Education
| 2008 | Ph.D. Computer Science, University of Missouri-Columbia |
Professional Experience
| 2017 - | Assistant Professor, University of Miami |
| 2015 - 2017 | Nina Bell Suggs Professor, The University of Southern Mississippi |
| 2013 - 2015 | Assistant Professor, The University of Southern Mississippi |
| 2012 - 2013 | "Mizzou Advantage - Preparing Future Faculty" Postdoctoral Fellow, University of Missouri-Columbia |
Honors & Acknowledgements
Academic research enhancement award (R15)
Nina Bell Suggs endowed professorship
First place award for postdoctoral oral presentation
"Mizzou Advantage - Preparing Future Faculty" postdoctoral fellowship
- (40% research, 40% teaching, and 20% service), Chancellor's Fund for Excellence, University of Missouri, 2012
- Shumaker fellowship, University of Missouri, 201
Bioinformatics, particularly, in the topics of three-dimensional structure of chromosomes, protein structure prediction, protein function prediction, protein domain co-occurrence network, and species phylogeny inference
Research Projects
scHiCNorm
scHiCNorm is a software package for eliminating systematic biases in single-cell Hi-C data. Considering that single-cell Hi-C data are zero-inflated, here we use zero-inflated (Poisson and Negative Binomial) and hurdle (Poisson and Negative Binomial) models to remove biases, including cutting sites, GC content, and mappability.
SOV_refine
SOV_refine is a refined definition of segment overlap score based on the previous definitons of SOV scores (SOV'99) (Zemla, A. et al., 1999, proteins) and (SOV'94) (Rost, B. et al., 1994, J. Mol. Biol.), which were initially designed to evaluate the quality of protein secondary structure predictions. SOV_refine redefined the assignment of allowance in SOV'99, which can ensure that the amount of allowance is incremental when one more element in the predicted sequence is further predicted accurately.
SOV scores (SOV'99 and SOV_refine) can be used in all sequence similarity comparison especially for those sequences with multiple overlapping segments
PANDA
Protein Function Prediction Using Domain Architecture and Affinity Propagation on the Gene Ontology Graph
Wang, Z., Zhao, C., Wang, Y., Sun, Z., and Wang, N. (2018) PANDA: Protein Function Prediction using Domain Architecture and Affinity Propagation. Scientific Reports, 8, doi:10.1038/s41598-018-21849-1.
DeepMethyl
Predicting DNA methylation state of CpG dinucleotide using genome topological features and deep networks
Reference
If you use DeepMethyl, please cite: Yiheng Wang, Tong Liu, Dong Xu, Huidong Shi, Chaoyang Zhang, Yin-Yuan Mo and Zheng Wang. Predicting DNA Methylation State of CpG Dinucleotide Using Genome Topological Features and Deep Networks. Sci. Rep. 6, 19598, doi:10.1038/srep19598. [PDF]
Publications
Liu, T. and Wang, Z. "SOV_refine: A further refined definition of segment overlap score and its significance for protein structure similarity" Source Code for Biology and Medicine 13:1 (2018). [Link]
Wang, Z., Zhao, C., Wang, Y., Sun, Z., and Wang, N. "PANDA: Protein function prediction using domain architecture and affinity propagation" Scientific Reports (2018). [Link]
More Publications
