, Yiming;  Zhang Zhang;  Zhao, Wenming;  Xiao, Jingfa;  He, Shun-min;  Zhang, Guoqing;  Li, Yixue;  Guoping, Zhao;  Chen, Runsheng;  Zeng, Jingyao;  Zhang, Yadong;  Shang, Yun-fei;  Mai, Jialin;  Shi, Shuo;  Lu, Mingming;  Bu, Congfan;  Zhang, Zhewen;  Du, Zhenglin;  Wang, Yinying;  Kang, Hongen;  Xu, Tianyi;  Hao, Lili;  Jia, Peilin;  Jiang, Shuai;  Qian, Qiheng;  Zhu, Tong-tong;  Shang, Yunfei;  Zong, Wenting;  Jin, Tong;  Zhang, Yuansheng;  Zou, Dong;  Zhang, Zhang;  Du, Qiang;  Feng, Changrui;  Ma, Lina;  Zhang, Sisi;  Wang, Anke;  Dong, Lili;  Wang, Yan-qing;  Liu, Wan;  Yan, Xing;  Ling, Yunchao;  Zhao, Guoping;  Zhou, Zhihua;  Kang, Wang;  Zhang, Tao;  Ma, Shuai;  Yan, Haoteng;  Liu, Zunpeng;  Ji, Zejun;  Cai, Yusheng;  Wang, Si;  Song, Moshi;  Ren, Jie;  Zhou, Qi;  Qu, Jing;  Zhang, Weiqi;  Liu, Guanghui;  Chen, Xu;  Chen, Tingting;  Sisi, Zhang;  Sun, Yanling;  Yu, Caixia;  Tang, Bixia;  Zhu, Junwei;  Zhai, Shuang;  Sun, Yubin;  Chen, Qiancheng;  Yang, Xiaoyu;  Zhang, Xin;  Sang, Zhengqi;  Wang, Yonggang;  Zhao, Yilin;  Chen, Huanxin;  Lan, Li;  Wang, Yanqing;  Ma, Yingke;  Jia, Yaokai;  Zheng, Xin-chang;  Chen, Meili;  Dong, Zou;  Zhu, Tongtong;  Ming, Chen;  Niu, Guangyi;  Pan, Rong;  Jing, Wei;  Sang, Jian;  Liu, Chang;  Xiong, Yujia;  Lili, Hao;  Zhang, Mochen;  Wang, Guoliang;  Yi, Lizhi;  Wei, Zhao;  Zong, Wenting;  Wu, Song;  Xiong, Zhuang;  Rujiao, Li;  Zheng, Gong;  Li, Rujiao;  Liu, Lin;  Li, Zhao;  Li, Qianpeng;  Wei, Jing;  Luo, Sicheng;  Wang, Jiajia;  Shi, Yirong;  Zhou, Honghong;  Zhang, Peng;  Song, Tingrui;  Li, Yanyan;  Yang, Fei;  Li, Mengwei;  Li, Zhao-hua;  Kang, Hongen;  Zheng, Xinchang;  Li, Ru-jiao;  Tian, Dongmei;  Liu, Xiaonan;  Li, Cuiping;  Teng, Xufei;  Song, Shuhui;  Zhang, Yang;  Niu, Guangyi;  Zhu, Tongtong;  Zhang, Yuansheng;  Chen, Ruru;  Zhang, Rongqin;  Xu, Feng;  Wang, Yifan;  Ling, Yunchao;  Zhou, Chenfen;  Wang, Haizhou;  Teschendorff, Andrew E.;  He, Yungang;  Zhen, Yang;  Li, Cuiping;  Zhu, Junwei;  Li, Lun;  Li, Na;  Gong, Zheng;  Chen, Meili;  Ying Cui;  Duan, Guangya;  Tong, Jin;  Wu, Gangao;  Huang, Tianhao;  Jin, Enhui;  Zhao, Wei;  Kang, Hailong;  Wang, Zhonghuang;  Zeng, Jingyao;  Chen, Hua;  Li, Mingkun;  Zhao, Wenming;  Ning, Wanshan;  Xue, Yu;  Liu, Yanhu;  Cui, Ying;  Zhou, Qijun;  Liu, Xingyan;  Zhang, Longlong;  Mao, Bingyu;  Zhang, Shihua;  Zhang, Yaping;  Wang, Guodong;  Zhu, Qianghui;  Li, Xin;  Li, Menghua;  Liu, Yuanming;  Luo, Hong;  Wu, Xiaoyuan;  Jing, Haichun;  Pan, Yitong;  Chen, Ming;  Ma, Lina;  Shi, Leisheng;  Li, Mingkun;  Lan, Li;  Bao, Yiming;  Zhao, Wen-ming;  Zuo, Zhixiang;  Ren, Jian;  Zhang, Xinxin;  Xiao, Yun;  Li, Xia;  Liu, Dan;  Zhang, Chi;  Xue, Yu;  Zhao, Zheng;  Jiang, Tao;  Wu, Wanying;  Zhao, Fangqing;  Meng, Xianwen;  Peng, Di;  Luo, Hao;  Gao, Feng;  Lin, Shaofeng;  Liu, Chuijie;  Guo, Anyuan;  Yuan, Hao;  Su, Tianhan;  Zhang, Yong E.;  Zhou, Yincong;  Zhang, Weizhi;  Fu, Shanshan;  Tan, Xiaodan;  Xie, Yubin;  Guo, Guoji;  Wang, Chenwei;  Liao, Xingyu;  Gao, Xin;  Wang, Jianxin;  Xie, Guiyan;  Yuan, Chunhui;  Tian, Feng;  Yang, Dechang;  Tang, Dachao;  Wu, Wenyi;  Gou, Yujie;  Han, Cheng;  Cui, Qinghua;  Li, Xiang Shang;  Li, Chuan-Yun;  Luo, XiaoTong;  Ren, Jia;  Li, Xia
