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2018

  1. Mohamed Elshrif, Stefano G. Rizzo, Franz D. Betz, Dragos D. Margineantu, Mohammed J. Zaki and Sanjay Chawla (2018) Embeddings for the Identification of Aircraft Faults (MERIT). In IEEE International Conference on Prognostics and Health Management. Jun. (BibTeX)
  2. Rawte, Vipula, Gupta, Aparna and Zaki, Mohammed J. (2018) Analysis of Year-over-year Changes in Risk Factors Disclosure in 10-K Filings. In Proceedings of the Fourth International Workshop on Data Science for Macro-Modeling with Financial and Economic Datasets. New York, NY, USA. ACM, pages 8:1-8:4. (URL) (BibTeX)
  3. Rawte, Vipula, Gupta, Aparna and Zaki, Mohammed J. (2018) Using Supervised Learning Techniques for Entity Relationships. In Proceedings of the Fourth International Workshop on Data Science for Macro-Modeling with Financial and Economic Datasets. New York, NY, USA. ACM, pages 13:1-13:2. (URL) (BibTeX)

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2017

  1. Eslam Hussain, Abdurrahman Ghanem, Vinicius Vitor dos Santos Dias, Carlos H.C. Teixeira, Ghadeer AbuOda, Marco Serafini, Georgos Siganos, Gianmarco De Francisci Morales, Ashraf Aboulnaga and Mohammed J. Zaki (2017) Graph Data Mining with Arabesque. In Proceedings of the ACM SIGMOD International Conference on Management of Data (Demo Track). May. (BibTeX)
  2. Yu Chen and Mohammed J. Zaki (2017) KATE: K-Competitive Autoencoder for Text. In Proceedings of the ACM SIGKDD International Conference on Data Mining and Knowledge Discovery. Aug. (BibTeX)
  3. Yu Chen, Rhaad M. Rabbani, Aparna Gupta and Mohammed J. Zaki (2017) Comparative Text Analytics via Topic Modeling in Banking. In IEEE Symposium on Computational Intelligence for Financial Engineering and Economics.. (BibTeX)
  4. Mohammed J. Zaki (2017) Closed Itemset Mining and Non-redundant Association Rule Mining. In Encyclopedia of Database Systems (Ling Liu and M. Tamer Ozsu, Eds.). Springer-Verlag. (URL) (BibTeX)

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2016

  1. Geng Li and Mohammed J. Zaki (2016) Sampling Frequent and Minimal Boolean Patterns: Theory and Application in Classification. Data Mining and Knowledge Discovery, 30(1), Jan, pp.181-225. . (URL) (BibTeX)
  2. Nilothpal Talukder and Mohammed J. Zaki (2016) Parallel Graph Mining with Dynamic Load Balancing. In 3rd International Workshop on High Performance Big Graph Data Management, Analysis, and Mining (with IEEE Big Data Conference). December. (BibTeX)
  3. Divy Agrawal, Mouhamadou Lamine Ba, Laure Berti-Equille, Sanjay Chawla, Ahmed K. Elmagarmid, Hossam Hammady, Yasser Idris, Zoi Kaoudi, Zuhair Khayyat, Sebastian Kruse, Mourad Ouzzani, Paolo Papotti, Jorge-Arnulfo Quiane-Ruiz, Nan Tang and Mohammed J. Zaki (2016) Rheem: Enabling Multi-Platform Task Execution. In Proceedings of the ACM SIGMOD International Conference on Management of Data (Demo Track)., pages 2069-2072. (URL) (BibTeX)
  4. Nilothpal Talukder and Mohammed J. Zaki (2016) A Distributed Approach for Graph Mining in Massive Networks. Data Mining and Knowledge Discovery: Special Issue on ECML/PKDD 2016 Journal Track Papers, 30(5), pp.1024-1052. . (URL) (BibTeX)
  5. Aparna Gupta, Majeed Simaan and Mohammed J. Zaki (2016) Investigating bank failures using text mining. In IEEE Symposium Series on Computational Intelligence.. (URL) (BibTeX)
  6. Aparna Gupta, Majeed Simaan and Mohammed J. Zaki (2016) When Positive Sentiment is Not so Positive: Textual Analytics and Bank Failures. Available at SSRN: Social Science Research Network, 2773939. . (URL) (BibTeX)
  7. Divyakant Agrawal, Sanjay Chawla, Ahmed Elmagarmid , Zoi Kaoudi, Mourad Ouzzani, Paolo Papotti, Jorge Quiane, Nan Tang and Mohammed Zaki (2016) Road to Freedom in Big Data Analytics. In Proceedings of the 19th International Conference on Extending Database Technology (EDBT).. (BibTeX)
  8. Mirka Saarela, Bulent Yener, Mohammed J. Zaki and Tommi Karkkainen (2016) Predicting Math Performance from Raw Large-Scale Educational Assessments Data: A Machine Learning Approach. In ICML Workshop on Machine Learning for Digital Education and Assessment Systems.. (BibTeX)
  9. Luam C. Totti, Prasenjit Mitra, Mourad Ouzzani and Mohammed J. Zaki (2016) A Query-oriented Approach for Relevance in Citation Networks. In Proceedings of the 25th International Conference Companion on World Wide Web: 3rd WWW Workshop on Big Scholarly Data: Towards the Web of Scholars.. WWW, pages 401-406. (URL) (BibTeX)

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2015

  1. Carlos H. C. Teixeira, Alexandre J. Fonseca, Marco Serafini, Georgios Siganos, Mohammed J. Zaki and Ashraf Aboulnaga (2015) Arabesque: A System for Distributed Graph Pattern Mining. In Proceedings of the 25th ACM Symposium on Operating Systems Principles (SOSP). Oct. (BibTeX)
  2. Gesse Dafe, Adriano Veloso, Mohammed Zaki and Wagner Meira Jr (2015) Learning sequential classifiers from long and noisy discrete-event sequences efficiently. Data Mining and Knowledge Discovery, 29(6), Nov, pp.1685-1708. . (URL) (BibTeX)
  3. Sarath Chandra Janga, Dongxiao Zhu, Jake Y. Chen and Mohammed J. Zaki (2015) Knowledge Discovery Using Big Data in Biomedical Systems. {IEEE/ACM} Transactions on Computational Biology and Bioinformatics, 12(4), pp.726-728. . (URL) (BibTeX)

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2014

  1. Rene Rodrigues Veloso, Loic Cerf, Wagner Meira Junior and Mohammed J. Zaki (2014) Reachability Queries in Very Large Graphs: A Fast Refined Online Search Approach. In Proceedings of the 17th International Conference on Extending Database Technology (EDBT). Mar, pages 511-522. (URL) (BibTeX)
  2. Benjarath Pupacdi, Asif Javed and Mohammed J. Zaki and Mathuros Ruchirawat (2014) NSIT: Novel Sequence Identification Tool. PLoS ONE, 9(9), pp.e108011. . (URL) (BibTeX)
  3. Robert Kessl, Nilothpal Talukder, Pranay Anchuri and Mohammed J. Zaki (2014) Parallel Graph Mining with GPUs. Proceedings of the 3rd International Workshop on Big Data, Streams and Heterogeneous Source Mining: Algorithms, Systems, Programming Models and Applications (with SIGKDD'14), Journal of Machine Learning Research: Conference and Workshop Proceedings, 36, pp.1-36. . (URL) (BibTeX)
  4. (2014) Proceedings of the 2014 SIAM International Conference on Data Mining, Philadelphia, Pennsylvania, USA, April 24-26, 2014. (Mohammed Javeed Zaki, Zoran Obradovic, Pang-Ning Tan, Arindam Banerjee, Chandrika Kamath and Srinivasan Parthasarathy, Eds.), SIAM. (URL) (BibTeX)
  5. Mohammed J. Zaki and Wagner Meira, Jr. (2014) Data Mining and Analysis: Fundamental Concepts and Algorithms. Cambridge University Press. (URL) (BibTeX)

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2013

  1. Apirak Hoonlor, Boleslaw K. Szymanski and Mohammed J. Zaki (2013) Trends in Computer science Research. Communications of the ACM, 56(10), Oct, pp.74-83. . (URL) (BibTeX)
  2. Pranay Anchuri, Mohammed J. Zaki and Omer Barkol, Shahar Golan and Moshe Shamy (2013) Approximate Graph Mining with Label Costs. In 19th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Aug. (URL) (BibTeX)
  3. Arlei Silva, Sara Guimaraes and Wagner Meira Jr. and Mohammed Zaki (2013) ProfileRank: Finding Relevant Content and Influential Users based on Information Diffusion. In The 7th SNAKDD Workshop on Social Network Mining and Analysis (with SIGKDD'13). Aug. (BibTeX)
  4. Geng Li, Stephan Gunnemann and Mohammed J. Zaki (2013) Stochastic Subspace Search for Top-K Multi-View Clustering. In 4th MultiClust Workshop on Multiple Clusterings, Multi-view Data, and Multi-source Knowledge-driven Clustering (with SIGKDD'13). Aug. (BibTeX)
  5. Chandan K. Reddy, Mohammad Al Hasan and Mohammed J. Zaki (2013) Clustering Biological Data. In Data Clustering: Algorithms and Applications (Charu C. Aggarwal and Chandan K. Reddy, Eds.), pages 381-414. CRC Press. (BibTeX)
  6. Hilmi Yildirim, Vineet Chaoji and Mohammed J. Zaki (2013) DAGGER: A Scalable Index for Reachability Queries in Large Dynamic Graphs. arXiv Computing Research Repository, abs/1301.0977. . (URL) (BibTeX)
  7. (2013) Proceedings of the 12th International Workshop on Data Mining in Bioinformatics, BIOKDD 2013, Chicago, IL, USA, August 11, 2013. (Gaurav Pandey, Huzefa Rangwala, George Karypis, Jake Yue Chen and Mohammed Javeed Zaki, Eds.), {ACM}. (URL) (BibTeX)

