Improving transmission efficiency of large sequence alignment/map (SAM) files. by Muhammad Nazmus Sakib, Jijun Tang, W Jim Zheng, Chin-Tser Huang

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Virome assembly and annotation in brain tissue based on next‐generation sequencing by Zihao Yuan, Xiaohua Ye, Lisha Zhu, Ningyan Zhang, Zhiqiang An, W. Jim Zheng

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Molecular profiling of multiple human cancers defines an inflammatory cancer-associated molecular pattern and uncovers KPNA2 as a uniform poor prognostic cancer marker. by Saleh M Rachidi, Tingting Qin, Shaoli Sun, W Jim Zheng, Zihai Li

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Correction: Molecular Profiling of Multiple Human Cancers Defines an Inflammatory Cancer-Associated Molecular Pattern and Uncovers KPNA2 as a Uniform Poor Prognostic Cancer Marker. by Saleh M. Rachidi, Tingting Qin, Shaoli Sun, W. Jim Zheng, Zihai Li

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SAFER: sub-hypergraph attention-based neural network for predicting effective responses to dose combinations by Yi-Ching Tang, Rongbin Li, Jing Tang, W. Jim Zheng, Xiaoqian Jiang

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The International Conference on Intelligent Biology and Medicine (ICIBM) 2016: from big data to big analytical tools by Zhandong Liu, W. Jim Zheng, Genevera I. Allen, Yin Liu, Jianhua Ruan, Zhongming Zhao

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Gene fingerprint model for literature based detection of the associations among complex diseases: a case study of COPD by Guocai Chen, Yuxi Jia, Lisha Zhu, Ping Li, Lin Zhang, Cui Tao, W. Jim Zheng

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Enhancing Hi-C data resolution with deep convolutional neural network HiCPlus by Yan Zhang, Lin An, Jie Xu, Bo Zhang, W. Jim Zheng, Ming Hu, Jijun Tang, Feng Yue

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The International Conference on Intelligent Biology and Medicine (ICIBM) 2016: summary and innovation in genomics by Zhongming Zhao, Zhandong Liu, Ken Chen, Yan Guo, Genevera I. Allen, Jiajie Zhang, W. Jim Zheng, Jianhua Ruan

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Presence of complete murine viral genome sequences in patient-derived xenografts by Zihao Yuan, Xuejun Fan, Jay-Jiguang Zhu, Tong-Ming Fu, Jiaqian Wu, Hua Xu, Ningyan Zhang, Zhiqiang An, W. Jim Zheng

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Transcriptional signature of durable effector T cells elicited by a replication defective HCMV vaccine by Xiaohua Ye, David J. H. Shih, Zhiqiang Ku, Junping Hong, Diane F. Barrett, Richard E. Rupp, Ningyan Zhang, Tong-Ming Fu, W. Jim Zheng, Zhiqiang An

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Subgingival Microbiome and Specialized Pro-Resolving Lipid Mediator Pathway Profiles Are Correlated in Periodontal Inflammation by Chun-Teh Lee, Ruoxing Li, Lisha Zhu, Gena D. Tribble, W. Jim Zheng, Brittney Ferguson, Krishna Rao Maddipati, Nikola Angelov, Thomas E. Van Dyke, Thomas E. Van Dyke

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Distinct Profiles of Specialized Pro-resolving Lipid Mediators and Corresponding Receptor Gene Expression in Periodontal Inflammation by Brittney Ferguson, Nishantha R. Bokka, Krishna Rao Maddipati, Srinivas Ayilavarapu, Robin Weltman, Lisha Zhu, Wanqi Chen, W. Jim Zheng, Nikola Angelov, Thomas E. Van Dyke, Thomas E. Van Dyke, Chun-Teh Lee

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HSC-independent definitive hematopoiesis persists into adult life by Michihiro Kobayashi, Haichao Wei, Takashi Yamanashi, Nathalia Azevedo Portilho, Samuel Cornelius, Noemi Valiente, Chika Nishida, Haizi Cheng, Augusto Latorre, W. Jim Zheng, Joonsoo Kang, Jun Seita, David J. Shih, Jia Qian Wu, Momoko Yoshimoto

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Reshaping the tumor microenvironment with oncolytic viruses, positive regulation of the immune synapse, and blockade of the immunosuppressive oncometabolic circuitry by Filipa Godoy-Vitorino, Hong Jiang, W Jim Zheng, Frederick F Lang, Joy Gumin, Lisha Zhu, Candelaria Gomez-Manzano, Juan Fueyo, Derek A Wainwright, Dong Ho Shin, Teresa T Nguyen, Sagar Sohoni, Sanjay K Singh, Yisel Rivera-Molina, Xuejun Fan, Christopher Alvarez-Breckenridge, Lijie Zhai, Erik Ladomersky, Kristen L Lauing, Marta M Alonso

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The IL6/JAK/STAT3 signaling axis is a therapeutic vulnerability in SMARCB1-deficient bladder cancer by Chandra Sekhar Amara, Karthik Reddy Kami Reddy, Yang Yuntao, Yuen San Chan, Danthasinghe Waduge Badrajee Piyarathna, Lacey Elizabeth Dobrolecki, David J. H. Shih, Zhongcheng Shi, Jun Xu, Shixia Huang, Matthew J. Ellis, Andrea B. Apolo, Leomar Y. Ballester, Jianjun Gao, Donna E. Hansel, Yair Lotan, H. Courtney Hodges, Seth P. Lerner, Chad J. Creighton, Arun Sreekumar, W. Jim Zheng, Pavlos Msaouel, Shyam M. Kavuri, Nagireddy Putluri

