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Yuanting Zheng#*, Yaqing Liu#, Jingcheng Yang#, Lianhua Dong#, Rui Zhang#, Sha Tian#, Ying Yu, Luyao Ren, Wanwan Hou, Feng Zhu, Yuanbang Mai, Jinxiong Han, Lijun Zhang, Hui Jiang, Ling Lin, Jingwei Lou, Ruiqiang Li, Jingchao Lin, Huafen Liu, Ziqing Kong, Depeng Wang, Fangping Dai, Ding Bao, Zehui Cao, Qiaochu Chen, Qingwang Chen, Xingdong Chen, Yuechen Gao, He Jiang, Bin Li, Bingying Li, Jingjing Li, Ruimei Liu, Tao Qing, Erfei Shang, Jun Shang, Shanyue Sun, Haiyan Wang, Xiaolin Wang, Naixin Zhang, Peipei Zhang, Ruolan Zhang, Sibo Zhu, Andreas Scherer, Jiucun Wang, Jing Wang, Yinbo Huo, Gang Liu, Chengming Cao, Li Shao, Joshua Xu, Huixiao Hong, Wenming Xiao, Xiaozhen Liang, Daru Lu, Li Jin, Weida Tong, Chen Ding*, Jinming Li*, Xiang Fang*, Leming Shi*. Multi-omics data integration using ratio-based quantitative profiling with Quartet reference materials. Nature Biotechnology 2023 Sep 7. doi: 10.1038/s41587-023-01934-1. Online ahead of print.
Ying Yu#, Wanwan Hou#, Yaqing Liu#, Haiyan Wang#, Lianhua Dong#, Yuanbang Mai, Qingwang Chen, Zhihui Li, Shanyue Sun, Jingcheng Yang, Zehui Cao, Peipei Zhang, Yi Zi, Ruimei Liu, Jian Gao, Naixin Zhang, Jingjing Li, Luyao Ren, He Jiang, Jun Shang, Sibo Zhu, Xiaolin Wang, Tao Qing, Ding Bao, Bingying Li, Bin Li, Chen Suo, Yan Pi, Xia Wang, Fangping Dai, Andreas Scherer, Pirkko Mattila, Jinxiong Han, Lijun Zhang, Hui Jiang, Danielle Thierry-Mieg, Jean Thierry-Mieg, Wenming Xiao, Huixiao Hong, Weida Tong, Jing Wang, Jinming Li, Xiang Fang, Li Jin, Joshua Xu*, Feng Qian*, Rui Zhang*, Leming Shi*, Yuanting Zheng*. Quartet RNA reference materials improve the quality of transcriptomic data through ratio-based profiling. Nature Biotechnology 2023 Sep 7. doi: 10.1038/s41587-023-01867-9. Online ahead of print.
Ying Yu#, Naixin Zhang#, Yuanbang Mai#, Luyao Ren#, Qiaochu Chen, Zehui Cao, Qingwang Chen, Yaqing Liu, Wanwan Hou, Jingcheng Yang, Huixiao Hong, Joshua Xu, Weida Tong, Lianhua Dong, Leming Shi*, Xiang Fang*, Yuanting Zheng*. Correcting batch effects in large-scale multiomics studies using a reference-material-based ratio method. Genome Biology 2023; 24(1): 201.
Jingcheng Yang#, Yaqing Liu#, Jun Shang#, Qiaochu Chen, Qingwang Chen, Luyao Ren, Naixin Zhang, Ying Yu, Zhihui Li, Yueqiang Song, Shengpeng Yang, Andreas Scherer, Weida Tong, Huixiao Hong, Wenming Xiao, Leming Shi*, Yuanting Zheng*. The Quartet Data Portal: integration of community-wide resources for multiomics quality control. Genome Biology 2023; 24(1): 245.
