Selected work
Xiaojie Qiu*+, Daniel Y Zhu*, Yifan Lu*, Jiajun Yao*, Zehua Jing*, Kyung Hoi Min*, Mengnan Cheng*, Hailin Pan, Lulu Zuo, Samuel King, Qi Fang, Huiwen Zheng, Mingyue Wang, Shuai Wang, Qingquan Zhang, Sichao Yu, Sha Liao, Chao Liu, Xinchao Wu, Yiwei Lai, Shijie Hao, Zhewei Zhang, Liang Wu, Yong Zhang, Mei Li, Zhencheng Tu, Jinpei Lin, Zhuoxuan Yang, Yuxiang Li, Ying Gu, David Ellison, Yuancheng Ryan Lu, Qinan Hu, Yuhui Hu, Ao Chen, Longqi Liu, Jonathan S Weissman, Jiayi Ma+, Xun Xu+, Shiping Liu+, Yinqi Bai+ 2024
Cell
*Equal Contribution, +Corresponding Author
Xiaojie Qiu*+, Yan Zhang*, Jorge D Martin-Rufino, Chen Weng, Shayan Hosseinzadeh, Dian Yang, Angela N Pogson, Marco Y Hein, Kyung Hoi Joseph Min, Li Wang, Emanuelle I Grody, Matthew J Shurtleff, Ruoshi Yuan, Song Xu, Yian Ma, Joseph M Replogle, Eric S Lander, Spyros Darmanis, Ivet Bahar, Vijay G Sankaran, Jianhua Xing+, Jonathan S Weissman+. 2022
Cell
Ao Chen*, Sha Liao*, Mengnan Cheng*, Kailong Ma*, Liang Wu*, Yiwei Lai*, Xiaojie Qiu*, Jin Yang, Jiangshan Xu, Shijie Hao, Xin Wang, Huifang Lu, Xi Chen, Xing Liu, Xin Huang, Zhao Li, Yan Hong, Yujia Jiang, Jian Peng, Shuai Liu, Mengzhe Shen, Chuanyu Liu, Quanshui Li, Yue Yuan, Xiaoyu Wei, Huiwen Zheng, Weimin Feng, Zhifeng Wang, Yang Liu, Zhaohui Wang, Yunzhi Yang, Haitao Xiang, Lei Han, Baoming Qin, Pengcheng Guo, Guangyao Lai, Pura Muñoz-Cánoves, Patrick H Maxwell, Jean Paul Thiery, Qing-Feng Wu, Fuxiang Zhao, Bichao Chen, Mei Li, Xi Dai, Shuai Wang, Haoyan Kuang, Junhou Hui, Liqun Wang, Ji-Feng Fei, Ou Wang, Xiaofeng Wei, Haorong Lu, Bo Wang, Shiping Liu, Ying Gu, Ming Ni, Wenwei Zhang, Feng Mu, Ye Yin, Huanming Yang, Michael Lisby, Richard J Cornall, Jan Mulder, Mathias Uhlén, Miguel A Esteban+, Yuxiang Li+, Longqi Liu+, Xun Xu+, Jian Wang+. 2022
Cell
Xiaojie Qiu, Qi Mao, Ying Tang, Li Wang, Raghav Chawla, Hannah A Pliner, Cole Trapnell+. 2017
Nature Methods
Xiaojie Qiu, Andrew Hill, Jonathan Packer, Dejun Lin, Yi-An Ma, Cole Trapnell+. 2017
Nature Methods
Xiaojie Qiu*, Arman Rahimzamani*, Li Wang, Bingcheng Ren, Qi Mao, Timothy Durham, José L McFaline-Figueroa, Lauren Saunders, Cole Trapnell+, Sreeram Kannan+. 2020
Cell Systems
Junyue Cao*, Malte Spielmann*, Xiaojie Qiu, Xingfan Huang, Daniel M Ibrahim, Andrew J Hill, Fan Zhang, Stefan Mundlos, Lena Christiansen, Frank J Steemers, Cole Trapnell+, Jay Shendure+. 2019
Nature
Junyue Cao*, Jonathan S Packer*, Vijay Ramani, Darren A Cusanovich, Chau Huynh, Riza Daza, Xiaojie Qiu, Choli Lee, Scott N Furlan, Frank J Steemers, Andrew Adey, Robert H Waterston+, Cole Trapnell+, Jay Shendure+. 2017
Science
Qi Qiu*, Peng Hu*, Xiaojie Qiu, Kiya W Govek, Pablo G Cámara, Hao Wu+. 2020
Nature Methods
Dian Yang*, Matthew G Jones*, Santiago Naranjo, William M Rideout, Kyung Hoi Joseph Min, Raymond Ho, Wei Wu, Joseph M Replogle, Jennifer L Page, Jeffrey J Quinn, Felix Horns, Xiaojie Qiu, Michael Z Chen, William A Freed-Pastor, Christopher S McGinnis, David M Patterson, Zev J Gartner, Eric D Chow, Trever G Bivona, Michelle M Chan, Nir Yosef+, Tyler Jacks+, Jonathan S Weissman+. 2022
Cell
Jingyi Ren*, Haowen Zhou*, Hu Zeng*, Connie Kangni Wang, Jiahao Huang, Xiaojie Qiu, Xin Sui, Qiang Li, Xunwei Wu, Zuwan Lin, Jennifer A Lo, Kamal Maher, Yichun He, Xin Tang, Judson Lam, Hongyu Chen, Brian Li, David E Fisher, Jia Liu, Xiao Wang+. 2023