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2012

  1. Helio Almeida, Dorgival Olavo Guedes Neto and Wagner Meira Jr. and Mohammed J. Zaki (2012) Towards a better quality metric for graph cluster evaluation. Journal of Information and Data Management, 3(3), Oct, pp.378-393. . (BibTeX)
  2. Glivia A.R. Barbosa, Wagner Meira, Ismail A. Silva, Raquel O. Prates, Mohammed J. Zaki and Adriano Veloso (2012) Characterizing the Effectiveness of Twitter Hashtags to Detect and Track Online Population Sentiment. In ACM SIGCHI Conference on Human Factors in Computing Systems -- Juried Works-in-Progress. May. (BibTeX)
  3. Vibin Ramakrishnan, Sai Praveen Srinivasan, Saeed Salem, Suzanne Matthews, Wilfredo Colon and Mohammed J. Zaki and Chris Bystroff (2012) GeoFold: Topology-based protein unfolding pathways capture the effects of engineered disulfides on kinetic stability. Proteins: Structure, Function, and Bioinformatics, 80(3), Mar, pp.920-934. . (URL) (BibTeX)
  4. Pranay Anchuri, Mohammed J. Zaki, Omer Barkol, Ruth Bergman, Yifat Felder, Shahar Golan and Arik Sityon (2012) Graph Mining for Discovering Infrastructure Patterns in Configuration Management Databases. Knowledge and Information Systems, 33(3), Dec, pp.491-522. . (BibTeX)
  5. Geng Li and Mohammed J. Zaki (2012) Sampling Minimal Frequent Boolean (DNF) Patterns. In 18th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Aug. (BibTeX)
  6. Hilmi Yildirim, Vineet Chaoji and Mohammed J. Zaki (2012) GRAIL: A Scalable Index for Reachability Queryies in Very Large Graphs. The VLDB Journal, 21(4), Aug, pp.509-534. . (URL) (BibTeX)
  7. Geng Li, Murat Semerci and Bulent Yener and Mohammed J. Zaki (2012) Effective Graph Classification based on Topological and Label Attributes. Statistical Analysis and Data Mining, 5(4), Aug, pp.265-283. . (URL) (BibTeX)
  8. (2012) 12th IEEE International Conference on Data Mining Workshops, ICDM Workshops, Brussels, Belgium, December 10, 2012. (Jilles Vreeken, Charles Ling, Mohammed Javeed Zaki, Arno Siebes, Jeffrey Xu Yu, Bart Goethals, Geoffrey I. Webb and Xindong Wu, Eds.), {IEEE} Computer Society. (URL) (BibTeX)
  9. (2012) 12th IEEE International Conference on Data Mining, ICDM 2012, Brussels, Belgium, December 10-13, 2012. (Mohammed Javeed Zaki, Arno Siebes, Jeffrey Xu Yu, Bart Goethals, Geoffrey I. Webb and Xindong Wu, Eds.), {IEEE} Computer Society. (URL) (BibTeX)
  10. (2012) 21st ACM International Conference on Information and Knowledge Management, CIKM'12, Maui, HI, USA, October 29 - November 02, 2012. (Xue-wen Chen, Guy Lebanon, Haixun Wang and Mohammed J. Zaki, Eds.), ACM. (URL) (BibTeX)
  11. Apirak Hoonlor, Boleslaw K. Szymanski, Mohammed J. Zaki and Vineet Chaoji (2012) Document clustering with bursty information. Computing and Informatics, 31(6+), pp.1533-1555. . (BibTeX)
  12. Mohammad Al Hasan, Jun Huan, Jake Y. Chen and Mohammed J Zaki (2012) Biological Knowledge Discovery and Data Mining. Scientific Programming, 20(1), pp.1-2. . (BibTeX)
  13. Medha Atre, Vineet Chaoji and Mohammed J. Zaki (2012) BitPath -- Label Order Constrained Reachability Queries over Large Graphs. arXiv Computing Research Repository, abs:1203.2886. . (URL) (BibTeX)
  14. Arlei Silva, Mohammed J. Zaki and Wagner Meira Jr. (2012) Mining Attribute-structure Correlated Patterns in Large Attributed Graphs. PVLDB, 5(5), pp.466-477. . (BibTeX)
  15. (2012) Proceedings of the 11th International Workshop on Data Mining in Bioinformatics, BIOKDD 2012, Beijing, China, August 12, 2012. (Tamer Kahveci, Saeed Salem, Mehmet Koyuturk, Jake Yue Chen and Mohammed J. Zaki, Eds.), {ACM}. (URL) (BibTeX)

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2011

  1. Helio Almeida, Dorgival Olavo Guedes Neto and Wagner Meira Jr. and Mohammed J. Zaki (2011) Is there a best quality metric for graph clusters? In 15th European Conference on Principles and Practice of Knowledge Discovery in Databases. Sep. (BibTeX)
  2. Adriano Veloso, Wagner Meira, Jr., Macros Goncalves, Humberto Almeida and Mohammed J. Zaki (2011) Calibrated Lazy Associative Classification. Information Sciences, 181(13), July, pp.2656-2670. . (BibTeX)
  3. Pranay Anchuri, Mohammed J. Zaki, Omer Barkol, Ruth Bergman, Yifat Felder, Shahar Golan and Arik Sityon (2011) Infrastructure Pattern Discovery in Configuration Management Databases via Large Sparse Graph Mining. In 11th IEEE International Conference on Data Mining. Dec. (BibTeX)
  4. Geng Li, Murat Semerci and Bulent Yener and Mohammed J. Zaki (2011) Graph Classification via Topological and Label Attributes. In 9th Workshop on Mining and Learning with Graphs (with SIGKDD). Aug. (BibTeX)
  5. Elisa B. de Lima, Raquel C. Minardi, Wagner Meira, Jr. and Mohammed J. Zaki (2011) Data Integration via Constrained Clustering: An Application to Enzyme Clustering. In 11th SIAM International Conference on Data Mining. Apr. (BibTeX)
  6. Vineet Chaoji, Geng Li, Hilmi Yildirim and Mohammed J. Zaki (2011) ABACUS: Mining Arbitrary Shaped Clusters from Large Datasets based on Backbone Identification. In 11th SIAM International Conference on Data Mining. Apr. (BibTeX)
  7. (2011) IEEE International Conference on Bioinformatics and Biomedicine, BIBM 2011, Atlanta, GA, USA, 12-15 November, 2011. (Fang-Xiang Wu, Mohammed Javeed Zaki, Shinichi Morishita, Yi Pan, Stephen Wong, Anastasia Christianson and Xiaohua Hu, Eds.), IEEE. (URL) (BibTeX)
  8. Mohammad Al Hasan, Jun Huan, Jake Y. Chen and Mohammed J Zaki (2011) Proceedings of BIOKDD11: 10th ACM SIGKDD International Workshop on Data Mining in Bioinformatics. (Mohammad Al Hasan, Jun Huan, Jake Y. Chen and Mohammed J Zaki, Eds.). (URL) (BibTeX)
  9. Mohammad Al Hasan, Saeed Salem and Mohammed J. Zaki (2011) SimClus: an effective algorithm for clustering with a lower bound on similarity. Knowledge and Information Systems, 28(3), pp.665-685. . (BibTeX)
  10. Mohammad Al Hasan and Mohammed J. Zaki (2011) A Survey of Link Prediction in Social Networks. In Social Network Data Analytics (Charu Aggarwal, Eds.), pages 243-275. Springer. (BibTeX)

