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2020 – today
- 2024
[j21]Qingru Xu
, Xiaoqiong Bao, Zhuobin Lin, Lin Tang, Li-na He, Jian Ren, Zhixiang Zuo, Kunhua Hu:
AStruct: detection of allele-specific RNA secondary structure in structuromic probing data. BMC Bioinform. 25(1): 91 (2024)- 2023
- [j20]Kai Yu, Zekun Liu, Haoyang Cheng, Shihua Li, Qingfeng Zhang, Jia Liu, Huai-Qiang Ju, Zhixiang Zuo, Qi Zhao, Shiyang Kang, Zexian Liu:
dSCOPE: a software to detect sequences critical for liquid-liquid phase separation. Briefings Bioinform. 24(1) (2023) - [j19]Zhihang Chen, Ziwei Luo, Di Zhang, Huiqin Li, Xuefei Liu, Kaiyu Zhu, Hongwan Zhang, Zongping Wang, Penghui Zhou, Jian Ren, An Zhao, Zhixiang Zuo:
TIGER: A Web Portal of Tumor Immunotherapy Gene Expression Resource. Genom. Proteom. Bioinform. 21(2): 337-348 (2023) - [j18]Xiaoqiong Bao, Yin Zhang, Huiqin Li, Yuyan Teng, Lixia Ma, Zhihang Chen, Xiaotong Luo, Jian Zheng, An Zhao, Jian Ren, Zhixiang Zuo:
RM2Target: a comprehensive database for targets of writers, erasers and readers of RNA modifications. Nucleic Acids Res. 51(D1): 269-279 (2023) - 2022
- [j17]Qingjian Chen, Qi-Nian Wu, Yu-Ming Rong, Shixiang Wang, Zhixiang Zuo, Long Bai, Bei Zhang, Shuqiang Yuan, Qi Zhao:
Deciphering clonal dynamics and metastatic routines in a rare patient of synchronous triple-primary tumors and multiple metastases with MPTevol. Briefings Bioinform. 23(5) (2022) - [j16]Xiaoqiong Bao, Kaiyu Zhu, Xuefei Liu, Zhihang Chen, Ziwei Luo, Qi Zhao, Jian Ren, Zhixiang Zuo:
MeRIPseqPipe: an integrated analysis pipeline for MeRIP-seq data based on Nextflow. Bioinform. 38(7): 2054-2056 (2022) - [j15]Yongbiao Xue, Yiming Bao, Zhang Zhang, Wenming Zhao, Jing-Fa Xiao, Shunmin He, Guoqing Zhang, Yixue Li, Guoping Zhao, Runsheng Chen, Jingyao Zeng, Yadong Zhang, Yunfei Shang, Jialin Mai, Shuo Shi, Mingming Lu, Congfan Bu, Zhewen Zhang, Zhenglin Du, Yinying Wang, Hongen Kang, Tianyi Xu, Lili Hao, Peilin Jia, Shuai Jiang, Qiheng Qian, Tongtong Zhu, Wenting Zong, Tong Jin, Yuansheng Zhang, Dong Zou, Qiang Du, Changrui Feng, Lina Ma, Sisi Zhang, Anke Wang, Lili Dong, Yanqing Wang, Wan Liu, Xing Yan, Yunchao Ling, Zhihua Zhou, Wang Kang, Tao Zhang, Shuai Ma, Haoteng Yan, Zunpeng Liu, Zejun Ji, Yusheng Cai, Si Wang, Moshi Song, Jie Ren, Qi Zhou, Jing Qu, Weiqi Zhang, Guanghui Liu, Xu Chen, Tingting Chen, Yanling Sun, Caixia Yu, Bixia Tang, Junwei Zhu, Shuang Zhai, Yubin Sun, Qiancheng Chen, Xiaoyu Yang, Xin Zhang, Zhengqi Sang, Yonggang Wang, Yilin Zhao, Huanxin Chen, Li Lan, Yingke Ma, Yaokai Jia, Xinchang Zheng, Meili Chen, Ming Chen, Guangyi Niu, Rong Pan, Wei Jing, Jian Sang, Chang Liu, Yujia Xiong, Mochen Zhang, Guoliang Wang, Lizhi Yi, Wei Zhao, Song Wu, Zhuang Xiong, Rujiao Li, Zheng Gong, Lin Liu, Zhao Li, Qianpeng Li, Sicheng Luo, Jiajia Wang, Yirong Shi, Honghong Zhou, Peng Zhang, Tingrui Song, Yanyan Li, Fei Yang, Mengwei Li, Zhaohua Li, Dongmei Tian, Xiaonan Liu, Cuiping Li, Xufei Teng, Shuhui Song, Yang Zhang, Ruru Chen, Rongqin Zhang, Feng Xu, Yifan Wang, Chenfen Zhou, Haizhou Wang, Andrew E. Teschendorff, Yungang He, Zhen Yang, Lun Li, Na Li, Ying Cui, Guangya Duan, Gangao Wu, Tianhao Huang, Enhui Jin, Hailong Kang, Zhonghuang Wang, Hua Chen, Mingkun