Wenbao Yu, PhD

Research Assistant Professor of Pediatrics (Oncology)
Research Assistant Professor, Center for Childhood Cancer Research, Children's Hospital of Philadelphia
Department: Pediatrics
Contact information
Children's Hospital of Philadelphia
3501 Civic Center Blvd.
Philadelphia, PA 19104
3501 Civic Center Blvd.
Philadelphia, PA 19104
Education:
B.S (Mathematics)
Chongqing University, China, 2006.
M.S. (Computational Mathematics)
University of Science and Technology of China, China, 2009.
Ph.D. (Statistics)
Chonnam National University, South Korea, 2013.
Permanent linkB.S (Mathematics)
Chongqing University, China, 2006.
M.S. (Computational Mathematics)
University of Science and Technology of China, China, 2009.
Ph.D. (Statistics)
Chonnam National University, South Korea, 2013.
Description of Research Expertise
Computational BiologySingle-cell Multi-omics
Cancer Genomics
3D Genome Organization
Selected Publications
Alexandra U Zezulin, Darwin Ye, Elizabeth Howell, Daniel Yen, Erica Bresciani, Jamie Diemer, Jian-gang Ren, Mohd Hafiz Ahmad, Lucio H Castilla, Ivo P Touw, Andy J Minn, Wei Tong, P Paul Liu, Kai Tan, Wenbao Yu*, Nancy A Speck*: RUNX1 is required in granulocyte-monocyte progenitors to attenuate inflammatory cytokine production by neutrophils. Genes & Development 2023 Notes: Co-corresponding author.Changya Chen*, Wenbao Yu*, Fatemeh Alikarami*, Qi Qiu, Chia-hui Chen, Jennifer Flournoy, Peng Gao, Yasin Uzun, Li Fang, James W Davenport, Yuxuan Hu, Qin Zhu, Kai Wang, Clara Libbrecht, Alex Felmeister, Isaiah Rozich, Yang-yang Ding, Stephen P Hunger, Carolyn A Felix, Hao Wu, Patrick A Brown, Erin M Guest, David M Barrett, Kathrin M Bernt, Kai Tan: Single-cell multiomics reveals increased plasticity, resistant populations, and stem-cell–like blasts in KMT2A-rearranged leukemia. Blood Page: 2198-2211, April 2022 Notes: Co-first author.
Yu, W., Uzun, Y., Zhu, Q., Chen, C., & Tan, K.: scATAC-pro: a comprehensive workbench for single-cell chromatin accessibility sequencing data. Genome Biology 21(94): doi: 10.1186, Apr 2020 Notes: online pub.
Yu, W., He, B., & Tan, K.: Identifying topologically associating domains and subdomains by Gaussian mixture model and proportion test. Nature communications 8(535): 535, Sep 2017.
Changya Chen*, Wenbao Yu*, Joanna Tober, Peng Gao, Bing He, Kiwon Lee, Tuan Trieu, Gerd A Blobel, Nancy A Speck, Kai Tan: Spatial genome re-organization between fetal and adult hematopoietic stem cells. Cell Reports 29(12): 4200-4211, 2019 Notes: Co-first author.
Yu, W., Lee, S., & Park, T.: A unified model based multifactor dimensionality reduction framework for detecting gene–gene interactions. Bioinformatics 32(17): i605-i610, 2016.
Chen, G. M., Chen, C., Das, R. K., Gao, P., ..., Yu, W., ... & Tan, K. : Integrative bulk and single-cell profiling of pre-manufacture T-cell populations reveals factors mediating long-term persistence of CAR T-cell therapy. Cancer Discovery Page: doi: 10.1158, Apr 2021 Notes: epub ahead of print.
Yu, W., & Park, T.: Two simple algorithms on linear combination of multiple biomarkers to maximize partial area under the ROC curve. Computational Statistics & Data Analysis 88: 15-27, 2015.
Yu, W., Kwon, M.S., & Park. T.: Multivariate quantitative multifactor dimensionality reduction for detecting gene-gene interactions. Human heredity 79(3-4): 168-181, 2015.
Zhu, Q., Gao, P., ..., Yu, W., ... & Tan, K.: Developmental trajectory of prehematopoietic stem cell formation from endothelium. Blood 136(7): 845-856, 2020.
Orit Rozenblatt-Rosen, Aviv Regev, Philipp Oberdoerffer, Tal Nawy, Anna Hupalowska, Jennifer E Rood, Orr Ashenberg, Ethan Cerami, Robert J Coffey, Emek Demir, Li Ding, Edward D Esplin, James M Ford, Jeremy Goecks, Sharmistha Ghosh, Joe W Gray, Justin Guinney, Sean E Hanlon, Shannon K Hughes, E Shelley Hwang, Christine A Iacobuzio-Donahue, Judit Jané-Valbuena, Bruce E Johnson, Ken S Lau, Tracy Lively, Sarah A Mazzilli, Dana Pe'er, Sandro Santagata, Alex K Shalek, Denis Schapiro, Michael P Snyder, Peter K Sorger, Avrum E Spira, Sudhir Srivastava, Kai Tan, Robert B West, Elizabeth H Williams, Human Tumor Atlas Network: The Human Tumor Atlas Network: Charting Tumor Transitions across Space and Time at Single-Cell Resolution. Cell 181(2): 236-249, Apr 2020 Notes: Participating Investigator.
Yu, W., Kim, J. K., & Park, T. : Estimation of Area Under the ROC Curve under nonignorable verification bias. Statistica Sinica 28(4): 2149–2166, 2018.
Yu, W., & Park, T.: AucPR: An AUC-based approach using penalized regression for disease prediction with high-dimensional omics data. BMC genomics 15(S1): doi: 10.1186, 2014 Notes: online pub.
Yu, W., Ivan Chang, Y. C., & Park, E.: A modified area under the ROC curve and its application to marker selection and classification. Journal of the Korean Statistical Society 43(2): 161-175, 2014.