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2010

  1. Mohammed J. Zaki and Naren Ramakrishnan and Lizhuang Zhao (2010) Mining Frequent Boolean Expressions: Application to Gene Expression and Regulatory Modeling. International Journal of Knowledge Discovery in Bioinformatics, 1(3), Sep, pp.68-96. . special issue on Mining Complex Structures in Biology. (BibTeX)
  2. Jierui Xie, Boleslaw Szymanski and Mohammed J. Zaki (2010) Learning Dissimilarities for Categorical Symbols. In Workshop on Feature Selection in Data Mining (with PAKDD). Jun. (URL) (BibTeX)
  3. Saeed Salem, Khedidja Seridi, Loqmane Seridi and Jianfei Wu and Mohammed J. Zaki (2010) VOKNN: Voting-based Nearest Neighbor Approach for Scalable SVM Training. In 2nd Workshop on Large-scale Data Mining: Theory and Applications (with SIGKDD). July. (BibTeX)
  4. Arlei Silva, Wagner Meira, Jr. and Mohammed J. Zaki (2010) Structural Correlation Pattern Mining for Large Graphs. In 8th Workshop on Mining and Learning with Graphs (with SIGKDD). July. (BibTeX)
  5. Saeed Salem, Mohammed J. Zaki and Chris Bystroff (2010) FlexSnap: Flexible Non-Sequential Protein Structure Alignment. Algorithms in Molecular Biology, 5(12), Jan. . special issue on best papers from WABI'09. (URL) (BibTeX)
  6. Mohammed J. Zaki, Christopher D. Carothers and Boleslaw K. Szymanski (2010) VOGUE: A Variable Order Hidden Markov Model with Duration based on Frequent Sequence Mining. ACM Transactions on Knowledge Discovery in Data, 4(1), Jan, pp.Article 5. . (BibTeX)
  7. Karam Gouda, Mosab Hassaan and Mohammed J. Zaki (2010) PRISM: An Effective Approach for Frequent Sequence Mining via Prime-Block Encoding. Journal of Computer and Systems Sciences, 76(1), Feb, pp.88-102. . special issue on Intelligent Data Analysis. (BibTeX)
  8. Neha Goel, Michael S. Hsiao, Naren Ramakrishnan and Mohammed J. Zaki (2010) Mining Complex Boolean Expressions for Sequential Equivalence Checking. In Proceedings of the 19th Asian Test Symposium, Shanghai, China. Dec. (BibTeX)
  9. Medha Atre, Vineet Chaoji and Mohammed J. Zaki and James A. Hendler (2010) Matrix Bit loaded: A Scalable Lightweight Join Query Processor for RDF Data. In 19th International World Wide Web Conference. Apr. (BibTeX)
  10. Hilmi Yildirim, Vineet Chaoji and Mohammed J. Zaki (2010) GRAIL: Scalable Reachability Index for Large Graphs. Proceedings of the VLDB Endowment (36th International Conference on Very Large Data Bases), 3(1), pp.276-284. . (BibTeX)
  11. Jun Huan, Jake Y. Chen and Mohammed J Zaki (2010) Proceedings of BIOKDD10: ACM SIGKDD International Workshop on Data Mining in Bioinformatics. Selected papers available as special issue of BMC Bioinformatics (http://www.biomedcentral.com/bmcbioinformatics/supplements/12/S12). (Jun Huan, Jake Y. Chen and Mohammed J Zaki, Eds.). (URL) (BibTeX)
  12. Mohammed J. Zaki (2010) Practical Graph Mining. In 18th International Conference on Conceptual Structures., page 13. (BibTeX)
  13. Mohammed J. Zaki, Jeffrey X. Yu, B. Ravindran and Vikram Pudi (2010) Advances in Knowledge Discovery and Data Mining, Part I, Proceedings of the 14th Pacific-Asia Conference (PAKDD 2010). (Mohammed J. Zaki, Jeffrey X. Yu, B. Ravindran and Vikram Pudi, Eds.) Springer. ISBN: 978-3-642-13656-6. (URL) (BibTeX)
  14. Mohammed J. Zaki, Jeffrey X. Yu, B. Ravindran and Vikram Pudi (2010) Advances in Knowledge Discovery and Data Mining, Part II, Proceedings of the 14th Pacific-Asia Conference (PAKDD 2010). (Mohammed J. Zaki, Jeffrey X. Yu, B. Ravindran and Vikram Pudi, Eds.) Springer. ISBN: 978-3-642-13671-9. (URL) (BibTeX)

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2009

  1. Saeed Salem, Mohammed J. Zaki and Chris Bystroff (2009) FlexSnap: Flexible Non-Sequential Protein Structure Alignment. In 9th Workshop on Algorithms in Bioinformatics. Sep. (BibTeX)
  2. Vineet Chaoji, Mohammad Al Hasan, Saeed Salem and Mohammed J. Zaki (2009) SPARCL: An Effective and Efficient Algorithm for Mining Arbitrary Shape-based Clusters. Knowledge and Information Systems, 21(2), Nov, pp.201-229. . Invited: best papers of ICDM'08. (BibTeX)
  3. Saeed Salem, Mohammed J. Zaki and Chris Bystroff (2009) Iterative Non-Sequential Protein Structural Alignment. Journal of Bioinformatics and Computational Biology, 7(3), Jun, pp.571-596. . special issue on the best of CSB'08. (BibTeX)
  4. John Elder, Francoise Soulie Fogelman, Peter Flach and Mohammed Zaki (2009) Proceedings of the 15th ACM SIGKDD international conference on Knowledge discovery and data mining. (John Elder, Francoise Soulie Fogelman, Peter Flach and Mohammed Zaki, Eds.), ACM. ISBN:978-1-60558-495-9. (URL) (BibTeX)
  5. Stephen Kelley, Mark Goldberg, Malik Magdon-Ismail, Konstantin Mertsalov, William Wallace and Mohammed J. Zaki (2009) graphOnt: An Ontology Based Library for Conversion from Semantic Graphs to JUNG. In 7th IEEE International Conference on Intelligence and Security Informatics. Jun. (BibTeX)
  6. Peter A. Flach, Sebastian Spiegler, Bruno Golenia, Simon Price, John Guiver, Ralf Hebrich, Thore Graepel and Mohammed J. Zaki (2009) Novel Tools to Streamline the Conference Review Process: Experiences from SIGKDD'09. SIGKDD Explorations, 11(2), Dec, pp.63-67. . (URL) (BibTeX)
  7. Mohammad Al Hasan, Vineet Chaoji, Saeed Salem and Mohammed J. Zaki (2009) Robust Partitional Clustering by Outlier and Density Insensitive Seeding. Pattern Recognition Letters, 30(11), Aug, pp.994-1002. . (BibTeX)
  8. Igor B. Kuznetsov and Mohammed J. Zaki (2009) Integration of multiple types of genome-wide datasets and analysis of functional relationships among genes in the human genome. Technical report 09-03, Rensselaer Polytechnic Institute. (BibTeX)
  9. Mohammad Al Hasan, Saeed Salem, Benjarath Pupacdi and Mohammed J. Zaki (2009) Clustering with Lower Bound on Similarity. In 13th Pacific-Asia Conference on Knowledge Discovery and Data Mining. Apr. Best Paper Award. (BibTeX)
  10. Mohammad Al Hasan and Mohammed J. Zaki (2009) MUSK: Uniform Sampling of k Maximal Patterns. In 9th SIAM International Conference on Data Mining. Apr. (BibTeX)
  11. Adriano Veloso, Mohammed J. Zaki, Wagner Meira, Jr. and Marcos Goncalves (2009) The Metric Dilemma: Competence-Conscious Associative Classification. In 9th SIAM International Conference on Data Mining. Apr. (BibTeX)
  12. Amir H. Qureshi, Vineet Chaoji, Dony Maiguel and Hafeez Faridi, Constantinos Barth, Erliang Zheng, Jeremy Besson, Saeed M. Salem, Mudita Singhal, David Sarracino, Bryan Krastins and Mitsunori Ogihara, Mohammed J. Zaki and Vineet Gupta (2009) Proteomic and Phospho-proteomic Profile of Human Platelets in Basal, Resting State: Insights into Integrin Signaling. PLoS ONE, 4(10), pp.e7627. . (URL) (BibTeX)
  13. Amanda W. Lund, Cagatay C. Bilgin, Mohammed Al Hasan, Lindsey M. McKeen, Jan P. Stegeman and Bulent Yener, Mohammed J. Zaki and George E. Plopper (2009) Quantification of Spatial Parameters in 3D Cellular Constructs Using Graph Theory. Journal of Biomedicine and Biotechnology, 2009(928286), pp.16. . (URL) (BibTeX)
  14. Mohammad Al Hasan and Mohammed J. Zaki (2009) Output Space Sampling for Graph Patterns. Proceedings of the VLDB Endowment (35th International Conference on Very Large Data Bases), 2(1), pp.730-741. . (BibTeX)
  15. Mohammed J. Zaki (2009) Closed Itemset Mining and Non-redundant Association Rule Mining. In Encyclopedia of Database Systems (Ling Liu and M. Tamer Ozsu, Eds.). Springer-Verlag. (URL) (BibTeX)
  16. Naren Ramakrishnan and Mohammed J. Zaki (2009) Redescription Mining and Applications in Bioinformatics. In Biological Data Mining (Jake Chen and Stefano Lonardi, Eds.). CRC Press. (URL) (BibTeX)

