Erliang Zeng

Erliang Zeng

Assistant Professor

BIOLOGY

Churchill-Haines Labs 171D

Phone: (605) 677-6335

Email: Erliang.Zeng@usd.edu

Website: http://sites.usd.edu/ezeng/

Bio:

I am an assistant professor at USD with a joint appointment to the Department of Biology and the Department of Computer Science. Prior to joining USD, I was a research assistant professor in the Department of Computer Science and Engineering at the University of Notre Dame (ND) and the managing director of ND bioinformatics core facility. I was a post-doctoral associate at the University of Miami after receiving a PhD in computer science from the Florida International University in 2008. I also received a MS in biochemistry and molecular biology (2001) and a BS in biotechnology (1998) from the Shanghai Jiao Tong University.


Teaching Interests:

Bioinformatics, Computational Systems Biology, Biostatistics, Algorithm, Data Mining, Data Structure, Programing Language.


Research Interests:

I direct the BioComs Lab (bioinformatics and computational systems biology laboratory, http://www.biocoms.org/) at USD. PhD students in BioComs Lab are enrolled in the specialization in bioinformatics within the PhD program in biological sciences (http://catalog.usd.edu/preview_program.php?catoid=23&poid=3538). Master students in BioComs Lab could join in the computer science Master program (http://www.usd.edu/arts-and-sciences/computer-science/graduate). The research interests of my group are in the general areas of bioinformatics, computational systems biology, and biological big data mining. My lab is a dry lab, and we collaborate with several web labs. Currently, work of my group focuses on developing and applying algorithms and computational tools for analyzing high-throughput biological data including next-generation sequencing data, metagenomics data, epigenomics data, SNPs data, and many more. The research projects are related to functional genomic data analysis, comparative genomics analysis, biological big data mining, gene expression data analysis, promoter sequence data analysis, protein-protein interaction data mining, functional gene network analysis, and biological ontology data mining.


Education:

  • Ph D, Computer Science, Florida International University, 2008
  • MS, Biochemistry and Molecular Biology, Shanghai Jiao Tong University, 2001
  • BS, Biotechnology, Shanghai Jiao Tong University, 1998

Grants:

  • R01: Molecular Circuit of Multi-ciliogenesis Regulates Choroid Plexus Differentiation and Tumor Development (R01CA220551), NIH. (2017 - 2022)
  • Center for Genetics and Behavioral Health, South Dakota Governor's Office of Economic Development. (2017 - 2022)
  • R01: The COP9 Signalosome in the Heart (HL085629-10~13), NHLBI/NIH. Grant Role: Supporting. (2016 - 2020)
  • MRI: Acquisition of the Lawrence Supercomputer to Advance Multidisciplinary Research in South Dakota, University of South Dakota. Grant Role: Co-Principal. (2016 - 2019)
  • Travel Grant, USD College of Arts and Sciences. (2016 - 2016)
  • Evaluating microbial community responses to a bio-pesticide and a bio-fungicide in the soybean rhizosphere to improve product performance, Bayer Crop Science. Grant Role: Co-Principal. (2015 - 2016)
  • High-Performance Computing Cluster to Enable the Next Generation of Computationally Assisted Research, South Dakota Board of Regents. Grant Role: Supporting. (2015 - 2016)
  • Bioinformatic Development for Mining Genomic Patterns Corresponding for Ecological Adapting through Massive Microbial Whole Genome Sequences, Office of Research, University of Notre Dame. Grant Role: Principal. (2013 - 2014)

Publications:

Citations listed below are presented in a standardized, modified format for display purposes only. They do not necessarily reflect the preferred style and conventions of the faculty member or discipline.