Li, Wanshan Ning, Yu Xue, Yanhu Liu, Qijun Zhou, Xingyan Liu, Longlong Zhang, Bingyu Mao, Shihua Zhang, Yaping Zhang, Guodong Wang, Qianghui Zhu, Xin Li, Menghua Li, Yuanming Liu, Hong Luo, Xiaoyuan Wu, Haichun Jing, Yitong Pan, Leisheng Shi, Zhixiang Zuo, Jian Ren, Xinxin Zhang, Yun Xiao, Xia Li, Dan Liu, Chi Zhang, Zheng Zhao, Tao Jiang, Wanying Wu, Fangqing Zhao, Xianwen Meng, Di Peng, Hao Luo, Feng Gao, Shaofeng Lin, Chuijie Liu, Anyuan Guo, Hao Yuan, Tianhan Su, Yong E. Zhang, Yincong Zhou, Guoji Guo, Shanshan Fu, Xiaodan Tan, Weizhi Zhang, Mei Luo, Yubin Xie, Chenwei Wang, Xingyu Liao, Xin Gao, Jianxin Wang, Guiyan Xie, Chunhui Yuan, Feng Tian, Dechang Yang, Ge Gao, Dachao Tang, Wenyi Wu, Yujie Gou, Cheng Han, Qinghua Cui, Xiangshang Li, Chuan-Yun Li, Xiaotong Luo:
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2022. Nucleic Acids Res. 50(D1): 27-38 (2022) - [j14]Mengni Liu, Huiqin Li, Xiaotong Luo, Jieyi Cai, Tianjian Chen, Yubin Xie, Jian Ren, Zhixiang Zuo:
RPS: a comprehensive database of RNAs involved in liquid-liquid phase separation. Nucleic Acids Res. 50(D1): 347-355 (2022) - [j13]Xiaotong Luo, Yuantai Huang, Huiqin Li, Yihai Luo, Zhixiang Zuo, Jian Ren, Yubin Xie:
SPENCER: a comprehensive database for small peptides encoded by noncoding RNAs in cancer patients. Nucleic Acids Res. 50(D1): 1373-1381 (2022) - [j12]Yubin Xie, Huiqin Li, Xiaotong Luo, Hongyu Li, Qiuyuan Gao, Luowanyue Zhang, Yuyan Teng, Qi Zhao, Zhixiang Zuo, Jian Ren:
IBS 2.0: an upgraded illustrator for the visualization of biological sequences. Nucleic Acids Res. 50(W1): 420-426 (2022) - [j11]Li Chen, Tianjian Chen, Ya Zhang, Haichen Lin, Ruihan Wang, Yihang Wang, Hongyu Li, Zhixiang Zuo, Jian Ren, Yubin Xie:
TIRSF: a web server for screening gene signatures to predict Tumor immunotherapy response. Nucleic Acids Res. 50(W1): 761-767 (2022) - 2021
- [j10]Shuang Deng, Hongwan Zhang, Kaiyu Zhu, Xingyang Li, Ying Ye, Rui Li, Xuefei Liu, Dongxin Lin, Zhixiang Zuo, Jian Zheng:
M6A2Target: a comprehensive database for targets of m6A writers, erasers and readers. Briefings Bioinform. 22(3) (2021) - [j9]Xiaotong Luo, Huiqin Li, Jiaqi Liang, Qi Zhao, Yubin Xie, Jian Ren, Zhixiang Zuo:
RMVar: an updated database of functional variants involved in RNA modifications. Nucleic Acids Res. 49(Database-Issue): D1405-D1412 (2021) - [j8]Yongbiao Xue, Yiming Bao, Zhang Zhang, Wenming Zhao, Jing-Fa Xiao, Shunmin He, Guoqing Zhang, Yixue Li, Guoping Zhao, Runsheng Chen, Shuhui Song, Lina Ma, Dong Zou, Dongmei Tian, Cuiping Li, Junwei Zhu, Zheng Gong, Meili Chen, Anke Wang, Yingke Ma, Mengwei Li, Xufei Teng, Ying Cui, Guangya Duan, Mochen Zhang, Tong Jin, Chengmin Shi, Zhenglin Du, Yadong Zhang, Chuandong Liu, Rujiao Li, Jingyao Zeng, Lili Hao, Shuai Jiang, Hua Chen, Dali Han, Tao Zhang, Wang Kang, Fei Yang, Jing Qu, Weiqi Zhang, Guanghui Liu, Lin Liu, Yang Zhang, Guangyi Niu, Tongtong Zhu, Changrui Feng, Xiaonan Liu, Yuansheng Zhang, Zhao Li, Ruru Chen, Qianpeng Li, Zhongyi Hua, Chao Jiang, Ziyuan Chen, Fangshu He, Yuyang Zhao, Yan Jin, Luqi Huang, Yuan Yuan, Chenfen Zhou, Qingwei Xu, Sheng He, Wei Ye, Ruifang Cao, Pengyu Wang, Yunchao Ling, Xing Yan, Qingzhong Wang, Qiang Du, Wenting Zong, Hongen Kang, Zhuang Xiong, Wendi