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2008

  1. Adriano Veloso, Wagner Meira, Jr. and Mohammed J. Zaki (2008) Calibrated Lazy Associative Classification. In Brazilian Symposium on Databases. Oct. (BibTeX)
  2. Mohammed J. Zaki, Ke Wang (2008) Editorial: Special Issue on the Best Papers of SDM'08. Statistical Analysis and Data Mining, 1(3), Nov, pp.109-110. . (BibTeX)
  3. Mohammed J. Zaki, George Karypis, Jiong Yang and Wei Wang (2008) Introduction to special issue on bioinformatics. ACM Transactions on Knowledge Discovery from Data, 2(1), Mar. . (BibTeX)
  4. Vineet Chaoji, Mohammad Al Hasan, Saeed Salem , Jeremy Besson and Mohammed J. Zaki (2008) ORIGAMI: A Novel and Effective Approach for Mining Representative Orthogonal Graph Patterns. Statistical Analysis and Data Mining, 1(2), Jun, pp.67-84. . (BibTeX)
  5. Benjarath Phoophakdee and Mohammed J. Zaki (2008) TRELLIS+: An Effective Approach for Indexing Genome-Scale Sequences using Suffix Trees. In 13th Pacific Symposium on Biocomputing. Jan. (BibTeX)
  6. Feng Gao and Mohammed J. Zaki (2008) PSIST: A Scalable Approach to Indexing Protein Structures using Suffix Trees. Journal of Parallel and Distributed Computing, 68(1), Jan, pp.55-63. . special issue on Parallel Techniques for Information Extraction. (BibTeX)
  7. Zujun Shentu, Mohammad Al Hasan, Chris Bystroff and Mohammad J. Zaki (2008) Context Shapes: Efficient Complementary Shape Matching for Protein-Protein Docking. Proteins: Structure, Function and Bioinformatics, 70(3), Feb, pp.1056-1073. . (BibTeX)
  8. Vineet Chaoji, Mohammad Al Hasan, Saeed Salem and Mohammed J. Zaki (2008) SPARCL: Efficient and Effective Shape-based Clustering. In 8th IEEE International Conference on Data Mining. Dec. (BibTeX)
  9. Vineet Chaoji, Mohammad Al Hasan, Saeed Salem and Mohammed J. Zaki (2008) An integrated, generic approach to pattern mining: data mining template library. Data Mining and Knowledge Discovery, 17(3), Dec, pp.457-495. . (BibTeX)
  10. Jake Y. Chen, Mohammed J. Zaki and Stefano Lonardi (2008) BIOKDD08: A Workshop report on Data Mining in Bioinformatics. SIGKDD Explorations, 10(2), Dec, pp.54-56. . (BibTeX)
  11. Saeed Salem and Mohammed J. Zaki (2008) Iterative Non-Sequential Protein Structural Alignment. In 7th Annual International Conference on Computational Systems Bioinformatics. Aug. (BibTeX)
  12. Renata B. Araujo, Guilherme H. T. Ferreira, Gustavo H. Orair, Wagner Meira Jr., Renato A. C. Ferreira, Dorgival O. G. Neto and Mohammed J. Zaki (2008) The ParTriCluster Algorithm for Gene Expression Analysis. International Journal of Parallel Programming, 36(2), Apr, pp.226-249. . special issue on SBAC-PAD 2006. (BibTeX)
  13. Chid Apte, Haesun Park, Ke Wang and Mohammed J. Zaki (2008) Proceedings of the 2008 SIAM International Conference on Data Mining. (Chid Apte, Haesun Park, Ke Wang and Mohammed J. Zaki, Eds.), Society for Industrial and Applied Mathematics, Philadelphia, PA. ISBN:978-0-89871-654-2. (URL) (BibTeX)
  14. Feng Gao and Mohammed J. Zaki (2008) Indexing Protein Structures Using Suffix Trees. In Protein Structure Prediction (Mohammed J. Zaki and Chris Bystroff, Eds.), pages 147-169. Springer/Humana Press. (BibTeX)
  15. Mohammed J. Zaki and Chris Bystroff (2008) Protein Structure Prediction. (Mohammed J. Zaki and Chris Bystroff, Eds.) Humana Press/Springer (http://www.springer.com/978-1-58829-752-5). (URL) (BibTeX)
  16. Stefano Lonardi, Jake Y. Chen and Mohammed J Zaki (2008) Proceedings of BIOKDD08: ACM SIGKDD International Workshop on Data Mining in Bioinformatics. (Stefano Lonardi, Jake Y. Chen and Mohammed J Zaki, Eds.). (URL) (BibTeX)
  17. Mohammed J. Zaki, Naren Ramakrishnan and Srinivasan Parthasarathy (2008) Editorial: Biological data mining. Scientific Programming, 16(1), pp.3. . (BibTeX)

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2007

  1. Adriano Veloso, Wagner Meira, Jr., Marcos Golcalves and Mohammed J. Zaki (2007) Multi-Label Lazy Associative Classification. In 11th European Conference on Principles and Practice of Knowledge Discovery. Sep. (BibTeX)
  2. Karam Gouda, Mosab Hassaan and Mohammed J. Zaki (2007) PRISM: A Prime-Encoding Approach for Frequent Sequence Mining. In 7th IEEE International Conference on Data Mining. Oct. (BibTeX)
  3. Mohammad Hasan, Vineet Chaoji, Saeed Salem, Jeremy Besson and Mohammed J. Zaki (2007) ORIGAMI: Mining Representative Orthogonal Graph Patterns. In 7th IEEE International Conference on Data Mining. Oct. (BibTeX)
  4. Benjarath Phoophakdee and Mohammed J. Zaki (2007) Genome-scale Disk-based Suffix Tree Indexing. In ACM SIGMOD International Conference on Management of Data. Jun. (BibTeX)
  5. Mohammed J. Zaki, Markus Peters, Ira Assent and Thomas Seidl (2007) CLICKS: An Effective Algorithm for Mining Subspace Clusters in Categorical Datasets. Data and Knowledge Engineering, 60(1), Jan, pp.51-70. . special issue on Intelligent Data Mining. (BibTeX)
  6. Charu A. Aggarwal, Na Ta, Jianyong Wang, Jianhua Feng and Mohammed J. Zaki (2007) XProj: A Framework for Projected Structural Clustering of XML Documents. In 13th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Aug. (BibTeX)
  7. Mohammed J. Zaki (2007) A Unified Approach to Rooted Tree Mining: Algorithms and Applications. In Mining Graph Data (Larry Holder and Diane Cook, Eds.), pages 381-410. John Wiley and Sons, Inc.. (BibTeX)
  8. Karlton Sequeira and Mohammed J. Zaki (2007) Exploring Similarities across High-dimensional Datasets. In Research and Trends in Data Mining Technologies and Applications (David Taniar, Eds.), pages 53-85. Idea Group, Inc.. (BibTeX)
  9. Mohammed J. Zaki, Akifumi Makinouchi and Shunsuke Uemura (2007) Editorial: special issue on Biomedical Data Engineering. International Journal of Bioinformatics Research and Applications, 3(1), pp.1-3. . (BibTeX)
  10. Mohammed J. Zaki, George Karypis and Jiong Yang (2007) Editorial: Data Mining in Bioinformatics. Algorithms for molecular biology, 2(4). . (URL) (BibTeX)
  11. Jake Y. Chen, Stefano Lonardi and Mohammed J. Zaki (2007) Proceedings of BIOKDD07: ACM SIGKDD International Workshop on Data Mining in Bioinformatics. (Jake Y. Chen, Stefano Lonardi and Mohammed J. Zaki, Eds.). (URL) (BibTeX)