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A guide to the BRAIN Initiative Cell Census Network data ecosystem by Michael Hawrylycz, Maryann E. Martone, Giorgio A. Ascoli, Jan G. Bjaalie, Hong-Wei Dong, Satrajit S. Ghosh, Jesse Gillis, Ronna Hertzano, David R. Haynor, Patrick R. Hof, Yongsoo Kim, Ed Lein, Yufeng Liu, Jeremy A. Miller, Partha P. Mitra, Eran Mukamel, Lydia Ng, David Osumi-Sutherland, Hanchuan Peng, Patrick L. Ray, Raymond Sanchez, Aviv Regev, Alex Ropelewski, Richard H. Scheuermann, Shawn Zheng Kai Tan, Carol L. Thompson, Timothy Tickle, Hagen Tilgner, Merina Varghese, Brock Wester, Owen White, Hongkui Zeng, Brian Aevermann, David Allemang, Seth Ament, Thomas L. Athey, Cody Baker, Katherine S. Baker, Pamela M. Baker, Anita Bandrowski, Samik Banerjee, Prajal Bishwakarma, Ambrose Carr, Min Chen, Roni Choudhury, Jonah Cool, Heather Creasy, Florence D’Orazi, Kylee Degatano, Benjamin Dichter, Song-Lin Ding, Tim Dolbeare, Joseph R. Ecker, Rongxin Fang, Jean-Christophe Fillion-Robin, Timothy P. Fliss, James Gee, Tom Gillespie, Nathan Gouwens, Guo-Qiang Zhang, Yaroslav O. Halchenko, Nomi L. Harris, Brian R. Herb, Houri Hintiryan, Gregory Hood, Sam Horvath, Bingxing Huo, Dorota Jarecka, Shengdian Jiang, Farzaneh Khajouei, Elizabeth A. Kiernan, Huseyin Kir, Lauren Kruse, Changkyu Lee, Boudewijn Lelieveldt, Yang Li, Hanqing Liu, Lijuan Liu, Anup Markuhar, James Mathews, Kaylee L. Mathews, Chris Mezias, Michael I. Miller, Tyler Mollenkopf, Shoaib Mufti, Christopher J. Mungall, Joshua Orvis, Maja A. Puchades, Lei Qu, Joseph P. Receveur, Bing Ren, Nathan Sjoquist, Brian Staats, Daniel Tward, Cindy T. J. van Velthoven, Quanxin Wang, Fangming Xie, Hua Xu, Zizhen Yao, Zhixi Yun, Yun Renee Zhang, W. Jim Zheng, Brian Zingg

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A guide to the BRAIN Initiative Cell Census Network data ecosystem. by Michael Hawrylycz, Maryann E Martone, Giorgio A Ascoli, Jan G Bjaalie, Hong-Wei Dong, Satrajit S Ghosh, Jesse Gillis, Ronna Hertzano, David R Haynor, Patrick R Hof, Yongsoo Kim, Ed Lein, Yufeng Liu, Jeremy A Miller, Partha P Mitra, Eran Mukamel, Lydia Ng, David Osumi-Sutherland, Hanchuan Peng, Patrick L Ray, Raymond Sanchez, Aviv Regev, Alex Ropelewski, Richard H Scheuermann, Shawn Zheng Kai Tan, Carol L Thompson, Timothy Tickle, Hagen Tilgner, Merina Varghese, Brock Wester, Owen White, Hongkui Zeng, Brian Aevermann, David Allemang, Seth Ament, Thomas L Athey, Cody Baker, Katherine S Baker, Pamela M Baker, Anita Bandrowski, Samik Banerjee, Prajal Bishwakarma, Ambrose Carr, Min Chen, Roni Choudhury, Jonah Cool, Heather Creasy, Florence D'Orazi, Kylee Degatano, Benjamin Dichter, Song-Lin Ding, Tim Dolbeare, Joseph R Ecker, Rongxin Fang, Jean-Christophe Fillion-Robin, Timothy P Fliss, James Gee, Tom Gillespie, Nathan Gouwens, Guo-Qiang Zhang, Yaroslav O Halchenko, Nomi L Harris, Brian R Herb, Houri Hintiryan, Gregory Hood, Sam Horvath, Bingxing Huo, Dorota Jarecka, Shengdian Jiang, Farzaneh Khajouei, Elizabeth A Kiernan, Huseyin Kir, Lauren Kruse, Changkyu Lee, Boudewijn Lelieveldt, Yang Li, Hanqing Liu, Lijuan Liu, Anup Markuhar, James Mathews, Kaylee L Mathews, Chris Mezias, Michael I Miller, Tyler Mollenkopf, Shoaib Mufti, Christopher J Mungall, Joshua Orvis, Maja A Puchades, Lei Qu, Joseph P Receveur, Bing Ren, Nathan Sjoquist, Brian Staats, Daniel Tward, Cindy T J van Velthoven, Quanxin Wang, Fangming Xie, Hua Xu, Zizhen Yao, Zhixi Yun, Yun Renee Zhang, W Jim Zheng, Brian Zingg

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