Yingfeng Wang

Middle Georgia State University

Assistant Professor

School of Information Technology

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Research Interests

  • Bioformatics
  • Graph Grammar
  • Machine Learning

Education

Ph.D.
2012

Ph.D. in Computer Science

University of Georgia, Athens, USA

M.S.
2005

M.S. in Computer Software and Theory

Hohai University, Nanjing, China

B.S.
2002

B.S. in Computer Science and Technology

Hohai University, Nanjing, China

Selected Publications

PhD Dissertation

“Separating Structural Non-coding RNAs From Genomic Backgrounds”, advisors: Prof. Liming Cai and Prof. Russell Malmberg.

Master Thesis

“Sensitivity Study of Madalines”, awarded by the Provincial Excellent Master Thesis of Jiangsu, advisor: Prof. Xiaoqin Zeng.

Journal

Yingfeng Wang, Xutao Wang, and Xiaoqin Zeng, “MIDAS-G: A Computational Platform for Investigating Fragmentation Rules of Tandem Mass Spectrometry in Metabolomics”, Metabolomics, vol 13, no. 10, pp 116, 2017

Xubo Wang and Yingfeng Wang, “Discrete Mathematics Education for Information Technology Students”, Computer Education, no.4, pp. 16-20, 2016.

Yingfeng Wang, Russell L. Malmberg, and Liming Cai, “A Novel Structural Measure Separating Non-Coding RNAs from Genomic Backgrounds”, Tsinghua Science and Technology, vol 20, no.5, pp. 474-483, 2015.

Yingfeng Wang, Guruprasad Kora, Benjamin P. Bowen, and Chongle Pan, “MIDAS: A Database-Searching Algorithm for Metabolite Identi fi cation in Metabolomics”, Analytical Chemistry, vol 86, no.19, pp. 9496–9503, 2014.

Nicholas B. Justice, Zhou Li, Yingfeng Wang, Susan E. Spaudling, Annika C. Mosier, Robert L. Hettich, Chongle Pan, and Jillian F. Banfield, “15N- and 2H proteomic stable isotope probing links nitrogen flow to archaeal heterotrophic activity”, Environmental Microbiology, vol 16, no.10, pp. 3224–3237, 2014.

Zhou Li, Yingfeng Wang, Qiuming Yao, Nicholas Justice, Tae-Hyuk Ahn, Dong Xu, Robert Hettich, Jillian Banfield, and Chongle Pan, “Diverse and divergent protein post-translational modifications in two growth stages of a natural microbial community”, Nature Communications, vol 5, no.4405, 2014.

Yingfeng Wang, Tae-Hyuk Ahn, Zhou Li, and Chongle Pan, “Sipros/ProRata: a versatile informatics system for quantitative community proteomics”, Bioinformatics, vol 29, no.16, pp.2064--2065, 2013.

Amirhossein Manzourolajdad, Yingfeng Wang, Timothy I. Shaw, and Russell L. Malmberg, “Information-theoretic Uncertainty of SCFG-modeled Folding Space of the Non-coding RNA”, Journal of Theoretical Biology, vol 138, pp.140-163, 2013.

Pooya Shareghi, Yingfeng Wang, Russell L. Malmberg, and Liming Cai, “Simultaneous Prediction of RNA Secondary Structure and Helix Coaxial Stacking”, BMC Genomics, vol 13, suppl 3 S7, 2012. (Also see BIBM 2011)

Yingfeng Wang, Amir Manzour, Pooya Shareghi, Timothy I. Shaw, Ying-Wai Li, Russell L. Malmberg, and Liming Cai, “Stable Stem Enabled Shannon Entropies Distinguish Noncoding RNAs from Random Backgrounds”, BMC Bioinformatics, vol 13, Suppl 5 S1, 2012. (Also see ICCABS 2011)

Timothy I. Shaw, Amir Manzour, Yingfeng Wang, Russell L. Malmberg, and Liming Cai, “Analyzing Modular RNA Structure Reveals Low Global Structural Entropy in MicroRNA Sequence”, Journal of Bioinformatics and Computational Biology, vol.9, no.2, pp.283-298, 2011. (Also see CSB 2010)

Leilei Guo, Dong Zhang, Yingfeng Wang, Russell L. Malmberg, Michael J. McEachern and Liming Cai, “TRFolder: Computational Prediction of Novel Telomerase RNA Structures in Yeast Genomes”, International Journal of Bioinformatics Research and Applications, vol.7, no.1, pp.63-81, 2011.