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2006

  1. Bouchra Bouqata, Christopher D. Carothers, Boleslaw K. Szymanski and Mohammed J. Zaki (2006) VOGUE: A Novel Variable Order-Gap State Machine for Modeling Sequences. In 10th European Conference on Principles and Practice of Knowledge Discovery. Sep. (BibTeX)
  2. Lane Hemaspaandra, Mitsunori Ogihara, Mohammed J. Zaki and Marius Zimand (2006) The Complexity of Finding Top-Toda-Equivalence-Class Members.. . (BibTeX)
  3. Yongqiang Zhang and Mohammed J. Zaki (2006) SMOTIF: efficient structured pattern and profile motif search. Algorithms for molecular biology, 1(22), Nov. . (URL) (BibTeX)
  4. Yongqiang Zhang and Mohammed J. Zaki (2006) EXMOTIF: efficient structured motif extraction. Algorithms for molecular biology, 1(21), Nov. . (URL) (BibTeX)
  5. Adriano Veloso, Wagner Meira, Jr., Marco Cristo, Marcos Golcalves and Mohammed J. Zaki (2006) Multi-Evidence, Multi-Criteria, Lazy Associative Document Classification. In 15th ACM International Conference on Information and Knowledge Management. Nov. (BibTeX)
  6. Jeffery Baumes, Mark Goldberg, Mykola Hayvanovych, Malik Magdon-Ismail, William Wallace and Mohammed J. Zaki (2006) Finding Hidden Group Structure in a Stream of Communications. In IEEE International Conference on Intelligence and Security Informatics. May. Honorable Mention for Best Paper Award. (BibTeX)
  7. Shichao Zhang and Mohammed J. Zaki (2006) Editorial: Mining Multiple Data Sources: Local Pattern Analysis. Data Mining and Knowledge Discovery: An International Journal, 12(2-3), May, pp.121-125. . (BibTeX)
  8. Mohammed J. Zaki and Charu C. Aggarwal (2006) Xrules: An effective structural classifier for XML data. Machine Learning Journal, 62(1-2), Feb, pp.137-170. . special issue on Statistical Relational Learning and Multi-Relational Data Mining. (BibTeX)
  9. Adriano Veloso, Wagner Meira, Jr. and Mohammed J. Zaki (2006) Lazy Associative Classification. In 6th IEEE International Conference on Data Mining. Dec. (BibTeX)
  10. Mohammed J. Zaki, George Karypis and Jiong Yang (2006) BIOKDD06: Data Mining in Bioinformatics. SIGKDD Explorations, 8(2), Dec, pp.78. . (BibTeX)
  11. Gregory Piatetsky-Shapiro, Chabane Djeraba, Lise Getoor, Robert Grossman, Ronen Feldman and Mohammed J. Zaki (2006) What are the grand challenges for data mining?: KDD-2006 panel report. SIGKDD Explorations, 8(2), Dec, pp.70-77. . (BibTeX)
  12. Yongqiang Zhang and Mohammed J. Zaki (2006) ExMotif: Efficient structured motif extraction. In 6th SIGKDD Workshop on Data Mining in Bioinformatics. Aug. (BibTeX)
  13. Lizhuang Zhao, Mohammed J. Zaki and Naren Ramakrishnan (2006) BLOSOM: A Framework for Mining Arbitrary Boolean Expressions. In 12th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Aug. (BibTeX)
  14. Mohammad Al Hasan, Vineet Chaoji, Saeed Salem and Mohammed J. Zaki (2006) Link Prediction using Supervised Learning. In Workshop on Link Analysis, Counter-terrorism and Security (with SDM). Apr. (BibTeX)
  15. Mohammed J. Zaki, George Karypis and Jiong Yang (2006) Proceedings of BIOKDD06: ACM SIGKDD Workshop on Data Mining in Bioinformatics. (Mohammed J. Zaki, George Karypis and Jiong Yang, Eds.). (URL) (BibTeX)
  16. Richi Nayak and Mohammed J. Zaki (2006) Knowledge Discovery from XML Documents. (Richi Nayak and Mohammed J. Zaki, Eds.) Spring-Verlag. ISBN: 3-540-33180-8. (URL) (BibTeX)
  17. Mohammed J. Zaki and Karlton Sequeira (2006) Data Mining in Computational Biology. In Handbook of Computational Molecular Biology (Srinivas Aluru, Eds.), pages 38/1-38/26. Chapman \& Hall/CRC Press. (BibTeX)

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2005

  1. Mohammad Al Hasan, Vineet Chaoji, Saeed Salem , Nagender Parimi and Mohammed J. Zaki (2005) DMTL: A Generic Data Mining Template Library. In Workshop on Library-Centric Software Design (with OOPSLA). Oct. (BibTeX)
  2. Lizhuang Zhao and Mohammed J. Zaki (2005) MicroCluster: An Efficient Deterministic Biclustering Algorithm for Microarray Data. IEEE Intelligent Systems, 20(6), Nov/Dec, pp.40-49. . special issue on Data Mining for Bioinformatics. (BibTeX)
  3. Karam Gouda and Mohammed J. Zaki (2005) GenMax: An Efficient Algorithm for Mining Maximal Frequent Itemsets. Data Mining and Knowledge Discovery: An International Journal, 11(3), Nov, pp.223-242. . (BibTeX)
  4. Mohammed J. Zaki (2005) Efficiently Mining Frequent Embedded Unordered Trees. Fundamenta Informaticae, 66(1-2), Mar/Apr, pp.33-52. . special issue on Advances in Mining Graphs, Trees and Sequences. (BibTeX)
  5. Lizhuang Zhao and Mohammed J. Zaki (2005) TriCluster: An Effective Algorithm for Mining Coherent Clusters in 3D Microarray Data. In ACM SIGMOD Conference on Management of Data. Jun. (BibTeX)
  6. Ganesh Ramesh, Mohammed J. Zaki and William A. Maniatty (2005) Distribution-Based Synthetic Database Generation Techniques for Itemset Mining. In 9th International Database Engineering and Applications Symposium. Jul. (BibTeX)
  7. Mohammed J. Zaki, Nagender Parimi, Nilanjana De, Feng Gao, Benjarath Phoophakdee, Joe Urban, Vineet Chaoji, Mohammad Al Hasan and Saeed Salem (2005) Towards Generic Pattern Mining (Invited Paper). In International Conference on Formal Concept Analysis. Feb. (BibTeX)
  8. Mohammed J. Zaki, Nilanjana De, Feng Gao, Nagender Parimi, Benjarath Phoophakdee, Joe Urban, Vineet Chaoji, Mohammad Al Hasan and Saeed Salem (2005) Towards Generic Pattern Mining (Extended Abstract). In 1st International Conference on Pattern Recognition and Machine Intelligence. Dec. (BibTeX)
  9. Srinivasan Parthasarathy, Wei Wang and Mohammed J Zaki (2005) BIOKDD 2005 Workshop Report. SIGKDD Explorations, 7(2), Dec, pp.129-131. . (BibTeX)
  10. Bart Goethals, Siegfried Nijssen and Mohammed J Zaki (2005) Open Source Data Mining: Workshop Report. SIGKDD Explorations, 7(2), Dec, pp.143-144. . (BibTeX)
  11. Mohammed Zaki, Markus Peters, Ira Assent and Thomas Seidl (2005) CLICKS: An Effective Algorithm for Mining Subspace Clusters in Categorical Datasets. In 11th ACM SIGKDD International Conference onKnowledge Discovery and Data Mining. Aug. (BibTeX)
  12. Mohammed J. Zaki (2005) Efficiently Mining Frequent Trees in a Forest: Algorithms and Applications. IEEE Transactions on Knowledge and Data Engineering, 17(8), Aug, pp.1021-1035. . special issue on Mining Biological Data. (BibTeX)
  13. Mohammed J. Zaki and Naren Ramakrishnan (2005) Reasoning about Sets using Redescription Mining. In 11th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Aug. (BibTeX)
  14. Feng Gao and Mohammed J. Zaki (2005) PSIST: Indexing Protein Structures using Suffix Trees. In IEEE Computational Systems Bioinformatics Conference. Aug. (BibTeX)
  15. Markus Peters and Mohammed Zaki (2005) CLICKS: clustering categorical data using K-partite maximal cliques. In 21st IEEE International Conference on Data Engineering. Apr. (BibTeX)
  16. Mohammed J. Zaki and Ching-Jui Hsiao (2005) Efficient Algorithms for Mining Closed Itemsets and their Lattice Structure. IEEE Transactions on Knowledge and Data Engineering, 17(4), Apr, pp.462-478. . (BibTeX)
  17. Shunsuke Uemura, Akifumi Makinouchi and Mohammed J. Zaki (2005) Proceedings of the IEEE International Workshop on Biomedical Data Engineering (BDME:with ICDE). (Shunsuke Uemura, Akifumi Makinouchi and Mohammed J. Zaki, Eds.), IEEE Xplore Digital Library. (URL) (BibTeX)
  18. Mohammed J. Zaki (2005) Mining Maximal and Closed Frequent Itemsets. In New Generation of Data Mining Applications (Mehmet Kantardzic and Jozef Zurada, Eds.), pages 571-598. IEEE/Wiley Press. (BibTeX)
  19. Karlton Sequeira and Mohammed J. Zaki (2005) SCHISM: A New Approach to Interesting Subspace Mining. International Journal of Business Intelligence and Data Mining, 1(2), pp.137-160. . (BibTeX)
  20. Bart Goethals, Siegfried Nijssen and Mohammed J Zaki (2005) Proceedings of the 1st ACM SIGKDD International workshop on open source data mining: frequent pattern mining implementations. (Bart Goethals, Siegfried Nijssen and Mohammed J Zaki, Eds.), ACM Digital Library (http://portal.acm.org/toc.cfm?id=1133905). ISBN:1-59593-210-0. (URL) (BibTeX)
  21. Mohammed J. Zaki, Nilanjana De, Feng Gao, Paolo Palmerini, Nagender Parimi, Jeevan Pathuri, Benjarath Phoophakdee and Joe Urban (2005) Generic Pattern Mining via Data Mining Template Library. In Constraint-Based Mining (Jean-Francois Boulicaut, Luc De Raedt, Heikki Mannila, Eds.), pages 362-279. Springer-Verlag. (BibTeX)
  22. Jason T. L. Wang, Mohammed J. Zaki, Hannu T. T. Toivonen and Dennis Shasha (2005) Data Mining in Bioinformatics. (Jason T. L. Wang, Mohammed J. Zaki, Hannu T. T. Toivonen and Dennis Shasha, Eds.) Springer-Verlag London, UK (http://www.springer.com/978-1-85233-671-4). (URL) (BibTeX)
  23. Mohammed J. Zaki, Vinay Nadimpally, Deb Bardhan and Chris Bystroff (2005) Predicting Protein Folding Pathways. In Data Mining in Bioinformatics (Jason Wang, Mohammed Zaki, Hannu Toivonen and Dennis Shasha, Eds.), pages 127-141. Springer-Verlag London Ltd.. (BibTeX)
  24. Srinivasan Parthasarathy, Wei Wang and Mohammed J. Zaki (2005) Proceedings of BIOKDD05: ACM SIGKDD International Workshop on Data Mining in Bioinformatics. (Srinivasan Parthasarathy, Wei Wang and Mohammed J. Zaki, Eds.), ACM Digital Library (http://portal.acm.org/toc.cfm?id=1134030). ISBN:1-59593-213-5. (URL) (BibTeX)

