Nathan LaPierre, Chelsea J.-T Ju, Guangyu Zhou and Wei Wang. MetaPheno: A Critical Evaluation of Deep Learning and Machine Learning in Metagenome-Based Disease Prediction. Methods, 2019.

Ruirui Li, Jyun-Yu Jiang, Chelsea J.-T Ju and Wei Wang. Corals: Who are My Potential New Customers? Tapping into the Wisdom of Customers’ Decisions. In proceedings of The 12th ACM International Conference on Web Search and Data Mining (WSDM’19), ACM, 2019.

Muhao Chen, Chelsea J.-T Ju, Guangyu Zhou, Tianran Zhang, Xuelu Chen, Kai-Wei Chang, Carlo Zaniolo and Wei Wang. Multifaceted Protein-Protein Interaction Prediction Based on Siamese Residual RCNN. Bioinformatics (ISMB/ECCE 2019).

Zeyu Li, Jyun-Yu Jiang, Yizhou Sun and Wei Wang. Personalized Question Routing via Heterogenous Network Embedding. In proceedings of The 33rd AAAI Conference on Artificial Intelligence (AAA’19), AAAI, 2019.

Ruirui Li, Liangda Li, Xian Wu, Yunhong Zhou and Wei Wang. Click Feedback-Aware Query Recommendation Using Adversarial Examples. In proceedings of The 30th World Wide Web Conference, WWW 2019.

Wenchao Yu, Cheng Zheng, Wei Cheng, Charu C. Aggarwal, Dongjin Song, Bo Zong, Haifeng Chen, Wei Wang. “Learning Deep Network Representations with Adversarially Regularized Autoencoders.” In proceedings of the 24th ACM SIGKDD International Conference on Knowledge Discovery & Data Mining, August 2018.

Seunhyun Yoo, Seungbae Kim, Joshua Joy, Mario Gerla. “Promoting Cooperative Strategies on Proof-of-Work Blockchain,” International Joint Conference on Neural Networks (IJCNN), July 2018.

Jieyu Zhao, Yichao Zhou, Zeyu Li, Wei Wang and Kai Wei Chang. “Learning Gender-Neutral Word Embeddings” In proceedings of The 2018 Conference on Empirical Methods in Natural Language Processing, EMNLP 2018.

Sara Melvin, Jonathan Lin, Seungbae Kim, Mario Gerla. “Hitchhiker: A Wireless Routing Protocol in a Delay Tolerant Network Using Density-Based Clustering” IEEE 88th Vehicular Technology Conference (VTC-Fall) Chicago, August 2018.

Nicholas J. Martiasz, Justin Wood, Pranay Doshi, William Speier, Barry Beckemeyer, Wei Wang, William Hsu, Alcino J. Silva. “ResearchMaps.org for integrating and planning research.” PLOS One 13:e0195271

Ruirui Li, Jyun-Yu Jiang, Chelsea J.-T Ju, Cheryl Flynn, Wen-Ling Hsu, Jia Wang, Wei Wang and Tan Xu. “Enhancing Response Generation Using Chat Flow Identification.” In Conventional AI and Its Applications Workshop at KDD 2018.

Jyun-Yu Jiang and Wei Wang. RIN: “Reformulation Inference Network for Context-Aware Query Suggestions.” In proceedings of The 27th ACM International Conference on Information and Knowledge Management, ACM 2018.

Jyun-Yu Jiang, Cheng-Te Li, Yian Chen and Wei Wang. “Identifying Users behind Shared Accounts in Online Streaming Services.” In proceedings of The 41st International ACM SIGIR Conference on Research and Development in Information Retrieval, (SIGIR’ 18), ACM 2018.

Guangyu Zhou, Jyun-Yu Jiang, Chelsea J.-T Ju, and Wei Wang. “Inferring Microbial Communities for City Scale Metagenomics Using Neural Networks.” In proceedings of 2018 IEEE International Conference on Bioinformatics and Biomedicine (BIBM’18), IEEE 2018.

Jyun-Yu Jiang, Francine Chen, Yan-Ying Chen and Wei Wang. “Learning to Disentangle Interleaved Conversational Threads with a Siamese Hierarchical Network and Similarity Ranking.” In proceedings of The 16th Annual Conference of the North American Chapter of the Association for Computational Linguistics: Human Language Technologies (NAACL’ 18), ACL 2018.

Nathan LaPierre, Serghei Mangul, Mohammad Alser, Igor Mandric, Nicholas C. Wu, David Koslicki, and Eleazer Eskin. “MiCoP: Microbial Community Profiling method capable of detecting low abundance viral and fungal organisms in metagenomic samples.” bioRxiv, pp. 243188, Jan 2018.

Nathan LaPierre, Rob Egan, Wei Wang and Zhong Wang. “MiniScrub: De Novo long read scrubbing using approximate alignment and deep learning.” bioRxiv, pp. 433573, Oct 2018.