  • Abdullah, A, Eyster, Kathleen, Bjordahl, T, Xiao, P, Zeng, Erliang, and Wang, Xuejun. Murine Myocardial Transcriptome Analysis Reveals a Critical Role of COPS8 in the Gene Expression of Cullin-RING Ligase Substrate Receptors and Redox and Vesicle Trafficking Pathways., 594. Vol. 8. Frontiers in physiology, 2017. (DOI: 10.3389/fphys.2017.00594)
  • Grausam, Katie B., Dooyema, Samuel D., Bihannic, Laure, Premathilake, Hasitha, Morrissy, Sorana, Forget, Antoine, Schaefer, Amanda M., Gundelach, Justin H., Macura, Slobodan, Maher, Diane M., Wang, Xin, Heglin, Alex H., Ge, Xijin, Zeng, Erliang, Puget, Stephanie, Chandrasekar, Indra, Surendran, Kameswaran, Bram, Richard J., Schüller, Ulrich, Taylor, Michael D., Ayrault, Olivier, and Zhao, Haotian. ATOH1 promotes leptomeningeal dissemination and metastasis of Sonic Hedgehog subgroup medulloblastomas. Cancer Research, 2017. (DOI: 10.1158/0008-5472.CAN-16-1836)
  • Fernandez, Mitch, Aguiar-Pulido, Vanessa, Riveros, Juan, Huang, Wenrui, Segal, Jonathan, Zeng, Erliang, Campos, Michael, Mathee, Kalai, and Narasimhan, Giri. Microbiome analysis: state-of-the-art and future trends. In Computational Methods for Next Generation Sequencing Data Analysis, edited by Ion Mandoiu and Alexander Zelikovsky. Wiley, 2016. (DOI: 10.1002/9781119272182.ch18 )
  • Rund, Samuel S., Yoo, Boyoung, Alam, Camille, Green, Taryn, Stephens, Melissa T., Zeng, Erliang, George, Gary F., Sheppard, Aaron D., Duffield, Giles E., Milenkovic, Tijana, and Pfrender, Michael E.. Genome-wide profiling of 24 hr diel rhythmicity in the water flea, Daphnia pulex: network analysis reveals rhythmic gene expression and enhances functional gene annotation. Vol. 17, Iss. 653. BMC Genomics, 2016. (DOI: 10.1186/s12864-016-2998-2)
  • Vermeer, Daniel W., Coppock, Joseph D., Zeng, Erliang, Lee, Kimberly M., Spanos, William C., Onken, Michael D., Uppaluri, Ravindra, Lee, John H., and Vermeer, Paola D.. Metastatic model of HPV+ oropharyngeal squamous cell carcinoma demonstrates heterogeneity in tumor metastasis, 14. Oncotarget, 2016. (DOI: 10.18632/oncotarget.8254)
  • Li, Li, Grausam, Katie B., Wang, Jun, Lun, Melody P., Ohli, Jasmin, Lidov, Hart G., Calicchio, Monica L., Zeng, Erliang, Salisbury, Jeffrey L., Wechsler-Reya, Robert J., Lehtinen, Maria K., Schu?ller, Ulrich, and Zhao, Haotian. Sonic Hedgehog promotes proliferation of Notch-dependent monociliated choroid plexus tumour cells. Nature Cell Biology, 2016. (DOI: 10.1038/ncb3327)
  • Liu, Bingqiang, Zhou, Chuan, Li, Guojun, Zhang, Hanyuan, Zeng, Erliang, Liu, Qi, and Ma, Qin. Bacterial regulon modeling and prediction based on systematic cis regulatory motif analyses, 1-11. Vol. 6, Iss. 23030. Scientific Reports, 2016. (DOI: 10.1038/srep23030)
  • Liang, Hanquan, and Zeng, Erliang. RNA-seq experiment and data analysis. In Methods in Molecular Biology, edited by Kathleen M. Eyster, 99-114. Vol. 1366. Springer, 2016. (DOI: 10.1007/978-1-4939-3127-9)
  • Zeng, Erliang, Zhang, Wei, Emrich, Scott, Liu, Dan, Livermore, Josh, and Jones, Stuart. A Computational Framework for Integrative Analysis of Large Microbial Genomics Data, 1109 - 1116. Washington D.C.: IEEE International Conference on Bioinformatics and Biomedicine (BIBM)), 2015. (DOI: 10.1109/BIBM.2015.7359837)
  • Patel, Sagar, Swaminathan, Padmapriya, Fennell, Anne, and Zeng, Erliang. De novo genome assembly tool comparison for highly heterozygous species Vitis vinifera cv. Sultanina, 1771-1773. Washington D.C.: IEEE International Conference on Bioinformatics and Biomedicine (BIBM)), 2015. (DOI: 10.1109/BIBM.2015.7359957)