Luyao Ren#, Xiaoke Duan#, Lianghua Dong#, Rui Zhang#, Jingcheng Yang#, Yuechen Gao, Rongxue Peng, Wanwan Hou, Yaqing Liu, Jingjing Li, Ying Yu, Naixin Zhang, Jun Shang, Fan Liang, Depeng Wang, Hui Chen, Lele Sun, Lingtong Hao, The Quartet Project Team, Andreas Scherer, Jessica Nordlund, Wenming Xiao, Joshua Xu, Weida Tong, Xin Hu, Peng Jia, Kai Ye, Jinming Li, Li Jin, Huixiao Hong*, Jing Wang*, Shaohua Fan*, Xiang Fang*, Yuanting Zheng*, Leming Shi. Quartet DNA reference materials and datasets for comprehensively evaluating germline variants calling performance. Genome Biology 2023; 24(1): 270.
Sha Tian#, Dongdong Zhan#, Ying Yu#, Yunzhi Wang, Mingwei Liu, Subei Tan, Yan Li, Lei Song, Zhaoyu Qin, Xianju Li, Yang Liu, Yao Li, Shuhui Ji, Shanshan Wang; Proteomic Massive Analysis and Quality Control Consortium; Yuanting Zheng*, Fuchu He*, Jun Qin*, Chen Ding*. Quartet protein reference materials and datasets for multi-platform assessment of label-free proteomics. Genome Biology 2023; 24 (1): 202.
Yi-Zhou Jiang#*, Ding Ma#, Xi Jin#, Yi Xiao#, Ying Yu#, Jinxiu Shi#, Yi-Fan Zhou, Tong Fu, Cai-Jin Lin, Lei-Jie Dai, Cheng-Lin Liu, Shen Zhao, Guan-Hua Su, Wanwan Hou, Yaqing Liu, Qingwang Chen, Jingcheng Yang, Naixin Zhang, Wen-Juan Zhang, Wei Liu, Weigang Ge, Wen-Tao Yang, Chao You, Yajia Gu, Virginia Kaklamani, François Bertucci, Claire Verschraegen, Anneleen Daemen, Nakul M. Shah, Ting Wang, Tiannan Guo, Leming Shi, Charles M. Perou, Yuanting Zheng*, Wei Huang*, Zhi-Ming Shao*. Integrated molecular portraits of breast cancer reveal therapeutic targets. Nature Cancer 2023 Accepted in principle.
Jun Shang#, He Jiang#, Yue Zhao#, Jinglei Lai#, Leming Shi, Jingcheng Yang*, Haiquan Chen*, Yuanting Zheng*. Differences of molecular events driving pathological and radiological progression of lung adenocarcinoma. eBioMedicine 2023; 94: 104728.
Bohu Pan#, Luyao Ren#, Vitor Onuchic#, Meijian Guan#, Rebecca Kusko#, Steve Bruinsma, Len Trigg, Andreas Scherer, Baitang Ning, Chaoyang Zhang, Christine Glidewell-Kenney, Chunlin Xiao, Eric Donaldson, Fritz J Sedlazeck, Gary Schroth, Gokhan Yavas, Haiying Grunenwald, Haodong Chen, Heather Meinholz, Joe Meehan, Jing Wang, Jingcheng Yang, Jonathan Foox, Jun Shang, Kelci Miclaus, Lianhua Dong, Leming Shi, Marghoob Mohiyuddin, Mehdi Pirooznia, Ping Gong, Rooz Golshani, Russ Wolfinger, Samir Lababidi, Sayed Mohammad Ebrahim Sahraeian, Steve Sherry, Tao Han, Tao Chen, Tieliu Shi, Wanwan Hou, Weigong Ge, Wen Zou, Wenjing Guo, Wenjun Bao, Wenzhong Xiao, Xiaohui Fan, Yoichi Gondo, Ying Yu, Yongmei Zhao, Zhenqiang Su, Zhichao Liu, Weida Tong, Wenming Xiao, Justin M Zook*, Yuanting Zheng*, Huixiao Hong*. Assessing reproducibility of inherited variants detected with short-read whole genome sequencing. Genome Biology 2022; 23(1): 2.
Michael M. Khayat, Sayed Mohammad Ebrahim Sahraeian, Samantha Zarate, Andrew Carroll, Huixiao Hong, Bohu Pan, Leming Shi, Richard A. Gibbs, Marghoob Mohiyuddin, Yuanting Zheng*, Fritz J. Sedlazeck*. Hidden biases in germline structural variant detection. Genome Biology 2021; 22(1): 347.
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