Chao Zhang, Fanbo Tao, Xiusi Chen, Jiaming Shen, Meng Jiang, Brian Sadler, Michelle Vanni and Jaiwei Han. “TaxonGen: Constructing Topical Concept Taxonomy by Adaptive Term Embedding and Clustering. ” In proceedings of The 24th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining (KDD), oral 2018.

Fangbo Tao*, Chao Zhang*, Xiusi Chen, Meng Jiang, Tim Hanratty, Lance Kaplan and Jiawei Han. “Doc2Cube: Automated Document Allocation to Text Cube via Dimension-Aware Joint Embedding.” In proceedings of The 17th IEEE International Conference on Data Mining (ICDM), oral 2018.

Chelsea J.-T. Ju, Ruirui Li, Zhengliang Wu, Jyun-Yu Jiang, Zhao Yang and Wei Wang. Fleximer: Accurate Quantification of RNA-Seq via Variable-Length k-mers. In proceedings of The 8th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, 2017.

Wei Wang, Brian Kleakley, Chelsea J.-T Ju, Vincent Kyi, Patrick Tan, Howard Choi, Xinxin Huang, Yichao Zhou, Justin Wood, Din Wang, Alex Bui and Peipei Ping. Aztec: A Platform to Render Biomedical Software Findable, Accessible, Interoperable, and Reusable. CoRR abs/1706.06087, 2017.

Chealsea J.-T Ju*, Jyun-Yu Jiang*, Ruirui Li, Zeyu Li and Wei Wang. TahcoRoll: An Efficient Approach for Signature Profiling in Genomic Data through Variable-Length K-mers. Technical report, 2017.

Chelsea J.-T Ju, Zhuangtian Zhao and Wei Wang. Efficient Approach to correct read alignment for pseudogene abundance estimates. IEEE/ACM transactions on Computation Biology and Bioinformatics (TCBB), 14(3): 522-533, 2017.

Seungbae Kim, Jinyoung Han, Seunghyun Yoo, Mario Gerla. “How Are Social Influencers Connected in Instagram?” Social Informatics (Socinfo) 2017, Oxford UK, September 2017.

Nicholas J. Matiasz, Justin Wood, Wei Wang, Alcino J. Silva and William Hsu. Computer-Aided Experiment Planning toward Casual Discovery in Neuroscience. Front. Neuroinform. 2017.

Seungbae Kim, Mario Gerla “Socio-Geo: Social Network Routing Protocol in Delay Tolerant Networks,” ICNC 2017.

Jyun-Yu Jiang, Pu-Jen Cheng and Wei Wang. Open Source Repository Recommendation in Social Development in Information Retrieval (SIGIR’ 17), ACM 2017.

Justin Wood, Patrick Tan, Wei Wang, Croey W. Arnold. Source-LDA: Enhancing Probabilistic Topic Models Using Prior Knowledge Sources. ICDE 2017: 411-422

Mohammad Arifur Rahman, Nathan LaPierre and Huzefa Rangwala. “Phenotype Prediction from Metagenomic Data Using Clustering Assembly with Multiple Instance Learning (CAMIL).” IEEE/ACM transactions on computational biology and bioinformatics, Oct. 2017.

Mohammad Arifur Rahman, Nathan LaPierre, Huzefa Rangwala and Daniel Barbara. “Metagenome sequence clustering with hash-based canopies.” Journal of bioinformatics and computational biology, vol. 15, no. 6, pp. 1740006, Oct. 2017.

Nicholas J. Matiasz, Justin Wood, Wei Wang, Alcino J. Silva and William Hsu. Translating literature into casual graphs: Toward automated experiment selection. BIBM 2017: 573-576

Nathan LaPierre, Mohammad Arifur Rahman and Huzefa Rangwala. “CAMIL: Clustering and Assembly with Multiple Instance Learning for Phenotype Prediction.” In proceedings of the IEEE International Conference on Bioinformatics and Biomedicine, Shenzhen, China, 2016.

Rurui Li, Xinxin Huang, Shuo Song, Jia wang and Wei Wang. Towards Customer Trouble Tickets resolution Automation in Large Cellular Services. In Proceedings of 22nd International Conference on Mobile Computing and Networking (Mobicom 2016)

Wenchao Yu, Ariyam Das, Justin Wood, Wei Wang, Carlo Zaniolo and Ping Luo. Max-Intensity: Detecting Competitive Advertiser Communities in Sponsored Search Market. ICDM 2015: 569-578.

Ruirui Li and Wei Wang. REAFUM: Representative Approximate Frequent Subgraph Mining. In Proceedings of The International on Data Mining (SDM 2015)

Liuli Chen, Chelsea J.-T. Ju, Ruirui Li, Wenchao Yu, and Wei Wang. Skimdiff: Transcript-level Differential Analysis of RNA-Seq Data. In Proceedings of The 6th International Conference on Bioinformatics Models, Methods and Algorithms (Bioinformatics 2015)