  • Hickner, Paul V., Mori, Akio, Zeng, Erliang, Tan, John C., and Severson, David W.. Whole transcriptome responses among females of the filariasis and arbovirus vector mosquito Culex pipiens implicate TGF-? signaling and chromatin modification as key drivers of diapause induction, 9. Functional & Integrative Genomics, 2015. (DOI: 10.1007/s10142-015-0432-5)
  • Yampolsky, L Y., Zeng, Erliang, Lopez, J, Williams, P J., Dick, K B., Colbourne, J K., and Pfrender, M E.. Functional genomics of acclimation and adaptation in response to thermal stress in Daphnia, 859. Vol. 15, Iss. 1. BMC genomics, 2014. (DOI: 10.1186/1471-2164-15-859)
  • Galvan, M D., Hulsebus, H, Heitker, T, Zeng, Erliang, and Bohlson, S S.. Complement Protein C1q and Adiponectin Stimulate Mer Tyrosine Kinase-Dependent Engulfment of Apoptotic Cells through a Shared Pathway. Journal of innate immunity, 2014. (DOI: 10.1159/000363295)
  • Favila, M A., Geraci, N S., Zeng, Erliang, Harker, B, Condon, D, Cotton, R N., Jayakumar, A, Tripathi, V, and McDowell, M A.. Human dendritic cells exhibit a pronounced type I IFN signature following Leishmania major infection that is required for IL-12 induction, 5863-72. Vol. 192, Iss. 12. Journal of immunology, 2014. (DOI: 10.4049/jimmunol.1203230)
  • O'Neil, S T., Dzurisin, J D., Williams, C M., Lobo, N F., Higgins, J K., Deines, J M., Carmichael, R D., Zeng, Erliang, Tan, J C., Wu, G C., Emrich, S J., and Hellmann, J J.. Gene expression in closely related species mirrors local adaptation: consequences for responses to a warming world, 2686-98. Vol. 23, Iss. 11. Molecular ecology, 2014. (DOI: 10.1111/mec.12773)
  • Zhang, W, Zeng, Erliang, Liu, D, Jones, S E., and Emrich, S. Mapping genomic features to functional traits through microbial whole genome sequences, 461-78. Vol. 10, Iss. 4. International journal of bioinformatics research and applications, 2014. (DOI: 10.1504/IJBRA.2014.062995)
  • Zeng, Erliang, and Li, Tao. Applications of Data Mining in Bioinformatics and Health Informatics. a Book Chapter in Data Mining Where Theory Meets Practice, ISBN 978-7-5615-4294-1, 2013.
  • Sarro, J, Andrews, E, Sun, L, Behura, S K., Tan, J C., Zeng, Erliang, Severson, D W., and Duman-Scheel, M. Requirement for commissureless2 function during dipteran insect nerve cord development, 1466-77. Vol. 242, Iss. 12. Developmental dynamics, 2013. (DOI: 10.1002/dvdy.24059)
  • Zhang, Wei, Zeng, Erliang, Emrich, S.J., Livermore, J., Liu, Dan, and Jones, S.E.. Predicting bacterial functional traits from whole genome sequences using random forest, 1-2. Proceedings of Computational Advances in Bio and Medical Sciences (ICCABS), 2013 IEEE 3rd International Conference on, 2013. (DOI: 10.1109/ICCABS.2013.6629212)
  • Zhang, Wei, Emrich, Scott J., and Zeng, Erliang. Assess genomic biomarkers of toxicity in drug development. Proceedings of CAMDA'13: the Critical Assessment of Massive Data Analysis,, 2013.
  • Galvan, M D., Foreman, D B., Zeng, Erliang, Tan, J C., and Bohlson, S S.. Complement component C1q regulates macrophage expression of Mer tyrosine kinase to promote clearance of apoptotic cells, 3716-23. Vol. 188, Iss. 8. Journal of immunology, 2012. (DOI: 10.4049/jimmunol.1102920)
  • Wang, T, Jiang, F, Oehrlein, S, Zeng, Erliang, Kershner, R, and Cerrina, F. Optical trapping force reduction and manipulation of nanoporous beads, 153702-1537023. Vol. 100, Iss. 15. Applied physics letters, 2012. (DOI: 10.1063/1.3703604)
