Yun Zhang

11 papers Journal 11
YearRankTypeTitle / Venue / Authors
2025 J jnl
The Cell Ontology in the age of single-cell omics.
CoRR
Shawn Zheng Kai Tan, Aleix Puig-Barbe, Damien Goutte-Gattat, Caroline Eastwood, Brian D. Aevermann, Alida Avola, James P. Balhoff, Ismail Ugur Bayindir, Jasmine Belfiore, Anita R. Caron, David S. Fischer, Nancy George, Benjamin M. Gyori, Melissa A. Haendel, Charles Tapley Hoyt, Hüseyin Kir, Tiago Lubiana, Nicolas Matentzoglu, James A. Overton, Beverly Peng, Bjoern Peters, Ellen M. Quardokus, Patrick L. Ray, Paola Roncaglia, Andrea D. Rivera, Raymund Stefancsik, Wei Kheng Teh, Sabrina Toro, Nicole A. Vasilevsky, Chuan Xu, Yun Zhang, Richard H. Scheuermann, Christopher J. Mungall, Alexander D. Diehl, David Osumi-Sutherland
2023 J jnl
Introducing the Bacterial and Viral Bioinformatics Resource Center (BV-BRC): a resource combining PATRIC, IRD and ViPR.
Nucleic Acids Res.
Robert D. Olson, Rida Assaf, Thomas S. Brettin, Neal Conrad, Clark Cucinell, James J. Davis, Donald M. Dempsey, Allan Dickerman, Emily M. Dietrich, Ronald W. Kenyon, Mehmet Kuscuoglu, Elliot J. Lefkowitz, Jian Lu, Dustin Machi, Catherine Macken, Chunhong Mao, Anna Maria Niewiadomska, Marcus Nguyen, Gary J. Olsen, Jamie C. Overbeek, Bruce D. Parrello, Victoria Parrello, Jacob s Porter, Gordon D. Pusch, Maulik Shukla, Indresh Singh, Lucy Stewart, Gene Tan, Chris Thomas, Margo VanOeffelen, Veronika Vonstein, Zachary S. Wallace, Andrew S. Warren, Alice R. Wattam, Fangfang Xia, Hyun Seung Yoo, Yun Zhang, Christian M. Zmasek, Richard H. Scheuermann, Rick L. Stevens
2022 J jnl
Early detection of emerging SARS-CoV-2 variants of interest for experimental evaluation.
Frontiers Bioinform.
Zachary S. Wallace, James J. Davis, Anna Maria Niewiadomska, Robert D. Olson, Maulik Shukla, Rick Stevens, Yun Zhang, Christian M. Zmasek, Richard H. Scheuermann
2022 J jnl
FastMix: a versatile data integration pipeline for cell type-specific biomarker inference.
Bioinform.
Yun Zhang, Hao Sun, Aishwarya Mandava, Brian D. Aevermann, Tobias R. Kollmann, Richard H. Scheuermann, Xing Qiu, Yu Qian
2021 J jnl
FR-Match: robust matching of cell type clusters from single cell RNA sequencing data using the Friedman-Rafsky non-parametric test.
Briefings Bioinform.
Yun Zhang, Brian D. Aevermann, Trygve E. Bakken, Jeremy A. Miller, Rebecca D. Hodge, Ed S. Lein, Richard H. Scheuermann
2021 J jnl
The effect of tissue composition on gene co-expression.
Briefings Bioinform.
Yun Zhang, Jonavelle Cuerdo, Marc K. Halushka, Matthew N. McCall
2019 J jnl
Highly efficient hypothesis testing methods for regression-type tests with correlated observations and heterogeneous variance structure.
BMC Bioinform.
Yun Zhang, Gautam Bandyopadhyay, David J. Topham, Ann R. Falsey, Xing Qiu
2018 J jnl
Statistical method evaluation for differentially methylated CpGs in base resolution next-generation DNA sequencing data.
Briefings Bioinform.
Yun Zhang, Saurabh Baheti, Zhifu Sun
2017 J jnl
FUNNEL-GSEA: FUNctioNal ELastic-net regression in time-course gene set enrichment analysis.
Bioinform.
Yun Zhang, David J. Topham, Juilee Thakar, Xing Qiu
2017 J jnl
Influenza Research Database: An integrated bioinformatics resource for influenza virus research.
Nucleic Acids Res.
Yun Zhang, Brian D. Aevermann, Tavis K. Anderson, David F. Burke, Gwenaelle Dauphin, Zhiping Gu, Sherry He, Sanjeev Kumar, Christopher N. Larsen, Alexandra J. Lee, Xiaomei Li, Catherine Macken, Colin Mahaffey, Brett E. Pickett, Brian Reardon, Thomas Smith, Lucy Stewart, Christian Suloway, Guangyu Sun, Lei Tong, Amy L. Vincent, Bryan Walters, Sam Zaremba, Hongtao Zhao, Liwei Zhou, Christian M. Zmasek, Edward B. Klem, Richard H. Scheuermann
2012 J jnl
ViPR: an open bioinformatics database and analysis resource for virology research.
Nucleic Acids Res.
Brett E. Pickett, Eva L. Sadat, Yun Zhang, Jyothi Noronha, R. Burke Squires, Victoria Hunt, Mengya Liu, Sanjeev Kumar, Sam Zaremba, Zhiping Gu, Liwei Zhou, Christopher N. Larsen, Jonathan Dietrich, Edward B. Klem, Richard H. Scheuermann