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2004

  1. Karlton Sequeira and Mohammed J. Zaki (2004) SCHISM: A New Approach for Interesting Subspace Mining. In 4th IEEE International Conference on Data Mining. Nov. (BibTeX)
  2. Mohammed J. Zaki (2004) Mining Non-Redundant Association Rules. Data Mining and Knowledge Discovery: An International Journal, 9(3), Nov, pp.223-248. . (BibTeX)
  3. Amir H. Youssefi, David J. Duke and Mohammed J. Zaki (2004) Visual Web Mining. In 13th International World Wide Web Conference (Poster). May. (BibTeX)
  4. Bart Goethals and Mohammed J. Zaki (2004) Advances in Frequent Itemset Mining Implementations: report on FIMI'03. SIGKDD Explorations, 6(1), Jun, pp.109-117. . (BibTeX)
  5. Mohammed J. Zaki, Shinichi Morishita and Isidore Rigoutsos (2004) Report on BIOKDD04: Workshop on Data Mining in Bioinformatics. SIGKDD Explorations, 6(2), Dec, pp.153-154. . (BibTeX)
  6. Mohammed J. Zaki, Vinay Nadimpally, Deb Bardhan and Chris Bystroff (2004) Predicting protein folding pathways. Bioinformatics, 20(1), Aug, pp.i386-i393. . Supplement on the Proceedings of the 12th International Conference on Intelligent Systems for Molecular Biology. (BibTeX)
  7. Lane Hemaspaandra, Mitsunori Ogihara, Mohammed J. Zaki and Marius Zimand (2004) The Complexity of Finding Top-Toda-Equivalence-Class Members. In Latin American Theoretical Informatics Conference. Apr. (BibTeX)
  8. Mohammed J. Zaki and Limsoon Wong (2004) Data Mining Techniques. In Selected Topics in Post-Genome Knowledge Discovery (Limsoon Wong and Louxin Zhang, Eds.), pages 125-163. World Scientific Publishers. (BibTeX)
  9. Mohammed J. Zaki (2004) Data Mining. In The Encyclopedia of Human-Computer Interaction (William S. Bainbridge, Eds.), pages 149-152. Berkshire Publishing Group. (BibTeX)
  10. Roberto Bayardo, Bart Goethals and Mohammed J Zaki (2004) Proceedings of the 2nd IEEE ICDM Workshop on Frequent Itemset Mining Implementations. (Roberto Bayardo, Bart Goethals and Mohammed J Zaki, Eds.), CEUR Workshop Proceedings. (URL) (BibTeX)
  11. Mohammed J. Zaki, Jingjing Hu and Chris Bystroff (2004) Methods for Mining Protein Contact Maps. In Data Mining: Next Generation Challenges and Future Directions (H. Kargupta, A. Joshi, K. Sivakumar and Y. Yesha, Eds.), pages 291-314. AAAI/MIT Press. (BibTeX)
  12. Mohammed J. Zaki, Shinichi Morishita and Isidore Rigoutsos (2004) Proceedings of BIOKDD04: ACM SIGKDD International Workshop on Data Mining in Bioinformatics. (Mohammed J. Zaki, Shinichi Morishita and Isidore Rigoutsos, Eds.). (URL) (BibTeX)

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2003

  1. Mohammed J. Zaki, Shan Jin and Chris Bystroff (2003) Mining Residue Contacts in Proteins Using Local Structure Predictions. IEEE Transactions on Systems, Man and Cybernetics -- B, 33(5), Oct, pp.789-801. . special issue on Bioengineering and Bioinformatics. (BibTeX)
  2. Amir H. Youssefi, David J. Duke, Ephraim P. Glinert, and Mohammed J. Zaki (2003) Towards Visual Web Mining. In 3rd International Workshop on Visual Data Mining (with ICDM). Nov. (BibTeX)
  3. Adriano Veloso, Wagner Meira, Jr., Marcio Carvalho, Srinivasan Parthasarathy and Mohammed J. Zaki (2003) Incremental and Interactive Mining for Frequent Itemsets in Evolving Databases. In 6th International Workshop on High Performance Data Mining: Pervasive and Data Stream Mining. May. (BibTeX)
  4. Ganesh Ramesh, William A. Maniatty and Mohammed J. Zaki (2003) Feasible Itemset Distributions in Data Mining: Theory and Application. In 22nd {ACM SIGACT-SIGMOD-SIGART} Symposium on Principles of Database Systems. Jun. (BibTeX)
  5. Mohammed J. Zaki and Jason T.L. Wang (2003) Editorial: Data Management in Bioinformatics. Information Systems: An International Journal, 28(4), Jun, pp.241-242. . (BibTeX)
  6. Mohammed J. Zaki and Charu C. Aggarwal (2003) Proceedings of the 8th ACM SIGMOD Workshop on Research Issues in Data Mining and Knowledge Discovery. (Mohammed J. Zaki and Charu C. Aggarwal, Eds.). also as RPI Technical Report 03-05. (URL) (BibTeX)
  7. Mohammed J. Zaki and Benjarath Phoophakdee (2003) MIRAGE: A Framework for Mining, Exploring and Visualizing Minimal Association Rules. Technical report 03-4, Computer Science Department, Rensselaer Polytechnic Institute. (BibTeX)
  8. Vinay Nadimpally and Mohammed J. Zaki (2003) A Novel Approach to Determine Normal Variation in Gene Expression Data. SIGKDD Explorations, 5(2), Dec, pp.4-13. . special issue on Microarray Data Analysis. (BibTeX)
  9. Mohammed J. Zaki, Hannu Toivonen and Jason Wang (2003) Data Mining in Bioinformatics: Report on BIOKDD'03. SIGKDD Explorations, 5(2), Dec, pp.119-120. . (BibTeX)
  10. Mohammed J. Zaki and Karam Gouda (2003) Fast Vertical Mining Using Diffsets. In 9th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Aug. (BibTeX)
  11. Bouchra Bouqata, Chris Carothers, Boleslaw K. Szymanski and Mohammed J. Zaki (2003) Understading Filesystem Performance for Data Mining Applications. In 6th International Workshop on High Performance Data Mining: Pervasive and Data Stream Mining (with SDM). Aug. (BibTeX)
  12. Mohammed J. Zaki and Charu C. Aggarwal (2003) Xrules: An effective structural classifier for XML data. In 9th ACM SIGKDD International Conference Knowledge Discovery and Data Mining. Aug. (BibTeX)
  13. Feng Pan, Gao Cong, Anthony K. H. Tung, Jiong Yang and Mohammed J. Zaki (2003) CARPENTER: Finding Closed Patterns in Long Biological Datasets. In 9th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Aug. (BibTeX)
  14. Karlton Sequeira, Mohammed J. Zaki and Boleslaw Szymanski (2003) Improving Spatial Locality using Data Mining. In 9th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Aug. (BibTeX)
  15. Mohammed J. Zaki (2003) Mining Data in Bioinformatics. In Handbook of Data Mining (Nong Ye, Eds.), pages 573-596. Lawrence Earlbaum Associates. (BibTeX)
  16. Bart Goethals and Mohammed J. Zaki (2003) Proceedings of the 1st IEEE ICDM Workshop on Frequent Itemset Mining Implementations. (Bart Goethals and Mohammed J. Zaki, Eds.), CEUR Workshop Proceedings. Also as RPI Technical Report 03-04. (URL) (BibTeX)
  17. Mohammed J. Zaki, Hannu Toivonen and Jason Wang (2003) Proceedings of BIOKDD03: ACM SIGKDD International Workshop on Data Mining in Bioinformatics. (Mohammed J. Zaki, Hannu Toivonen and Jason Wang, Eds.). (URL) (BibTeX)