Favorite  |  View/Download:70/0  |  Submit date:2022/04/02
NeuralEE: A GPU-Accelerated Elastic Embedding Dimensionality Reduction Method for Visualizing Large-Scale scRNA-Seq Data 期刊论文
FRONTIERS IN GENETICS, 2020, 卷号: 11, 页码: 8
Authors:  Xiong, Jiankang;  Gong, Fuzhou;  Wan, Lin;  Ma, Liang
Favorite  |  View/Download:73/0  |  Submit date:2021/01/14
single-cell RNA sequencing  elastic embedding  neural networks  large-scale  stochastic optimization  parametric models  generalizable models  
RobustClone: a robust PCA method for tumor clone and evolution inference from single-cell sequencing data 期刊论文
BIOINFORMATICS, 2020, 卷号: 36, 期号: 11, 页码: 3299-3306
Authors:  Chen, Ziwei;  Gong, Fuzhou;  Wan, Lin;  Ma, Liang
Favorite  |  View/Download:89/0  |  Submit date:2020/09/23
Clustering phase of a general constraint satisfaction problem model d-k-CSP 期刊论文
PHYSICA A-STATISTICAL MECHANICS AND ITS APPLICATIONS, 2020, 卷号: 537, 页码: 15
Authors:  Xu, Wei;  Gong, Fuzhou;  Zhou, Guangyan
Favorite  |  View/Download:111/0  |  Submit date:2020/05/24
Constraint satisfaction problem  Solution space structure  Clustering phase transition  Problem hardness  Belief propagation  
Multi-scale analysis of schizophrenia risk genes, brain structure, and clinical symptoms reveals integrative clues for subtyping schizophrenia patients 期刊论文
JOURNAL OF MOLECULAR CELL BIOLOGY, 2019, 卷号: 11, 期号: 8, 页码: 678-687
Authors:  Ma, Liang;  Rolls, Edmund T.;  Liu, Xiuqin;  Liu, Yuting;  Jiao, Zeyu;  Wang, Yue;  Gong, Weikang;  Ma, Zhiming;  Gong, Fuzhou;  Wan, Lin
Favorite  |  View/Download:116/0  |  Submit date:2020/05/24
Schizophrenia  PANSS  multi-scale analysis  hot cluster  grey matter volume  pathway  
DensityPath: an algorithm to visualize and reconstruct cell state-transition path on density landscape for single-cell RNA sequencing data 期刊论文
BIOINFORMATICS, 2019, 卷号: 35, 期号: 15, 页码: 2593-2601
Authors:  Chen, Ziwei;  An, Shaokun;  Bai, Xiangqi;  Gong, Fuzhou;  Ma, Liang;  Wan, Lin
Favorite  |  View/Download:106/0  |  Submit date:2020/01/10
PTMiner: Localization and Quality Control of Protein Modifications Detected in an Open Search and Its Application to Comprehensive Post-translational Modification Characterization in Human Proteome 期刊论文
MOLECULAR & CELLULAR PROTEOMICS, 2019, 卷号: 18, 期号: 2, 页码: 391-405
Authors:  An, Zhiwu;  Zhai, Linhui;  Ying, Wantao;  Qian, Xiaohong;  Gong, Fuzhou;  Tan, Minjia;  Fu, Yan
Favorite  |  View/Download:249/0  |  Submit date:2019/03/11
Sequential Fair Stackelberg Equilibria of Linear Strategies in Risk-Seeking Insider Trading 期刊论文
JOURNAL OF SYSTEMS SCIENCE & COMPLEXITY, 2018, 卷号: 31, 期号: 5, 页码: 1302-1328
Authors:  Gong Fuzhou;  Zhou Yonghui
Favorite  |  View/Download:112/0  |  Submit date:2018/09/08
Continuous version  insider trading  risk-seeking  sequential fair Stackelberg equilibria