  • Zhang, Wei, Zeng, Erliang, Liu, Dan, Jones, Stuart, and Emrich, Scott J.. A machine learning framework for trait based genomics, 1-6. Proceedings of IEEE 2nd International Conference on Computational Advancesin Bio and Medical Sciences, ICCABS 2012, 2012.
  • Wang, Dingding, Ogihara, Mitsunori, Zeng, Erliang, and Li, Tao. Combining Gene Expression Profiles and Protein-Protein Interactionsfor Identifying Functional Modules, 114-119. Proceedings of 11th International Conference on Machine Learning and Applications, ICMLA, Boca Raton, FL, USA, December 12-15, 2012, 2012. (DOI: 10.1109/ICMLA.2012.28)
  • Zeng, Erliang, Ding, Chris, Mathee, Kalai, Schneper, Lisa, and Narasimhan, Giri. Gene Function Prediction and Functional Network: The Role of Gene Ontology. Edited by Holmes, Dawn E.; Jain, Lakhmi C, 123-162. Vol. 25. Data Mining: Foundations and Intelligent Paradigms, 2012. (DOI: 10.1007/978-3-642-23151-3_7)
  • Singh, P P., LeMaire, C, Tan, J C., Zeng, Erliang, and Schorey, J S.. Exosomes released from M. tuberculosis infected cells can suppress IFN-? mediated activation of naïve macrophages, e18564. Vol. 6, Iss. 4. PloS one, 2011. (DOI: 10.1371/journal.pone.0018564)
  • Zhang, Wei, Emrich, Scott J., and Zeng, Erliang. A two-stage machine learning approach for pathway analysis, 274-279. Proceedings of IEEE International Conference on Bioinformatics andBiomedicine, BIBM 2010, 2010.
  • Zeng, Erliang, Yang, Chengyong, Li, Tao, and Narasimhan, Giri. Clustering Genes Using Heterogeneous Data Sources, 12-28. Vol. 1, Iss. 2. International Journal of Knowledge Discovery in Bioinformatics, 2010.
  • Doud, Melissa, Zeng, Erliang, Schneper, Lisa, Narasimhan, Giri, and Mathee, Kalai. Approaches to analyse dynamic microbial communities such as those seen in cystic fibrosis lung, 246-256. Vol. 3, Iss. 3. Human Genomics, 2009. (DOI: 10.1186/1479-7364-3-3-246)
  • Zeng, Erliang, and Ogihara, Mitsunori. Nonnegative Least Square - A New Look Into SAGE Data, 151-161. Proceedings of CSB'09: the LSS Computational Systems Bioinformatics Conference, 2009.
  • Zhang, Yi, Zeng, Erliang, Li, Tao, and Narasimhan, Giri. Weighted Consensus Clustering for Identifying Functional Modules in Protein-Protein Interaction Networks. Edited by Wani, M. Arif; Kantardzic, Mehmed M.; Palade, Vasile; Kurgan, Lukasz A.; Qi, Yuan, 539-544. Proceedings of ICMLA'09: the International Conference on Machine Learning and Applications, 2009.
  • Zeng, Erliang, Narasimhan, G., Schneper, L., and Mathee, K.. A Functional Network of Yeast Genes Using Gene Ontology Information, 343-346. Proceedings of IEEE International Conference on Bioinformatics and Biomedicine, BIBM '08, 2008. (DOI: 10.1109/BIBM.2008.60)
  • Mathee, K, Narasimhan, G, Valdes, C, Qiu, X, Matewish, J M., Koehrsen, M, Rokas, A, Yandava, C N., Engels, R, Zeng, Erliang, Olavarietta, R, Doud, M, Smith, R S., Montgomery, P, White, J R., Godfrey, P A., Kodira, C, Birren, B, Galagan, J E., and Lory, S. Dynamics of Pseudomonas aeruginosa genome evolution, 3100-5. Vol. 105, Iss. 8. Proceedings of the National Academy of Sciences of the United States of America, 2008. (DOI: 10.1073/pnas.0711982105)
  • Zeng, Erliang, Ding, C, Narasimhan, G, and Holbrook, S R.. Estimating support for protein-protein interaction data with applications to function prediction, 73-84. Vol. 7. Proceedings of Life Sciences Society Computational Systems Bioinformatics, 2008.