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2002

  1. Ganesh Ramesh, William A. Maniatty and Mohammed J. Zaki (2002) Indexing and Data Access Methods for Database Mining. In 7th ACM SIGMOD Workshop on Research Issues in Data Mining and Knowledge Discovery. May. (BibTeX)
  2. Mohammed J. Zaki and Yi Pan (2002) Introduction: Recent Developments in Parallel and Distributed Data Mining. Distributed and Parallel Databases: An International Journal, 11(2), Mar, pp.123-137. . (BibTeX)
  3. Mohammed J. Zaki (2002) Efficiently Mining Frequent Trees in a Forest. In 8th ACM SIGKDD International Conference Knowledge Discovery and Data Mining. Jul. (BibTeX)
  4. Jingjing Hu, Xiaolan Shen, Yu Shao, Chris Bystroff and Mohammed J. Zaki (2002) Mining Protein Contact Maps. In 2nd BIOKDD Workshop on Data Mining in Bioinformatics (with SIGKDD). Jul. (BibTeX)
  5. Karlton Sequeira, Mohammed J. Zaki (2002) ADMIT: Anomaly-base Data Mining for Intrusions. In 8th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Jul. (BibTeX)
  6. Mohammed J. Zaki (2002) Editorial: Online, Interactive and Anytime Data Mining. SIGKDD Explorations, 3(2), Jan, pp.i-ii. . (URL) (BibTeX)
  7. Mohammed J. Zaki, Hannu Toivonen and Jason Wang (2002) Recent Advances in Data Mining in Bioinformatics. SIGKDD Explorations, 4(2), Dec, pp.112-114. . (BibTeX)
  8. Adriano Veloso, Bruno Gusmao, Wagner Meira, Jr., Marcio Carvalho, Srinivasan Parthasarathy and Mohammed J. Zaki (2002) Efficiently Mining Approximate Models of Associations in Evolving Databases. In 6th European Conference on Principles of Knowledge Discovery in Databases. Aug. (BibTeX)
  9. Yu Shao, Malik Magdon-Ismail, Daniel Freedman , Srinivas Akella, Mohammed J. Zaki and Chris Bystroff (2002) Compression of Protein Conformational Space. In 6th Annual International Conference on Research in Computational Molecular Biology (Poster). Apr. (BibTeX)
  10. Adriano Veloso, Wagner Meira, Jr., Marcio Carvalho, Bruno Possas, Srinivasan Parthasarathy and Mohammed J. Zaki (2002) Mining Frequent Itemsets in Evolving Databases. In 2nd {SIAM} International Conference on Data Mining. Apr. (BibTeX)
  11. Scott Epter, Mukkai Krishnamoorthy and Mohammed J. Zaki (2002) Clusterability Detection and Cluster Initialization. In {SIAM} Workshop on Clustering High Dimensional Data and its Applications (with SDM). Apr. (BibTeX)
  12. Mohammed J. Zaki and Ching-Jui Hsiao (2002) CHARM: An Efficient Algorithm for Closed Itemset Mining. In 2nd {SIAM} International Conference on Data Mining. Apr. (BibTeX)
  13. John Punin, Mukkai Krishnamoorthy and Mohammed J. Zaki (2002) Web Usage Mining: Languages and Algorithms. In Explanatory Data Analysis in Empirical Research (M. Schwaiger and O. Opitz, Eds.), pages 266-281. Springer-Verlag. (BibTeX)
  14. Mohammed J. Zaki, Hannu Toivonen and Jason Wang (2002) Proceedings of BIOKDD02: ACM SIGKDD International Workshop on Data Mining in Bioinformatics. (Mohammed J. Zaki, Hannu Toivonen and Jason Wang, Eds.). (URL) (BibTeX)

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2001

  1. Karam Gouda and Mohammed J. Zaki (2001) Efficiently Mining Maximal Frequent Itemsets. In 1st IEEE International Conference on Data Mining. Nov. (BibTeX)
  2. John Punin, Mukkai Krishnamoorthy and Mohammed J. Zaki (2001) LOGML: XML language for web usage mining. In 10th International World Wide Web Conference (Poster). May. (BibTeX)
  3. Mohammed J. Zaki (2001) Parallel Sequence Mining on Shared-Memory Machines. Journal of Parallel and Distributed Computing, 61(3), Mar, pp.401-426. . Special issue on High Performance Data Mining. (BibTeX)
  4. Mohammed J. Zaki (2001) SPADE: An Efficient Algorithm for Mining Frequent Sequences. Machine Learning Journal, 42(1/2), Jan/Feb, pp.31-60. . special issue on Unsupervised Learning. (BibTeX)
  5. Srinivasan Parthasarathy, Mohammed J. Zaki, Mitsunori Ogihara and Wei Li (2001) Parallel Data Mining for Association Rules on Shared-memory Systems. Knowledge and Information Systems, 3(1), Feb, pp.1-29. . (BibTeX)
  6. Mohammed J. Zaki, Hannu Toivonen and Jason Wang (2001) BIOKDD01: Workshop on Data Mining in Bioinformatics. SIGKDD Explorations, 3(2), Feb, pp.71-73. . (BibTeX)
  7. John Punin, Mukkai Krishnamoorthy and Mohammed J. Zaki (2001) LOGML: Log markup language for web usage mining. In ACM WEBKDD Workshop on Mining Log Data Across All Customer TouchPoints (with SIGKDD). Aug. (BibTeX)
  8. Mohammed J. Zaki, Neal Lesh and Mitsunori Ogihara (2001) Predicting Failures in Event Sequences.. (BibTeX)
  9. Mohammed J. Zaki, Vipin Kumar and David Skillicorn (2001) Proceedings of Workshop on Parallel and Distributed Data Mining. (Mohammed J. Zaki, Vipin Kumar and David Skillicorn, Eds.). (URL) (BibTeX)
  10. Mohammed J. Zaki and Chris Bystroff (2001) Mining Residue Contacts in Proteins. In Data Mining for Scientific and Engineering Applications (R. Grossman, C. Kamath, P. Kegelmeyer, V. Kumar and R. Namburu, Eds.), pages 141-164. Kluwer Academic Publishers. (BibTeX)
  11. Mohammed J. Zaki, Hannu Toivonen and Jason Wang (2001) Proceedings of BIOKDD01: ACM SIGKDD International Workshop on Data Mining in Bioinformatics. (Mohammed J. Zaki, Hannu Toivonen and Jason Wang, Eds.). (URL) (BibTeX)

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2000

  1. Krishna Rajan and Mohammed J. Zaki (2000) Data Mining through Information Association: A Knowledge Discovery Tool for Materials Science. In 17th International CODATA Conference. Oct. (BibTeX)
  2. Mohammed J. Zaki (2000) Sequences Mining in Categorical Domains: Incorporating Constraints. In 9th ACM International Conference on Information and Knowledge Management. Nov. (BibTeX)
  3. Mohammed J. Zaki, Shan Jin and Chris Bystroff (2000) Mining Residue Contacts in Proteins Using Local Structure Predictions. In IEEE International Symposium on Bioinformatics and Biomedical Engineering. Nov. (BibTeX)
  4. Mohammed J. Zaki (2000) Scalable Algorithms for Association Mining. IEEE Transactions on Knowledge and Data Engineering, 12(3), May/Jun, pp.372-390. . (BibTeX)
  5. William A. Maniatty and Mohammed J. Zaki (2000) A Requirement Analysis for Parallel KDD Systems. In 3rd IPDPS Workshop on High Performance Data Mining. May. (BibTeX)
  6. Neal Lesh, Mohammed J. Zaki and Mitsunori Ogihara (2000) Scalable Feature Mining for Sequential Data. IEEE Intelligent Systems and their Applications, 15(2), Mar/Apr, pp.48-56. . Special issue on Data Mining. (BibTeX)
  7. Mohammed J. Zaki and Ching-Tien Ho (2000) Workshop Report: Large-Scale Parallel KDD Systems. SIGKDD Explorations, 1(2), Jan, pp.112-114. . (BibTeX)
  8. William A. Maniatty and Mohammed J. Zaki (2000) Systems Support for Scalable Data Mining. SIGKDD Explorations, 2(2), Dec, pp.56-65. . (BibTeX)
  9. Mohammed J. Zaki, Neal Lesh and Mitsunori Ogihara (2000) PLANMINE: Predicting Plan Failures using Sequence mining. Artificial Intelligence Review, 14(6), Dec, pp.421-446. . Special issue on Applications of Data Mining. (BibTeX)
  10. Mohammed J. Zaki (2000) Generating Non-Redundant Association Rules. In 6th ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Aug. (BibTeX)
  11. Mohammed J. Zaki (2000) Sequence Mining in Categorical Domains: Algorithms and Applications. In Sequence Learning: Paradigms, Algorithms, and Applications (Ron Sun and Lee Giles, Eds.), pages 162-187. Springer-Verlag, Heidelberg, Germany. (BibTeX)
  12. Mohammed J. Zaki, Vipin Kumar and David Skillicorn (2000) 3rd IPDPS International Workshop on High Performance Data Mining. (Mohammed J. Zaki, Vipin Kumar and David Skillicorn, Eds.), Springer LINK (http://www.springerlink.com/content/101nv8cq9yrw/). (URL) (BibTeX)
  13. Mohammed J. Zaki (2000) Parallel and Distributed Data Mining: An Introduction. In Large-Scale Parallel Data Mining. Springer-Verlag, Heidelberg, Germany. (BibTeX)
  14. Mohammed J. Zaki (2000) Parallel sequence mining on SMP machines. In Large-Scale Parallel Data Mining. Springer-Verlag, Heidelberg, Germany. (BibTeX)
  15. Mohammed J. Zaki and Ching-Tien Ho (2000) Large-Scale Parallel Data Mining. Springer-Verlag, Heidelberg, Germany. ISBN: 978-3-540-67194-7. (URL) (BibTeX)
  16. Mohammed J. Zaki, Ching-Tien Ho and Rakesh Agrawal (2000) Parallel Classification on Shared-Memory Systems. In Advances in Distributed and Parallel Knowledge Discovery (Hillol Kargupta and Philip Chan, Eds.), pages 377-407. AAAI Press, Menlo Park, CA. (BibTeX)
  17. Mohammed J. Zaki (2000) Hierarchical Parallel Algorithms for Association Mining. In Advances in Distributed and Parallel Knowledge Discovery (Hillol Kargupta and Philip Chan, Eds.), pages 339-376. AAAI Press, Menlo Park, CA. (BibTeX)
  18. Mohammed J. Zaki and Gautam Das (2000) Proceedings of HiPC'00: Special Session on Large Scale Data Mining. (Mohammed J. Zaki and Gautam Das, Eds.), Springer LINK (http://www.springerlink.com/content/phpt72qy0ycw). (URL) (BibTeX)
  19. Srinivasan Parthasarathy, Mohammed J. Zaki, Mitsunori Ogihara and Sandhya Dwarkadas (2000) Sequence Mining in Dynamic and Interactive Environments. In Knowledge Discovery for Business Information Systems (Witold Abramowicz and Josef Zurada, Eds.), pages 377-395. Kluwer Academic Publishers, Boston, MA. (BibTeX)

