Publications

@INPROCEEDINGS{Niu2022,
  author          = {Niu, J. and Zola, J. and Sariyuce, A.E.},
  title           = {Counting Induced 6-Cycles in Bipartite Graphs},
  booktitle       = {International Conference on Parallel Processing (ICPP)},
  year            = 2022
}

@INPROCEEDINGS{Turkkan2022,
  author          = {Turkkan, B.O. and Dai, T. and Kosar, T. and Chen, C. and
                  Bulut, M.F. and Zola, J. and Sow, D.},
  title           = {GreenABR: Energy‐Aware Adaptive Bitrate Streaming with
                  Deep Reinforcement Learning},
  booktitle       = {ACM Multimedia Systems Conference (MMSys)},
  year            = 2022
}

@ARTICLE{Zheng2022,
  author          = {Zheng, V. and Sariyuce, A.E. and Zola, J.},
  title           = {Identifying Taxonomic Units in Metagenomic DNA Streams on
                  Mobile Devices},
  journal         = {IEEE/ACM Transactions on Computational Biology and
                  Bioinformatics},
  year            = 2022,
  doi             = {10.1109/TCBB.2022.3172661}
}

@ARTICLE{Mullin2021,
  author          = {Mullin, S. and Zola, J. and Lee, R. and Hu, J. and
                  MacKenzie, B. and Brickman, A. and Anaya, G. and Sinha,
                  S. and Li, A. and Elkin, P.L.},
  title           = {Longitudinal K-Means Approaches to Clustering and
                  Analyzing EHR Opioid Use Trajectories for Clinical
                  Subtypes},
  journal         = {Journal of Biomedical Informatics},
  volume          = {122},
  year            = 2021,
  doi             = {10.1016/j.jbi.2021.103889},
  url             = {http://www.jzola.org/papers/mullin_jbmi2021.pdf}
}

@INPROCEEDINGS{Juneja2021,
  author          = {Juneja, N. and Zola, J. and Chandola, V. and Wodo, O.},
  title           = {Graph-based Strategy for Establishing Morphology
                  Similarity},
  booktitle       = {International Conference on Scientific and Statistical
                  Database Management (SSDBM)},
  pages           = {169--180},
  year            = 2021,
  doi             = {10.1145/3468791.3468819}
}

@INPROCEEDINGS{Zheng2020,
  author          = {Zheng, V. and Sariyuce, A.E. and Zola, J.},
  title           = {Identifying Taxonomic Units in Metagenomic DNA Streams},
  booktitle       = {International Workshop on Data Mining in Bioinformatics
                  (BIOKDD)},
  year            = 2020,
  doi             = {10.1101/2020.08.21.261313}
}

@INPROCEEDINGS{Javanmard2020,
  author          = {Javanmard, M.M. and Ahmad, Z. and Zola, J. and Pouchet,
                  L.-N., Chowdhury, R. and Harrison, R.},
  title           = {Efficient Execution of Dynamic Programming Algorithms on
                  Apache Spark},
  booktitle       = {IEEE Cluster},
  year            = 2020,
  doi             = {10.1109/CLUSTER49012.2020.00044}
}

@ARTICLE{Schoeneman2020,
  author          = {Schoeneman, F. and Chandola, V. and Napp, N. and Wodo,
                  O. and Zola, J.},
  title           = {Learning Manifolds from Dynamic Process Data},
  journal         = {MDPI Algorithms},
  volume          = 13,
  number          = 30,
  year            = 2020,
  doi             = {10.3390/a13020030}
}

@INPROCEEDINGS{Schoeneman2019,
  author          = {Schoeneman, F. and Zola, J.},
  title           = {Solving All-Pairs Shortest-Paths Problem in Large Graphs
                  Using Apache Spark},
  booktitle       = {International Conference on Parallel Processing (ICPP)},
  year            = 2019,
  doi             = {10.1145/3337821.3337852},
  archivePrefix   = {arXiv},
  eprint          = {1902.04446},
  primaryClass    = {cs.DC}
}

@MISC{Zola2018,
  author          = {Zola, J. and Fillmore, N. and Samudrala, R. and Mushi,
                  N. and Brophy, M. and Do, N.},
  title           = {Bayesian Network Model of Multiple Myeloma Patients Based
                  on Pharmaceutical Records},
  year            = 2018,
  note            = {Extended Abstract, 30th Anniversary AACR Conference on
                  Convergence: Artificial Intelligence, Big Data, and
                  Prediction in Cancer}
}

@ARTICLE{Du2018,
  author          = {Du, P. and Zebrowski, A. and Zola, J. and
                  Ganapathysubramanian, B. and Wodo, O.},
  title           = {Microstructure Design Using Graphs},
  journal         = {Nature Computational Materials},
  volume          = 4,
  number          = 50,
  year            = 2018,
  doi             = {10.1038/s41524-018-0108-5}
}

@MISC{Blanton2018,
  author          = {Blanton, M. and Kang, A.R. and Karan, S. and Zola, J.},
  title           = {Privacy Preserving Analytics on Distributed Medical Data},
  year            = 2018,
  archivePrefix   = {arXiv},
  eprint          = {1806.06477},
  primaryClass    = {cs-CR}
}