  • Zeng, Erliang, Yang, Chengyong, Li, Tao, and Narasimhan, G.. On the Effectiveness of Constraints Sets in Clustering Genes, 79-86. Proceedings of the 7th IEEE International Conference on Bioinformatics and Bioengineering, BIBE 2007, 2007. (DOI: 10.1109/BIBE.2007.4375548)
  • Zeng, Erliang, and Narasimhan, Giri. Enhancing Motif Refinement by Incorporating Comparative Genomics Data. Edited by M?ndoiu, Ion; Zelikovsky, Alexander, 329-337. Vol. 4463. Lecture Notes in Computer Science: Bioinformatics Research and Applications, 2007. (DOI: 10.1007/978-3-540-72031-7_30)
  • Yang, Chengyong, Zeng, Erliang, Mathee, Kalai, and Narasimhan, Giri. PlasmoTFBM: An Intelligent Queriable Database for Predicted Transcription Factor Binding Motifs in Plasmodium falciparum. Edited by McConnell, Patrick; Lin, SimonM.; Hurban, Patrick, 121-136. Methods of Microarray Data Analysis V, Springer US, 2007. (DOI: 10.1007/978-0-387-34569-7_9)
  • Zeng, Erliang, Mathee, K, and Narasimhan, G. IEM: an algorithm for iterative enhancement of motifs using comparative genomics data., 227-35. Vol. 6. Proceedings of Life Sciences Society Computational Systems Bioinformatics, 2007.
  • Yang, Chengyong, Zeng, Erliang, Li, Tao, and Narasimhan, Giri. A Knowledge-Driven Method to Evaluate Multi-source Clustering. Edited by Chen, Guihai; Pan, Yi; Guo, Minyi; Lu, Jian, 196-202. Vol. 3759. Parallel and Distributed Processing and Applications - ISPA 2005 Workshops, 2005. (DOI: 10.1007/11576259_22)
  • Yang, C, Zeng, Erliang, Li, T, and Narasimhan, G. Clustering genes using gene expression and text literature data, 329-40. Proceedings of IEEE Computational Systems Bioinformatics Conference, CSB, 2005.
  • Yang, Chengyong, Zeng, Erliang, Mathee, Kalai, and Narasimhan, Giri. Mining Regulatory Elements in the Plas- modium falciparum Genome Using Gene Expression Data. Proceedings of CAMDA'04: the Critical Assessment of Microarray Data Analysis,, 2004.
  • Yang, Chengyong, Zeng, Erliang, Mathee, Kalai, and Narasimhan, Giri. Querying a database of regulatory elements. Proceedings of ICBA'04: the International Conference on Bioinformatics and its Applications, 2004.
  • Yue, Jun, Zeng, Erliang, Xie, Jianping, Li, Yao, Liu, Lirong, and Wang, Honghai. Reliable detection of rifampin-resistance of Mycobacterium tuberculosis strains by using a specialized oligonucleotide microarray, 264—269. Vol. 20, Iss. 2. Chinese journal of biochemistry and molecular biology, 2004.
  • Yue, J, Shi, W, Xie, J, Li, Y, Zeng, Erliang, Liang, L, and Wang, Hongmin. Detection of rifampin-resistant Mycobacterium tuberculosis strains by using a specialized oligonucleotide microarray, 47-54. Vol. 48, Iss. 1. Diagnostic microbiology and infectious disease, 2004. (DOI: 10.1016/j.diagmicrobio.2003.08.005)
  • Gao, X, Fu, X, Li, T, Zi, J, Luo, Y, Wei, Q, Zeng, Erliang, Xie, Y, Li, Y, and Mao, Y. Determining a detectable threshold of signal intensity in cDNA microarray based on accumulated distribution, 558-64. Vol. 36, Iss. 6. Journal of biochemistry and molecular biology, 2003.
  • Yue, J, Shi, W, Xie, J, Li, Y, Zeng, Erliang, and Wang, Hongmin. Mutations in the rpoB gene of multidrug-resistant Mycobacterium tuberculosis isolates from China, 2209-12. Vol. 41, Iss. 5. Journal of clinical microbiology, 2003.
  • Zeng, Erliang, Liu, JH, and Lin, ZX. The nucleic acid analysis by DNA chip technique based on nuclease S1 protection, 89—92. Vol. 23, Iss. 1. Zhongguo yi xue ke xue yuan xue bao. Acta Academiae Medicinae Sinicae, 2001.

