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    • III: Small: A Novel Framework for Mining Multi-relation and Labeled Graphs
    NSF Award Number: 1423321
    Publications:
    1. Mohammed Alokshiya, Saeed Salem , Fidaa Abed.
      A Linear Delay Algorithm for Enumerating All Connected Induced Subgraphs.
      BMC Bioinformatics, 2019. 20(12), 312, 2019.
    2. Mohammed Alokshiya, Saeed Salem , Fidaa Abed. A Linear Delay Linear Space Algorithm for Enumeration of All Connected Induced Subgraphs.
      In Proceedings of the fifth International Workshop on Computational Network Biology: Modeling, Analysis, and Control (CNB-MAC 2018) (co-located with ACM BCB), Abstract, August 2018.
    3. Saeed Salem. Template edge similarity graph clustering for mining multiple gene expression datasets. International Journal of Data Mining and Bioinformatics, 18(1), pp. 28-39, 2017.
    4. Bassam Qormosh, Eihab El Radie, Saeed Salem. Classifying Gene Coexpression Networks Using State Subnetworks.
      In Proceedings of the 10th International Workshop on Biological Network Analysis and Integrative Graph-Based Approaches (IWBNA) (co-located with IEEE BIBM), pages 1731-1735, November 2017.
    5. Eihab El Radie, Saeed Salem. Mining Quasi Frequent Coexpression Subnetworks.
      In Proceedings of the 10th International Workshop on Biological Network Analysis and Integrative Graph-Based Approaches (IWBNA) (co-located with IEEE BIBM), pages 1736-1740, November 2017.
    6. Eihab El Radie, Saeed Salem. Parallel Algorithm for Mining Maximal Frequent Subgraphs.
      In Proceedings of the 8th International Workshop on High Performance Bioinformatics and Biomedicine (HiBB) (co-located with IEEE BIBM), pages 1965-1971, November 2017.
    7. Aditya Goparaju, Saeed Salem. A Parallel Algorithm for Mining Maximal Cohesive Subgraphs.
      In Proceedings of the 9th International Conference on Bioinformatics and Computational Biology (BICOB), March 2017.
    8. Aditya Goparaju, Saeed Salem. A Multithreaded Algorithm for Mining Maximal Cohesive Dense Modules from Interaction Networks with Gene Profiles.
      In Proceedings of the 7th ACM International Conference on Bioinformatics, Computational Biology, and Health Informatics (BCB), pages 671-678, October 2016.
    9. Aditya Goparaju, Tyler Brazier, Saeed Salem. Mining representative maximal dense cohesive subnetworks. Network Modeling Analysis in Health Informatics and Bioinformatics, 4(1), pp. 1-11, 2015.
    10. Aditya Goparaju, Bassam Qormosh, Saeed Salem. Mining maximal subnetworks from interaction network with node attributes.
      In Proceedings of the 2015 IEEE International Conference on Bioinformatics and Biomedicine (BIBM), pages 1630-1635, November 2015.
    11. Saeed Salem, Cagri Ozcaglar. Hybrid coexpression link similarity graph clustering for mining biological modules from multiple gene expression datasets. BioData Mining, 7(1):16, 2014.
    Graduate Students
    Current:
    1. Riyad Hakim (MS)
    2. San Ha Seo (MS)
    Graduated:
    1. Mohammed Alokshiya (MS)
    2. Eihab ElRadie (MS)
    3. Aditya Goparaju (PhD)
    4. Md Shakhawat Hossain (MS)
    5. Deepak Kolte (MS)
    6. Priyanka Dawar (MS)
    7. Bassam Qormosh (MS)
    8. Eshita Zaman (MS)
    Software and Data
    The implementation of the reverse search algorithm for enumerating all connected induced subgraphs and the cancer dataset and protein-protein interaction network are available here.
    Link for Software and Data.