@INPROCEEDINGS{Karan2018,
  author          = {Karan, S. and Eichhorn, M. and Hurlburt, B. and Iraci,
                  G. and Zola, J.},
  title           = {Fast Counting in Machine Learning Applications},
  booktitle       = {Uncertainty in Artificial Intelligence (UAI)},
  year            = 2018,
  archivePrefix   = {arXiv},
  eprint          = {1804.04640},
  primaryClass    = {stat-ML}
}

@INPROCEEDINGS{Schoeneman2018a,
  author          = {Schoeneman, F. and Chandola, V. and Napp, N. and Wodo,
                  O. and Zola, J.},
  title           = {Entropy-Isomap: Manifold Learning for High-dimensional
                  Dynamic Processes},
  booktitle       = {IEEE International Conference on Big Data (IEEE BigData)},
  pages           = {1655–1660},
  year            = 2018,
  doi             = {10.1109/BigData.2018.8622454},
  archivePrefix   = {arXiv},
  eprint          = {1802.06823},
  primaryClass    = {stat-ML}
}

@INPROCEEDINGS{Schoeneman2018b,
  author          = {Schoeneman, F. and Zola, J.},
  title           = {Scalable Manifold Learning for Big Data with Apache Spark},
  booktitle       = {IEEE International Conference on Big Data (IEEE BigData)},
  pages           = {272-281},
  year            = 2018,
  doi             = {10.1109/BigData.2018.8622617},
  archivePrefix   = {arXiv},
  eprint          = {1802.06823},
  primaryClass    = {cs.DC, cs.LG}
}

@INPROCEEDINGS{Ko2018,
  author          = {Ko, S. and Sassoubre, L. and Zola, J.},
  title           = {Applications and Challenges of Real-time Mobile DNA
                  Analysis},
  booktitle       = {International Workshop on Mobile Computing Systems and
                  Applications (HotMobile)},
  pages           = {1-6},
  year            = 2018,
  doi             = {10.1145/3177102.3177114},
  archivePrefix   = {arXiv},
  eprint          = {1711.07370},
  primaryClass    = {cs-CE}
}

@INPROCEEDINGS{Karan2017,
  author          = {Karan, S. and Zola, J.},
  title           = {Scalable Exact Parent Sets Identification in Bayesian
                  Networks Learning with Apache Spark},
  booktitle       = {IEEE International Conference on High Performance
                  Computing, Data, and Analytics (HiPC)},
  pages           = {33-41},
  year            = 2017,
  doi             = {10.1109/HiPC.2017.00014},
  archivePrefix   = {arXiv},
  eprint          = {1705.06390},
  primaryClass    = {cs-AI}
}

@INPROCEEDINGS{Schoeneman2017,
  author          = {Schoeneman, F. and Mahapatra, S. and Chandola, V. and
                  Napp, N. and Zola, J.},
  title           = {Error Metrics for Learning Reliable Manifolds from
                  Streaming Data},
  booktitle       = {SIAM International Conference on Data Mining (SDM)},
  pages           = {750-758},
  year            = 2017,
  archivePrefix   = {arXiv},
  eprint          = {1611.04067},
  primaryClass    = {stat-ML}
}

@INPROCEEDINGS{Karan2016,
  author          = {Karan, S. and Zola, J.},
  title           = {Exact Structure Learning of Bayesian Networks by Optimal
                  Path Extension},
  booktitle       = {IEEE International Conference on Big Data (IEEE BigData)},
  pages           = {48-55},
  year            = 2016,
  doi             = {10.1109/BigData.2016.7840588},
  archivePrefix   = {arXiv},
  eprint          = {1608.02682},
  primaryClass    = {cs-AI}
}

@ARTICLE{Wodo2015,
  author          = {Wodo, O. and Zola, J. and Pokuri, B.S.S. and Du, P. and
                  Ganapathysubramanian, B.},
  title           = {Automated, High Throughput Exploration of
                  Process-structure-property Relationships Using the MapReduce
                  Paradigm},
  journal         = {Materials Discovery},
  year            = 2015,
  volume          = 1,
  pages           = {21--28},
  doi             = {10.1016/j.md.2015.12.001}
}

@ARTICLE{Clauvelin2015,
  author          = {Clauvelin, N. and Lo, P. and Kulaeva, O.I. and Nizovtseva,
                  E.V. and Diaz-Montes, J. and Zola, J. and Parashar, M. and
                  Studitsky, V.M. and Olson, W.K.},
  title           = {Nucleosome Positioning and Composition Modulate In Silico
                  Chromatin Flexibility},
  journal         = {Journal of Physics: Condensed Matter},
  year            = 2015,
  volume          = 27,
  number          = 6,
  pages           = 064112,
  doi             = {10.1088/0953-8984/27/6/064112}
}

@ARTICLE{Samudrala2015,
  author          = {Samudrala, S.K. and Zola, J. and Aluru, S. and
                  Ganapathysubramanian, B.},
  title           = {Parallel Framework for Dimensionality Reduction of
                  Large-Scale Datasets},
  journal         = {Scientific Programming},
  year            = 2015,
  doi             = {10.1155/2015/180214}
}