Awards and Honors:

  • Faculty Research Support Program Award, University of Notre Dame, 2013
  • Dissertation Year Fellowship, Florida International University, 2008
  • Excellence Award, Florida International University, 2007
  • Presidential Fellowship, Florida International University, 2003

Presentations:

  • Nelson, Blaine, Premathilake, Hasitha, Heglin, Alex, Grausam, Katie, Zhao, Haotian, Zeng, Erliang. Functional Genomics of Medulloblastoma among Mus musculus Models: An Integrative Analysis of Transcriptome and Targetome Data. Presented at the South Dakota Undergraduate Research Symposium, Pierre, SD. (August 2, 2017)
  • Mammo, Joseph, Harishchandra, Miyuraj, Lu, Zhixiu, Zeng, Erliang. OTU2ROC: An Online Computational Tool for Microbial Metagenomics Data Analysis. Presented at the South Dakota Undergraduate Research Symposium, Pierre, SD. (August 2, 2017)
  • Doss, David, Rickel, Kirby, Fang, Fang, Tao, Jianning, Zeng, Erliang. Transcriptomic Differential Expression Analysis of Osteogenic Sarcoma Among Mus musculus Models. Presented at the South Dakota Undergraduate Research Symposium, Pierre, SD. (August 2, 2017)
  • Abdullah, Ammara, Eyster, Kathleen, Bjordahl, Travis, Xiao, Peng, Zeng, Erliang, Wang, Xuejun. Cardiac transcriptome analysis reveals a critical role for the COP9 signalosome in transcriptional regulation of the substrate receptors of cullin-RING ligases in mice. Presented at the 12th International Conference on Pathways, Networks, and Systems Medicine, Crete, Greece. (July 2, 2017)
  • Balhoff, James, Dahdul, Wasila, Dececchi, Alex, Fernando, Pasan, Lapp, Hilmar, Mabee, Paula, Manda, Prashanti, Mastick, Kellen, Vision, Todd, Westerfield, Monte, Zeng, Erliang. Machine reasoning about phenotypes: enhancing expert knowledge about the genetics of a fossil transition. Presented at the Evolution 2017, Portland, OR. (June 23, 2017)
  • Fernando, Pasan, Jackson, Laura, Zeng, Erliang, Mabee, Paula. A generic bioinformatics pipeline to integrate large-scale trait data with large phylogenies. Presented at the 2017 Great Lakes Bioinformatics Conference, Chicago, IL. (May 17, 2017)
  • Premathilake, Hasitha, Grausam, Katie, Zhao, Haotian, Zeng, Erliang. Atonal homolog 1 promotes metastasis of Sonic Hedgehog subgroup medulloblastoma: An integrative analysis of multi-omics data. Presented at the 2017 Great Lakes Bioinformatics Conference, Chicago, IL. (May 16, 2017)
  • Harishchandra, Miyuraj, White, Laura, Subramanian, Senthil, Zeng, Erliang. Functional and network analysis of soybean rhizosphere bacterial communities influenced by isoflavonoids using metagenomics data. Presented at the 2017 Great Lakes Bioinformatics Conference, Chicago, IL. (May 16, 2017)
  • Lu, Zhixiu, Patel, Sagar, Fennell, Anne, Zeng, Erliang. Merging two grape genome assemblies iteratively improves the quality. Presented at the 2017 Great Lakes Bioinformatics Conference, Chicago, IL. (May 16, 2017)