Yingfeng Wang, Zhibin Huang, Yong Wu, Russell L. Malmber and Liming Cai, “RNATOPS-W: a web server for RNA structure searches of genomes”, Bioinformatics, vol. 25, no. 8, pp. 1080-1081, 2009.

Xiaoqin Zeng, Jing Shao, Yingfeng Wang, and Shuiming Zhong, “A sensitivity-based approach for pruning architecture of Madalines”, Neural Computing & Applications, vol. 18, no. 8, pp. 957-965, 2009.

Yingfeng Wang, Xiaoqin Zeng, Daniel So Yeung, and Zhihang Peng, “Computation of Madalines’ Sensitivity to Input and Weight Perturbations”, Neural Computation, vol. 18, no. 11, pp. 2854-2877, 2006.

Xiaoqin Zeng, Yingfeng Wang, and Kang Zhang, “Computation of Aadalines’ Sensitivity to Weight Perturbation”, IEEE Transactions on Neural Networks, vol. 17, no. 2, pp. 515-519, 2006.

Lecture Notes

Yingfeng Wang, Xiaoqin Zeng, and Daniel S. Yeung, “Sensitivity Analysis of Madalines to Weight Perturbation”, Lecture Notes in Artificial Intelligence, vol. 3930, pp. 822-831, 2006. (Also see ICMLC2005)

Conference

Yingfeng Wang and Xubo Wang, “Integrating Parallel and Distributed Computing Topics into Curriculum”, NSF/TCPP Workshop on Parallel and Distributed Computing Education (poster), May. 2016.

Pooya Shareghi, Yingfeng Wang, Russell L. Malmberg, and Liming Cai, “Simultaneous Prediction of RNA Secondary Structure and Helix Coaxial Stacking”, Proceedings of 2011 IEEE International Conference on Bioinformatics and Biomedicine, pp.89-95, Nov. 2011. (The journal version of this paper has been selected to publish in BMC Genomics)

Yingfeng Wang, Amir Manzour, Pooya Shareghi, Timothy I. Shaw, Ying-Wai Li, Russell L. Malmberg, and Liming Cai, “Stable Stem Enabled Shannon Entropies Distinguish Noncoding RNAs from Random Backgrounds”, Proceedings of 1st IEEE International Conference on Computational Advances in Bio and medical Sciences, pp.184-189, Feb. 2011. (The journal version of this paper has been invited to publish in BMC Bioinformatics)

Timothy I. Shaw, Amir Manzour, Russell L. Malmberg, Yingfeng Wang, and Liming Cai, “Analyzing Modular RNA Structure Reveals Low Global Structural Entropy in MicroRNA Sequence”, Proceedings of 9th Annual International Conference on Computational Systems Bioinformatics pp. 146-155, Aug. 2010. (The journal version of this paper has been selected to publish in Journal of Bioinformatics and Computational Biology)

Yingfeng Wang and Xiaoqin Zeng, “Using a Sensitivity Measure to Improve Training Accuracy and Convergence for Madalines”, Proceedings of International Joint Conference on Neural Networks pp. 1750-1756, Jul. 2006.

Yingfeng Wang, Xiaoqin Zeng, and Daniel S. Yeung, “Analysis of Sensitivity Behavior of Madalines”, Proceedings of IEEE International Conference on Machine Learning and Cybernetics, pp. 4731-4737, Aug. 2005. (This paper has been selected to be published in Lecture Notes in Artificial Intelligence)

Yingfeng Wang, Xiaoqin Zeng, and Lixin Han, “Sensitivity of Madalines to Input and Weight Perturbations”, Proceedings of IEEE International Conference on Machine Learning and Cybernetics, pp.1349-1354, Nov. 2003.