Title

Peng Qiu

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Title/Position
Professor, Wallace H. Coulter Distinguished Faculty Fellow
Areas of Research

Areas of Research

Biomedical Informatics & Systems Modeling, Immunoengineering
Contact

Contact

EBB 2107Georgia Tech
peng.qiu@bme.gatech.edu
404.385.1656
Peng Qiu Lab
Education

Education

  • Ph.D. in Electrical and Computer Engineering, 2007 - University of Maryland College Park
  • B.S. in Electrical Engineering, 2003 - University of Science and Technology of China
Research Interests

Research Interests

Professor Qiu's main research interests are in bioinformatics and machine learning, focusing on algorithm development, machine learning, data integration, statistical signal processing, control systems and optimization. The applications include single-cell genomics, cancer, immunology, Crohn's disease, and aging. 

Teaching Interests

Teaching Interests

Professor Qiu teaches machine learning courses and systems modeling courses at both undergraduate and graduate levels.
Publications

Publications

Washburn S, Hwang Y, Maddipatla SC, Murthy S, Koti T, Kolachala VL, Gibson G*, Kugathasan S*, Qiu P*. “Identification of Crohn’s disease subtypes in single cell RNA sequencing signatures of treatment naïve samples across the paediatric gastrointestinal tract“, Journal of Crohn’s and Colitis, 20(1):jjaf225, 2025.
Sun Y, Qiu P. “Hierarchical marker genes selection in scRNA-seq analysis“, PLoS Computational Biology, 20(12):e1012643, 2024.
Lim HS, Qiu P. “Quantifying the clusterness and trajectoriness of single-cell RNA-seq data“, PLoS Computational Biology, 20(2):e1011866, 2024.
Sun Y, Qiu P. “Domain adaptation for supervised integration of scRNA-seq data“, Communications Biology, 6(1):274, 2023.
Maddipatla S, Kolachala VL, Venkateswaran S, Dodd AF, Pelia RS, Geem D, Yin H, Sun Y, Xu C, Mo A, Kosters A, Yang J, Matthews JD, Ghosn EEB, Kugathasan S*, Qiu P*. “Assessing Cellular and Transcriptional diversity of IIeal Mucosa amongst Treatment Naïve and Treated Crohn’s disease“, Inflammatory Bowel Diseases, 29(2):274-285, 2023.
Lim HS, Qiu P. “JSOM: Jointly-evolving self-organizing maps for alignment of biological datasets and identification of related clusters“, PLoS Computational Biology, 17(3):e1008804, 2021.
Qiu P. “Embracing the dropouts in single-cell RNA-seq analysis“, Nature Communications, 11(1):1169, 2020.
Jeong J, Zhuang Q, Transtrum MK, Zhou E, Qiu P. “Experimental design and model reduction in systems biology“, Quantitative Biology, 6(4):287-306, 2018.
Transtrum MK, Qiu P. “Bridging Mechanistic and Phenomenological Models of Complex Biological Systems“, PLoS Computational Biology, 12(5):e1004915, 2016.
Qiu P. “Computational prediction of manually gated rare cells in flow cytometry data“, Cytometry Part A, 87(7):594-602, 2015.
Transtrum MK, Qiu P. “Model Reduction by Manifold Boundaries“, Physical Review Letters, 113 (9), 098701, 2014.
Transtrum MK, Qiu P. “Optimal Experiment Selection for Parameter Estimation in Biological Differential Equation Models“, BMC Bioinformatics, 13(1):181, 2012.
Qiu P. “Inferring phenotypic properties from single-cell characteristics“, PLoS ONE, 7(5): e37038, 2012.
Qiu P, Simonds EF, Bendall SC, Gibbs KD Jr, Bruggner RV, Linderman MD, Sachs K, Nolan GP, Plevritis SK. “Extracting a Cellular Hierarchy from High-dimensional Cytometry Data with SPADE“, Nature Biotechnology, 29(10):886-891, 2011.
Qiu P, Gentles AJ, Plevritis SK. “Discovering Biological Progression underlying Microarray Samples“, PLoS Computational Biology, 7(4):e1001123, 2011.

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