  • Grausam, Katie, Dooyema, Samuel D., Zeng, Erliang, Zhao, Haotian. Targeted Therapy for Leptomeningeal Metastasis of Medulloblastoma. Presented at the 4th Annual Sanford Health-SDSU Biomedical Research Symposium, Brookings, SD. (November 10, 2016)
  • Zeng, Erliang. Network Analysis for Evaluating Computational Methods and Interpreting Omics Data. Presented at the South Dakota State University CSS Seminar, Brookings, SD. (October 03, 2016)
  • Zeng, Erliang. Interpret Omics Data using Computational Methods: Perspectives and Experiences. Presented at the Kansas State University Plant Pathology Seminar, Manhattan, KS. (September 22, 2016)
  • Ludens, Maria, Liu, Sanzhen, Zheng, Jun, Du, Yicong, Fu, Junjie, Wang, Guoying, Zeng, Erliang. Bioinformatic Analysis of Drought-Response Small RNA Temporal Expression Profiles in Maize. Presented at the South Dakota Undergraduate Research Symposium, Pierre, SD. (August 1, 2016)
  • Lu, Zhixiu, Harishchandra, Miyuraj, White, Laura, Jothibasu, Karuppaiuan, Reese, R. Neil, Brozel, Volker, Subramanian, Senthil, Zeng, Erliang. Evaluating feature selection and classification methods for unbalanced multiclass data with small sample size. Presented at the South Dakota Undergraduate Research Symposium, Pierre, SD. (August 1, 2016)
  • Heglin, Alex, Picotte, Katie, Weber, Emily, Li, Li, Zhao, Haotian, Zeng, Erliang. Evaluation of Computational Methods of RNA-Seq Data Analysis from Pathway and Network Perspectives. Presented at the South Dakota Undergraduate Research Symposium, Pierre, SD. (August 1, 2016)
  • Mattison, Lauren, Harishchandra, Miyuraj, Lu, Zhixiu, White, Laura, Jothibasu, Karuppaiuan, Reese, R. Neil, Brozel, Volker, Subramanian, Senthil, Zeng, Erliang. Network Analysis of Soybean Rhizosphere Bacterial Metagenomics Data. Presented at the South Dakota Undergraduate Research Symposium, Pierre, SD. (August 1, 2016)
  • Patel, Sagar, Zeng, Erliang, Fennell, Anne. Comparative Study of De Novo Genome Assemblies for Highly Heterozygous Seedless Grape. Presented at the ISMB 2016: the Intelligent Systems for Molecular Biology, Orlando, FL. (July 2016)
  • Fernando, Pasan, Mabee, Paula, Zeng, Erliang. Investigating the Genomic Basis of Phenotypic Transitions Using a Novel Integrative Analysis of Anatomy Ontology and Protein-Protein Interaction Networks. Presented at the The Fifth Annual Summit of the Phenotype Ontology Research Coordination Network, Tucson, AZ. (February 2016)
  • Patel, Sagar, Swaminathan, Padmapriya, Zeng, Erliang, Fennell, Anne. De novo Genome Assembly of Heterozygous Vitis species Using Next-Generation Sequencing. Presented at the International Plant & Animal Genome XXIV, San Diego, CA. (January 10, 2016)
