Wei Du, Ph.D.
Professor

Machine Learning Lab
College of Computer Science and Technology
Jilin University
Changchun, Jilin Province, China, 130012
Phone: +86 135-0088-0409
Email: weidu@jlu.edu.cn
WeChat:

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PROFESSIONAL EXPERIENCES

• Professor in College of Computer Science and Technology, Jilin University, 2021.10-
• Associate Professor in College of Computer Science and Technology, Jilin University, 2015.10-2021.9
• Postdoctoral Research in Computational Systems Biology Laboratory (CSBL), University of Georgia, 2015.01- 2016.12
• Postdoctoral Research in College of Chemistry, Jilin University, 2012.01-2014.12
• Lecturer in College of Computer Science and Technology, Jilin University, 2011.07-2015.09
• Visiting Scholar in Department of Information engineering and computer science, University of Trento, 2010.08-2011.02

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EDUCATION

• Ph.D. in Computer Science and Technology (Bioinformatics), College of Computer Science and Technology, Jilin University, 2011
  • Thesis: Research on Application of Machine Learning and Data Mining in Bioinformatics
• M.S. in Computer Science and Technology, College of Computer Science and Technology, Jilin University, 2008
  • Thesis: Research on Methods of Computational Intelligence for Operon Prediction
• B.S. in Computer Science and Technology,College of Computer Science and Technology, Jilin University, 2005

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(# Equal contribution)
(^* Corresponding author)


1. Du W, Sun Y, Li G, Cao H, Pang R, Li Y: CapsNet-SSP: multilane capsule network for predicting human saliva-secretory proteins. BMC Bioinformatics,2020, 21 (1), 1-17.

2. Du W, Pang R, Li G, Cao H, Li Y, Liang Y: DeepUEP: Prediction of Urine Excretory Proteins Using Deep Learning. IEEE Access,2020, 8, 100251-100261.

3. Han S, Liang Y, Ma Q, Xu Y, Zhang Y, Du W, Wang C, Li Y: LncFinder: an integrated platform for long non-coding RNA identification utilizing sequence intrinsic composition, structural information and physicochemical property. Briefings in bioinformatics,2019, 20 (6), 2009-2027.

4. Zhang H, Liang Y, Peng C, Han S, Du W, Li Y: Predicting lncRNA-disease associations using network topological similarity based on deep mining heterogeneous networks. Mathematical biosciences,2019, 315, 108229.

5. Wang Y, Yang S, Zhao J, Du W, Liang Y, Wang C, Zhou F, Tian Y, Ma Q: Using machine learning to measure relatedness between genes: a multi-features model. Scientific reports,2019,9(1):1-15.

6. Tao M, Song T, Du W*, Han S, Zuo C, Li Y, Wang Y, Yang Z: Classifying Breast Cancer Subtypes Using Multiple Kernel Learning Based on Omics Data. Genes, 2019, 10(3): 200.

7. Yao F, Hong X, Li S, Zhang Y, Zhao Q, Du W, Wang Y, Ni J: Urine-based biomarkers for Alzheimer’s disease identified through coupling computational and experimental methods. Journal of Alzheimer's Disease, 2018,65 (2), 421-431.

8. Tian Y, Du W#, Cao S, Wu Y, Dong N, Wang Y, Xu Y: Systematic analyses of glutamine and glutamate metabolisms across different cancer types. Chinese Journal of Cancer, 2017,36:88.

9. Song T, Cao S, Sheng T, Liang S, Du W*, Liang Y: A Novel Unsupervised Algorithm for Biological Process-based Analysis on Cancer. Scientific Reports, 2017, 7 (1), 4671.

10. Song T, Liang Y, Cao Z, Du W*, Li Y: Computational Analysis of Specific microRNA Biomarkers for Noninvasive Early Cancer Detection. BioMed Research International, 2017: 4680650.

11. Du W, Cao Z, Song T, Li Y, Liang Y: A Feature Selection Method Based on Multiple Kernel Learning with Expression Profiles of Different types. BioData Mining, 2017: 10:4.

12. Han S, Liang Y, Li Y, Du W*: Lncident: A Tool for Rapid Identification of Long Non-Coding RNAs Utilizing Sequence Intrinsic Composition and Open Reading Frame Information. International Journal of Genomics, 2016: 9185496.