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1999

  1. Srinivasan Parthasarathy, Mohammed J. Zaki, Mitsunori Ogihara and Sandhya Dwarkadas (1999) Incremental and Interactive Sequence Mining. In 8th ACM International Conference Information and Knowledge Management. Nov. (BibTeX)
  2. Rakesh Agrawal, Ching-Tien Ho, Leon Pauser and Mohammed J. Zaki (1999) Parallel Data Mining on Shared-Memory Multiprocessors. In 9th SIAM Conference on Parallel Processing for Scientific Computing, Minisymposium on High-Performance Data Mining. Mar. (BibTeX)
  3. Mohammed J. Zaki, Ching-Tien Ho and Rakesh Agrawal (1999) Parallel Classification for Data Mining on Shared-Memory Multiprocessors. In 15th IEEE International Conference on Data Engineering. Mar. See IBM Technical Report RJ10104~\cite{1999-ibmtr} for a more detailed version of this paper. (BibTeX)
  4. Mohammed J. Zaki (1999) Parallel and Distributed Association Mining: A Survey. IEEE Concurrency, 7(4), Dec, pp.14-25. . Special issue on Parallel Mechanisms for Data Mining. (BibTeX)
  5. Mohammed J. Zaki (1999) Parallel Sequence Mining on Shared-Memory Machines. In Workshop on Large-Scale Parallel Data Mining Systems (with KDD). Aug. (BibTeX)
  6. Neal Lesh, Mohammed J. Zaki and Mitsunori Ogihara (1999) Mining features for Sequence Classification. In 5th International Conference on Knowledge Discovery and Data Mining (KDD). Aug. (BibTeX)
  7. Mohammed J. Zaki and Ching-Tien Ho (1999) Proceedings of the ACM SIGKDD Workshop on Large-Scale Parallel KDD Systems. (Mohammed J. Zaki and Ching-Tien Ho, Eds.). (URL) (BibTeX)
  8. Mohammed J. Zaki, Ching-Tien Ho and Rakesh Agrawal (1999) Parallel Classification for Data Mining on Shared-Memory Systems. Technical report RJ10104, IBM. (BibTeX)
  9. Mohammed J. Zaki, Srinivasan Parthasarathy and Wei Li (1999) Customized Dynamic Load Balancing for Cluster Computing. In High Performance Cluster Computing: Architectures and Systems (Rajkumar Buyya, Eds.), pages 582-607. Prentice Hall, Upper Saddle River, NJ. (BibTeX)

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1998

  1. Mohammed J. Zaki (1998) Efficient Enumeration of Frequent Sequences. In 7th ACM International Conference on Information and Knowledge Management. Nov. (BibTeX)
  2. Mohammed J. Zaki, Ching-Tien Ho and Rakesh Agrawal (1998) Parallel Classification on SMP Systems. In 1st Workshop on High Performance Data Mining (with IPPS). Mar. (BibTeX)
  3. Mohammed J. Zaki and Mitsunori Ogihara (1998) Theoretical Foundations of Association Rules. In 3rd ACM SIGMOD Workshop on Research Issues in Data Mining and Knowledge Discovery. Jun. (BibTeX)
  4. Mohammed J. Zaki (1998) Scalable data mining for rules. Technical report URCS-TR-702 (Ph.D. Thesis), University of Rochester. (BibTeX)
  5. Mohammed J. Zaki, Neal Lesh and Mitsunori Ogihara (1998) PLANMINE: Sequence mining for plan failures. In 4th International Conference on Knowledge Discovery and Data Mining (KDD). Aug. (BibTeX)
  6. Srinivasan Parthasarathy, Mohammed J. Zaki and Wei Li (1998) Memory placement techniques for parallel association mining. In 4th International Conference on Knowledge Discovery and Data Mining (KDD). Aug. (BibTeX)

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1997

  1. Mohammed J. Zaki, Srinivasan Parthasarathy and Wei Li (1997) A localized algorithm for parallel association mining. In 9th Annual ACM Symposium on Parallel Algorithms and Architectures. Jun. (BibTeX)
  2. Vineet Gupta, Srinivasan Parthasarathy and Mohammed J. Zaki (1997) Arithmetic and Logic Operations with DNA. In 3rd DIMACS Workshop on DNA Based Computers. Jun. (BibTeX)
  3. Mohammed J. Zaki, Wei Li and Srinivasan Parthasarathy (1997) Customized Dynamic Load Balancing for a Network of Workstations. Journal of Parallel and Distributed Computing, 43(2), Jun, pp.156-162. . special issue on Workstation Clusters and Network-based Computing: Performance Evaluation, Scheduling, and Fault-Tolerance. (BibTeX)
  4. Mohammed J. Zaki, Srinivasan Parthasarathy, Mitsunori Ogihara and Wei Li (1997) New algorithms for fast discovery of association rules. Technical report URCS-TR-651, University of Rochester. (BibTeX)
  5. Mohammed J. Zaki, Srinivasan Parthasarathy, Mitsunori Ogihara and Wei Li (1997) Parallel algorithms for discovery of association rules. Data Mining and Knowledge Discovery: An International Journal, 1(4), Dec, pp.343-373. . Special issue on Scalable High-Performance Computing for KDD. (BibTeX)
  6. Michal Cierniak, Mohammed J. Zaki and Wei Li (1997) Compile-time scheduling algorithms for a heterogeneous network of workstations. The Computer Journal, 40(6), Dec, pp.356-372. . special issue on Automatic Loop Parallelization. (BibTeX)
  7. Mohammed J. Zaki, Srinivasan Parthasarathy, Mitsunori Ogihara and Wei Li (1997) New algorithms for fast discovery of association rules. In 3rd International Conference on Knowledge Discovery and Data Mining (KDD). Aug. (BibTeX)
  8. Mohammed J. Zaki, Srinivasan Parthasarathy, Wei Li and Mitsunori Ogihara (1997) Evaluation of Sampling for Data Mining of Association Rules. In 7th IEEE International Workshop on Research Issues in Data Engineering (with ICDE). Apr. (BibTeX)

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1996

  1. Srinivasan Parthasarathy, Wei Li, M. Cierniak and Mohammed J. Zaki (1996) Compile-Time Inter-Query Dependence Analysis. In 8th IEEE Symposium on Parallel and Distributed Processing. Oct. (BibTeX)
  2. Michael Scott, Wei Li, Sandhya Dwarkadas, Leonidas Kontothanassis, Galen Hunt, Maged Michael, Rob Stets, Nikos Hardavellas, Wagner Meira, Alex Poulos, Michal Cierniak, Srinivasan Parthasarathy and Mohammed J. Zaki (1996) Implementation of Cashmere. In 6th International Workshop on Scalable Shared Memory Multiprocessors (with ASPLOS). Oct. (BibTeX)
  3. Mohammed J. Zaki, Mitsunori Ogihara, Srinivasan Parthasarathy and Wei Li (1996) Parallel Data Mining for Association Rules on Shared-memory Multi-processors. In Supercomputing'96. Nov. (BibTeX)
  4. Lane Hemaspaandra, Mohammed J. Zaki and Marius Zimand (1996) Polynomial-Time Semi-Rankable Sets. Journal of Computing and Information, 2(1), Jun, pp.50-67. . special issue on 8th International Conference of Computing and Information. (BibTeX)
  5. Mohammed J. Zaki, Wei Li and Srinivasan Parthasarathy (1996) Customized Dynamic Load Balancing for a Network of Workstations. In 5th IEEE International Symposium on High-Performance Distributed Computing. Aug. (BibTeX)

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1995

  1. Olac Fuentes, Jonas Karlsson, Wagner Meira, Rajesh Rao, Terry Riopka, Justinian Rosca, Ramesh Sarukkai, Michael van Wie, Mohammed J. Zaki, Terry Becker, R. Frank, Bradford Miller and Chris M. Brown (1995) Mobile Robotics 1994. Technical report Technical Report 588, University of Rochester. (BibTeX)
  2. Michal Cierniak, Wei Li and Mohammed J. Zaki (1995) Loop scheduling for heterogeneity. In 4th IEEE International Symposium on High-Performance Distributed Computing. Aug. (BibTeX)
  3. Mohammed J. Zaki, Wei Li and Michal Cierniak (1995) Performance Impact of Processor and Memory Heterogeneity in a Network of Machines. In 4th Heterogeneous Computing Workshop (with IPPS). Apr. (BibTeX)

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