Huan, Sirui Zhang, Qiguang Xia, Xiaojuan Fan, Zefeng Wang, Xu Chen, Tingting Chen, Sisi Zhang, Bixia Tang, Lili Dong, Zhewen Zhang, Zhonghuang Wang, Hailong Kang, Yanqing Wang, Song Wu, Ming Chen, Chang Liu, Yujia Xiong, Xueying Shao, Yanyan Li, Honghong Zhou, Xiaomin Chen, Yu Zheng, Quan Kang, Di Hao, Lili Zhang, Huaxia Luo, Yajing Hao, Peng Zhang, Zhi Nie, Shuhuan Yu, Jian Sang, Zhaohua Li, Xiangquan Zhang, Qing Zhou, Shuang Zhai, Yaping Zhang, Guodong Wang, Qianghui Zhu, Xin Li, Menghua Li, Jun Yan, Chen Li, Zhennan Wang, Xiangfeng Wang, Yuanming Liu, Hong Luo, Xiaoyuan Wu, Hai-Chun Jing, Lianhe Zhao, Jiajia Wang, Tinrui Song, Yi Zhao, Furrukh Mehmood, Shahid Ali, Amjad Ali, Shoaib Saleem, Irfan Hussain, Amir Ali Abbasi, Zhixiang Zuo, Jian Ren, Xinxin Zhang, Yun Xiao, Xia Li, Yiran Tu, Yu Xue, Wanying Wu, Peifeng Ji, Fangqing Zhao, Xianwen Meng, Di Peng, Hao Luo, Feng Gao, Wanshan Ning, Shaofeng Lin, Teng Liu, An-Yuan Guo, Hao Yuan, Yong E. Zhang, Xiaodan Tan, Weizhi Zhang, Yubin Xie, Chenwei Wang, Chun-Jie Liu, De-Chang Yang, Feng Tian, Ge Gao, Dachao Tang, Lan Yao, Qinghua Cui, Ni A. An, Chuan-Yun Li, Xiaotong Luo:
Database Resources of the National Genomics Data Center, China National Center for Bioinformation in 2021. Nucleic Acids Res. 49(Database-Issue): D18-D28 (2021) - 2020
- [j7]Qi Zhao, Yu Sun, Zekun Liu, Hongwan Zhang, Xingyang Li, Kaiyu Zhu, Zexian Liu, Jian Ren, Zhixiang Zuo:
CrossICC: iterative consensus clustering of cross-platform gene expression data without adjusting batch effect. Briefings Bioinform. 21(5): 1818-1824 (2020) - [j6]Zhixiang Zuo, Huanjing Hu, Qingxian Xu, Xiaotong Luo, Di Peng, Kaiyu Zhu, Qi Zhao, Yubin Xie, Jian Ren:
BBCancer: an expression atlas of blood-based biomarkers in the early diagnosis of cancers. Nucleic Acids Res. 48(Database-Issue): D789-D796 (2020)
2010 – 2019
- 2018
- [j5]Yubin Xie, Xiaotong Luo, Yupeng Li, Li Chen, Wenbin Ma, Junjiu Huang, Jun Cui, Yong Zhao, Yu Xue, Zhixiang Zuo, Jian Ren:
DeepNitro: Prediction of Protein Nitration and Nitrosylation Sites by Deep Learning. Genom. Proteom. Bioinform. 16(4): 294-306 (2018) - [j4]Yueyuan Zheng, Peng Nie, Di Peng, Zhihao He, Mengni Liu, Yubin Xie, Yanyan Miao, Zhixiang Zuo, Jian Ren:
m6AVar: a database of functional variants involved in m6A modification. Nucleic Acids Res. 46(Database-Issue): D139-D145 (2018) - 2015
- [j3]Wenzhong Liu, Yubin Xie, Jiyong Ma, Xiaotong Luo, Peng Nie, Zhixiang Zuo, Urs Lahrmann, Qi Zhao, Yueyuan Zheng, Yong Zhao, Yu Xue, Jian Ren:
IBS: an illustrator for the presentation and visualization of biological sequences. Bioinform. 31(20): 3359-3361 (2015)
2000 – 2009
- 2009
- [j2]Feifei Xiao, Zhixiang Zuo, Guoshuai Cai, Shuli Kang, Xiaolian Gao, Tongbin Li:
miRecords: an integrated resource for microRNA-target interactions. Nucleic Acids Res. 37(Database-Issue): 105-110 (2009) - 2008
- [j1]Wuming Gong, Dihan Zhou, Yongliang Ren, Yejun Wang, Zhixiang Zuo, Yanping Shen, Feifei Xiao, Qi Zhu, Ailing Hong, Xiaochuan Zhou, Xiaolian Gao, Tongbin Li:
PepCyber: P~PEP: a database of human protein-protein interactions mediated by phosphoprotein-binding domains. Nucleic Acids Res. 36(Database-Issue): 679-683 (2008)
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