13. Song T, Wang Y, Du W*, Cao S, Tian Y, Liang Y: The method for breast cancer grade prediction and pathway analysis based on improved multiple kernel learning. Journal of Bioinformatics and Computational Biology, 2016:1650037.

14. Han S, Liang Y, Li Y, Du W*: Long Noncoding RNA Identification: Comparing Machine Learning Based Tools for Long Noncoding Transcripts Discrimination. BioMed Research International, 2016: 8496165.

15. Sun Y, Du W*, Zhou C, Zhou Y, Cao Z, Tian Y, Wang Y: A Computational Method for Prediction of Saliva-Secretory Proteins and Its Application to Identification of Head and Neck Cancer Biomarkers for Salivary Diagnosis. IEEE Transactions on NanoBioscience, 2015, 14(2):167-174.

16. Cao Z, Wang Y, Sun Y, Du W*, Liang Y: A novel filter feature selection method for paired microarray expression data analysis. International journal of data mining and bioinformatics 2015, 12(4):363-386.

17. Yao F, Zhang C, Du W*, Liu C, Xu Y: Identification of Gene-Expression Signatures and Protein Markers for Breast Cancer Grading and Staging. PloS one 2015, 10(9):e0138213.

18. Du W, Cao Z, Wang Y, Zhou F, Pang W, Chen X, Tian Y, Liang Y: Specific Biomarkers: Detection of Cancer Biomarkers Through High-Throughput Transcriptomics Data. Cognitive Computation 2015, 7(6):652-666.

19. Du W, Cao Z, Wang Y, Blanzieri E, Zhang C, Liang Y: Operon prediction by Markov clustering. International journal of data mining and bioinformatics 2014, 9(4):424-443. .

20. Wang Y, Sun H, Du W, Blanzieri E, Viero G, Xu Y, Liang Y: Identification of Essential Proteins Based on Ranking Edge-Weights in Protein-Protein Interaction Networks. PloS one 2014, 9(9):e108716.

21. Du W, Sun Y, Wang Y, Cao Z, Zhang C, Liang Y: A novel multi-stage feature selection method for microarray expression data analysis. International journal of data mining and bioinformatics 2013, 7(1):58-77.

22. Du W, Cao Z, Wang Y, Sun Y, Blanzieri E, Liang Y: Prokaryotic phylogenies inferred from whole-genome sequence and annotation data. BioMed research international 2013, 2013.

23. Wang J, Liang Y, Wang Y, Cui J, Liu M, Du W*, Xu Y: Computational prediction of human salivary proteins from blood circulation and application to diagnostic biomarker identification. PloS one 2013, 8(11):e80211.

24. Sun X, Dong B, Yin L, Zhang R, Du W, Liu D, Shi N, Li A, Liang Y, Mao L: PMTED: a plant microRNA target expression database. BMC bioinformatics 2013, 14(1):174.

25. Zhang C, Wu C, Blanzieri E, Zhou Y, Wang Y, Du W, Liang Y: Methods for labeling error detection in microarrays based on the effect of data perturbation on the regression model. Bioinformatics 2009, 25(20):2708-2714.

26. Zhang C, Du W, Shi X, Wang Y, Wang S, Zheng S, Zhou C, Liang Y: A Survey on Recent Patents of Biological Pathway Based on Computational Methods. Recent patents on DNA & gene sequences 2008, 2(3):200-208.

27. Wang S, Wang Y, Du W, Sun F, Wang X, Zhou C, Liang Y: A multi-approaches-guided genetic algorithm with application to operon prediction. Artificial intelligence in medicine 2007, 41(2):151-159.

