Qunhua Li
Associate Professor of Statistics
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Wartik Lab
University Park, PA - qul12@psu.edu
- 814-865-9468
Research Summary
Developing statistical and computational methods for analyzing complex omics data and improving quality and reproducibility of high-throughout data
Graduate Students
Huck Affiliations
Publication Tags
Genes Dna Gene Expression Statistical Models Proteins Mass Spectrometry Chromatin Interleukin 6 Peptides Reproducibility Change Point Galaxies Genome Gene Experiment Diet Protein Methodology Mixture Model Model Enzymes Analysis Colon Chip PopulationMost Recent Papers
OnTAD
Lin An, Tao Yang, Jiahao Yang, Johannes Nuebler, Guanjue Xiang, Ross C. Hardison, Qunhua Li, Yu Zhang, 2019, Genome biology on p. 1-16
Measuring the reproducibility and quality of Hi-C data
Galip Gürkan Yardımcı, Hakan Ozadam, Michael E.G. Sauria, Oana Ursu, Koon Kiu Yan, Tao Yang, Abhijit Chakraborty, Arya Kaul, Bryan R. Lajoie, Fan Song, Ye Zhan, Ferhat Ay, Mark Gerstein, Anshul Kundaje, Qunhua Li, James Taylor, Feng Yue, Job Dekker, William S. Noble, 2019, Genome biology
A continuous threshold expectile model
Feipeng Zhang, Qunhua Li, 2017, Computational Statistics and Data Analysis on p. 49-66
Pigs, unlike mice, have two distinct colonic stem cell populations similar to humans that respond to high-calorie diet prior to insulin resistance
Venkata Charepalli, Lavanya Reddivari, Sridhar Radhakrishnan, Elisabeth Eriksson, Xia Xiao, Sung Woo Kim, Frank Shen, Matam Vijay-Kumar, Qunhua Li, Vadiraja B. Bhat, Rob Knight, Jairam K.P. Vanamala, 2017, Cancer Prevention Research on p. 442-450
Robust bent line regression
Feipeng Zhang, Qunhua Li, 2017, Journal of Statistical Planning and Inference on p. 41-55
A food-based approach that targets interleukin-6, a key regulator of chronic intestinal inflammation and colon carcinogenesis
Abigail Sido, Sridhar Radhakrishnan, Sung Woo Kim, Elisabeth Eriksson, Frank Shen, Qunhua Li, Vadiraja Bhat, Lavanya Reddivari, Jairam K.P. Vanamala, 2017, Journal of Nutritional Biochemistry on p. 11-17
A semi-parametric statistical model for integrating gene expression profiles across different platforms
Yafei Lyu, Qunhua Li, 2016, BMC bioinformatics
Multi-scale biological and physical modelling of the tumour micro-environment
Robert F. Kunz, Byron J. Gaskin, Qunhua Li, Sam Davanloo-Tajbakhsh, Cheng Dong, 2015, Drug Discovery Today: Disease Models on p. 7-15
Practical Guidelines for the Comprehensive Analysis of ChIP-seq Data
Timothy Bailey, Pawel Krajewski, Istvan Ladunga, Celine Lefebvre, Qunhua Li, Tao Liu, Pedro Madrigal, Cenny Taslim, Jie Zhang, 2013, PLoS computational biology
Galaxy tools to study genome diversity
Oscar C. Bedoya-Reina, Aakrosh Ratan, Richard Burhans, Hie Lim Kim, Belinda Giardine, Cathy Riemer, Qunhua Li, Thomas L. Olson, Thomas P. Loughran, Bridgett M. vonHoldt, George H. Perry, Stephan C. Schuster, Webb Miller, 2013, GigaScience
Most-Cited Papers
Measuring reproducibility of high-throughput experiments
Qunhua Li, James B. Brown, Haiyan Huang, Peter J. Bickel, 2011, Annals of Applied Statistics on p. 1752-1779
Practical Guidelines for the Comprehensive Analysis of ChIP-seq Data
Timothy Bailey, Pawel Krajewski, Istvan Ladunga, Celine Lefebvre, Qunhua Li, Tao Liu, Pedro Madrigal, Cenny Taslim, Jie Zhang, 2013, PLoS computational biology
A nested mixture model for protein identification using mass spectrometry
Qunhua Li, Michael J. MacCoss, Matthew Stephens, 2010, Annals of Applied Statistics on p. 962-987
Galaxy tools to study genome diversity
Oscar C. Bedoya-Reina, Aakrosh Ratan, Richard Burhans, Hie Lim Kim, Belinda Giardine, Cathy Riemer, Qunhua Li, Thomas L. Olson, Thomas P. Loughran, Bridgett M. vonHoldt, George H. Perry, Stephan C. Schuster, Webb Miller, 2013, GigaScience
A food-based approach that targets interleukin-6, a key regulator of chronic intestinal inflammation and colon carcinogenesis
Abigail Sido, Sridhar Radhakrishnan, Sung Woo Kim, Elisabeth Eriksson, Frank Shen, Qunhua Li, Vadiraja Bhat, Lavanya Reddivari, Jairam K.P. Vanamala, 2017, Journal of Nutritional Biochemistry on p. 11-17
Measuring the reproducibility and quality of Hi-C data
Galip Gürkan Yardımcı, Hakan Ozadam, Michael E.G. Sauria, Oana Ursu, Koon Kiu Yan, Tao Yang, Abhijit Chakraborty, Arya Kaul, Bryan R. Lajoie, Fan Song, Ye Zhan, Ferhat Ay, Mark Gerstein, Anshul Kundaje, Qunhua Li, James Taylor, Feng Yue, Job Dekker, William S. Noble, 2019, Genome biology
A semi-parametric statistical model for integrating gene expression profiles across different platforms
Yafei Lyu, Qunhua Li, 2016, BMC bioinformatics
A likelihood-based scoring method for peptide identification using mass spectrometry
Qunhua Li, Jimmy K. Eng, Matthew Stephens, 2012, Annals of Applied Statistics on p. 1775-1794
Robust bent line regression
Feipeng Zhang, Qunhua Li, 2017, Journal of Statistical Planning and Inference on p. 41-55
A continuous threshold expectile model
Feipeng Zhang, Qunhua Li, 2017, Computational Statistics and Data Analysis on p. 49-66
News Articles Featuring Qunhua Li
Dec 17, 2019
New tool reveals DNA structures that influence disease
Disruption of certain DNA structures — called topologically associating domains, or TADs — is linked with the development of disease, including some cancers. With its newly created algorithm that quickly locates and helps elucidate the complex functions of TADs, an international team of researchers is making it easier to study these important structures and help prevent disease.
Full Article
Mar 26, 2019
CBIOS Trainee Hillary Koch Awarded NIH Fellowship
Koch's dissertation proposal, "Statistical Methods for Differential Peak Detection in Hi-C Data," was funded upon its first submission to the National Human Genome Research Institute.
Full Article