Nature Methods
Jorge D Martin-Rufino, Nicole Castano, Michael Pang, Emanuelle I Grody, Samantha Joubran, Alexis Caulier, Lara Wahlster, Tongqing Li, Xiaojie Qiu, Anna Maria Riera-Escandell, Gregory A Newby, Aziz Al’Khafaji, Santosh Chaudhary, Susan Black, Chen Weng, Glen Munson, David R Liu, Marcin W Wlodarski, Kacie Sims, Jamie H Oakley, Ross M Fasano, Ramnik J Xavier, Eric S Lander, Daryl E Klein, Vijay G Sankaran+. 2023
Cell
Darren A Cusanovich*, James P Reddington*, David A Garfield*, Riza M Daza, Delasa Aghamirzaie, Raquel Marco-Ferreres, Hannah A Pliner, Lena Christiansen, Xiaojie Qiu, Frank J Steemers, Cole Trapnell, Jay Shendure+, Eileen EM Furlong+. 2018
Nature
José L McFaline-Figueroa, Andrew J Hill, Xiaojie Qiu, Dana Jackson, Jay Shendure, Cole Trapnell+. 2019
Nature Genetics
Other work
Jiayuan Ding, Jianhui Lin, Shiyu Jiang, Yixin Wang, Ziyang Miao, Zhaoyu Fang, Jiliang Tang+, Min Li+, Xiaojie Qiu+. 2025
Biorxiv
Yan Zhang*, Xiaojie Qiu*, Jonathan S Weissman, Ivet Bahar, Jianhua Xing+. 2023
bioRxiv
Qiangwei Peng, Xiaojie Qiu+, Tiejun Li+ 2024
PLOS computational biology
Sara Sunshine, Andreas S Puschnik, Joseph M Replogle, Matthew T Laurie, Jamin Liu, Beth Shoshana Zha, James K Nuñez, Janie R Byrum, Aidan H McMorrow, Matthew B Frieman, Juliane Winkler, Xiaojie Qiu, Oren S Rosenberg, Manuel D Leonetti, Chun Jimmie Ye, Jonathan S Weissman+, Joseph L DeRisi+, Marco Y Hein+ 2023
Nature Communication
Xiaoyu Wei*, Sulei Fu*, Hanbo Li*, Yang Liu*, Shuai Wang*, Weimin Feng*, Yunzhi Yang*, Xiawei Liu, Yan-Yun Zeng, Mengnan Cheng, Yiwei Lai, Xiaojie Qiu, Liang Wu, Nannan Zhang, Yujia Jiang, Jiangshan Xu, Xiaoshan Su, Cheng Peng, Lei Han, Wilson Pak-Kin Lou, Chuanyu Liu, Yue Yuan, Kailong Ma, Tao Yang, Xiangyu Pan, Shang Gao, Ao Chen, Miguel A Esteban, Huanming Yang, Jian Wang, Guangyi Fan, Longqi Liu, Liang Chen+, Xun Xu+, Ji-Feng Fei+, Ying Gu+. 2022
Science
Anika Gupta*, Jorge D Martin-Rufino*, Thouis R Jones, Vidya Subramanian, Xiaojie Qiu, Emanuelle I Grody, Alex Bloemendal, Chen Weng, Sheng-Yong Niu, Kyung Hoi Min, Arnav Mehta, Kaite Zhang, Layla Siraj, Aziz Al'Khafaji, Vijay G Sankaran, Soumya Raychaudhuri, Brian Cleary, Sharon Grossman, Eric S Lander+. 2022
PNAS
Lauren M Saunders, Abhishek K Mishra, Andrew J Aman, Victor M Lewis, Matthew B Toomey, Jonathan S Packer, Xiaojie Qiu, Jose L McFaline-Figueroa, Joseph C Corbo, Cole Trapnell+, David M Parichy+. 2019
eLife
Davide Cacchiarelli, Xiaojie Qiu, Sanjay Srivatsan, Anna Manfredi, Michael Ziller, Eliah Overbey, Antonio Grimaldi, Jonna Grimsby, Prapti Pokharel, Kenneth J Livak, Shuqiang Li, Alexander Meissner, Tarjei S Mikkelsen, John L Rinn, Cole Trapnell+. 2018
Cell Systems
Hannah A Pliner, Jonathan S Packer, José L McFaline-Figueroa, Darren A Cusanovich, Riza M Daza, Delasa Aghamirzaie, Sanjay Srivatsan, Xiaojie Qiu, Dana Jackson, Anna Minkina, Andrew C Adey, Frank J Steemers, Jay Shendure+, Cole Trapnell+. 2018
Molecular Cell
Naresh K Hanchate, Kunio Kondoh, Zhonghua Lu, Donghui Kuang, Xiaolan Ye, Xiaojie Qiu, Lior Pachter, Cole Trapnell+, Linda B Buck+. 2015
Science
Xiaojie Qiu*, Shanshan Ding*, Tieliu Shi+. 2012
PLOS one
Jigang Wang, Xiaojie Qiu*, Yuhua Li, Youping Deng, Tieliu Shi+. 2011
BMC Systems Biology
Bing He, Xiaojie Qiu, Peng Li, Lishan Wang, Qi Lv, Tieliu Shi+. 2010
Cell Research