  • Patel, Sagar, Swaminathan, Padmapriya, Fennell, Anne, Zeng, Erliang. De novo genome assembly tool comparison for highly heterozygous species Vitis vinifera cv. Sultanina. Presented at the the IEEE International Conference on Bioinformatics and Biomedicine, Washington D.C.. (November 10, 2015)
  • Zeng, Erliang, Zhang, Wei, Emrich, Scott, Liu, Dan, Livermore, Josh, Jones, Stuart. A Computational Framework for Integrative Analysis of Large Microbial Genomics Data. Presented at the the COMMANMD Workshop at BIBM 2015: the IEEE International Conference on Bioinformatics and Biomedicine, Washington D.C.. (November 9, 2015)
  • Zeng, Erliang. Research in the Laboratory of Bioinformatics and Computational Systems Biology at USD. Presented at the The 2015 NSF Food-Energy-Water Nexus Workshop, Rapid City, SD. (October 19, 2015)
  • Lee, Derek, Vermeer, Daniel, Colbert, Paul, Spanos, William, Lee, John, Vermeer, Paola, Zeng, Erliang. Bioinformatics Analysis for Transcriptomic Data of Head and Neck Squamous Cell Cancer (HNSCC). Presented at the South Dakota Undergraduate Research Symposium, Pierre, SD. (July 29, 2015)
  • Heglin, Alex, Picotte, Katie, Weber, Emily, Li, Li, Zhao, Haotian, Zeng, Erliang. Whole Transcriptome Analysis and Functional Studies of Mouse Models of Metastatic Medulloblastoma. Presented at the South Dakota Undergraduate Research Symposium, Pierre, SD. (July 29, 2015)
  • Zeng, Erliang. Bioinformatics and Computational Systems Biology: State-of-the-Art and Applications in Large Genomic Data Analysis. Presented at the Sanford Research Seminar Series, Sioux Falls, SD. (March 19, 2015)
  • Zeng, Erliang. Network-Based Analysis for Large Soil Microbial Genomics Data. Presented at the International Plant & Animal Genome XXIII, San Diego, CA. (January 2015)
  • Zeng, Erliang. Network-based analysis for large environment microbial genomics data. Presented at the 12th Annual Rocky Mountain Bioinformatics Conference, Snowmass, CO. (December 11, 2014)
  • Zeng, Erliang. Interpret Large Genomic Data Using Data Mining & Computational Systems Biology Approaches. Presented at the USD Sanford School of Medicine Fall Seminar Series, USD Sanford School of Medicine, Vermillion, SD. (October 31, 2014)
  • Zeng, Erliang. Mining Massive Genomic Data to Understand Microbial Functions. Presented at the SDSU Plant Science Fall Seminar Series - Invited Speaker, SDSU Department of Plant Science, USDA?ARS North Central Agricultural Research Laboratory, Brookings, SD. (September 15, 2014)
  • Zeng, Erliang. Challenges and opportunities: when biology meets big data. Presented at the TSRI Research Seminar Series, Saban Research Institute, Children's Hospital Los Angeles, CA. (March 19, 2014)
  • Zeng, Erliang, Zhang, W., Liu, D., Jones, S., Emrich, S.. Gene content based functional trait analysis through comparative microbial whole genome sequences. Presented at the 10th Annual Rocky Mountain Bioinformatics Conference, Snowmass, CO. (December 2012)