• Grants Sponsor
  Principal Invertigator:
  1. National Natural Science Foundation of China, 2019-, Research on identification and mining cancer biomarker based on multi-omics data (61872418).
  2. Natural Science Foundation of Jilin Province, 2018-, Mining precision medical marker of cancer based on biomedical big data analysis (20180101050JC).
  3. Natural Science Foundation of Jilin Province, 2017-2018, Research on identification cancer biomarker based on biomedical big data (20170520063JH).
  4. National Natural Science Foundation of China, 2015-2017, Research on identification of cancer biomarkers associated with malignant degree in body fluids based on transcriptomics data (61402194).
  5. China Postdoctoral Science Foundation, 2014-2016, Research on cancer biomarker of transcriptome and network (2014T70291).
  6. China Ministry Of Education, 2013-2015, Research on cancer biomarker identification and network construction based on expression data (20120061120106).
  7. China Postdoctoral Science Foundation, 2013-2015, Research on cancer biomarker identification and network construction based on microarray data (2012M520678).
  8. Jilin Province of China, 2013-2015, Research on cancer biomarker identification and network construction (20130522114JH).
• Program Committee Member
  1. International Bioinformatics Workshop(IBW) 2012
  2. International Workshop on Cancer Systems Biology(ICSB) 2011-2019
• Professional Memberships
  1. Association for Computing Machinery (ACM), 2013-
  2. American Association for Cancer Research (AACR), 2016-
• Reviewer for Journals (20 in total): Bioinformatics (2); PLoSONE (5); IEEE/ACM Transactions on Computational Biology and Bioinformatics (8); International Journal of Data Mining and Bioinformatics (2);Artificial Intelligence in Medicine (1); Mathematical Biosciences (1); Computing Surveys (1); .
• Reviewer for Conferences (4 in total): International Society for Biomedical Research on Alcoholism (ISBRA), 2012,2014 (2); BIBM 2015 (1); BIBM 2016 (1)

• Mentoring Experience
  1. Huimin Bao (2018-), Jilin University, Graduate student
  2. Mengchen Chu (2018-), Jilin University, Graduate student
  3. Yu Sun (2018-), Jilin University, Graduate student
  4. Zeming Xing (2017-), Jilin University, Graduate student
  5. Ran Pang (2017-), Jilin University, Graduate student
  6. Taiping Qu (2017-), Jilin University, Graduate student
  7. Mingxin Tao (2016-2019), Jilin University, Graduate student
  8. Tianci Song (2014-2017), Jilin University, Graduate student
  9. Mingyue Sheng (2014-2017), Jilin University, Graduate student
  10. Yuping Li (2014-2017), Jilin University, Graduate student
  11. Lianheng Wang (2013-2016), Jilin University, Graduate student
  12. Lihua He (2012-2015), Jilin University, Graduate student
  13. Di Meng (2011-2014), Jilin University, Graduate student
  14. Jiaxin Wang (2011-2013), Jilin University, Phd. student
  15. Zhongbo Cao (2011-2015), Jilin University, Phd. student
  16. Ying Sun (2011-2015), Jilin University, Phd. student
  17. Fang Yao (2011-2015), Jilin University, Phd. student

• Teaching
  1. 2018-2019, Bioinformatics, Undergraduate student, Jilin University
  2. 2018-2019, Introduction to big data algorithms, Graduate student, City university of macau
  3. 2018-2019, Java Programming, Undergraduate student, Jilin University
  4. 2018-2019, Computational Biology, Graduate student, Jilin University
  5. 2017-2018, Bioinformatics, Undergraduate student, Jilin University
  6. 2017-2018, Java Programming, Undergraduate student, Jilin University
  7. 2017-2018, Computational Biology, Graduate student, Jilin University
  8. 2016-2017, Java Programming, Undergraduate student, Jilin University
  9. 2016-2017, Computational Biology, Graduate student, Jilin University
  10. 2013-2014, Android Programming, Undergraduate student, Jilin University
  11. 2013-2014, Java Programming, Undergraduate student, Jilin University
  12. 2012-2013, Bioinformatics, Undergraduate student, Jilin University

• Conference Attendances
  1. (2018) The 8th Chinese Conference on Bioinformatics & Systems Biology, Macau, China
  2. (2017) The 13th International Bioinformatics Workshop, Harbin, China
  3. (2016) AACR Annual Meeting 2016, New Orleans, Louisiana, USA
  4. (2015) The 4th Workshop on Biostatistics and Bioinformatics, Atlanta, GA, USA
  5. (2014) The 6th Chinese Conference on Bioinformatics & Systems Biology, Nanjing, China
  6. (2012) The 5th Chinese Conference on Bioinformatics & Systems Biology, Harbin, China
  7. (2012) The 10th International Bioinformatics Workshop, Changchun, China
  8. (2010) The 8th International Bioinformatics Workshop, Wuhan, China
  9. (2008) The 6th International Bioinformatics Workshop, Kuming, China
  10. (2007) The 5th International Bioinformatics Workshop, Weihai, China
  11. (2005) The Changchun International Bioinformatics Workshop, Changchun, China

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