Minnesota Supercomputing Institute

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    117 Pleasant St. SE, 599 Walter Library

    55455 Minneapolis

    United States

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  • 2020

    Hadoop-CNV-RF: A scalable copy number variation detection tool for next-generation sequencing data

    Onsongo, G., Lam, H. C., Bower, M. & Thyagarajan, B., Sep 21 2020, Proceedings of the 11th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, BCB 2020. Association for Computing Machinery, Inc, (Proceedings of the 11th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, BCB 2020).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Hybrid method of moments to predict nanoparticle nucleation, growth and charging in dusty plasmas

    Narayanan, S. R., Yang, S. & Girshick, S. L., 2020, AIAA Scitech 2020 Forum. American Institute of Aeronautics and Astronautics Inc, AIAA, (AIAA Scitech 2020 Forum; vol. 1 PartF).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    1 Scopus citations
  • 2019

    A comprehensive campus-based approach to address the opportunities and challenges posed by data intensive research

    Wilgenbusch, J. C., Bates, C., Johnston, L., Baller, J. A., Bollig, E. & Neuhauser, C., Jul 28 2019, Proceedings of the Practice and Experience in Advanced Research Computing: Rise of the Machines (Learning), PEARC 2019. Association for Computing Machinery, 3333162. (ACM International Conference Proceeding Series).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access

  • A multi-environment HPC-scale puppet infrastructure for compliance and systems automation

    Benson, R. M., Munsell, E., Bertrand, N., Baynton, M., Bollig, E. F. & McDonald, J., Jul 28 2019, Proceedings of the Practice and Experience in Advanced Research Computing: Rise of the Machines (Learning), PEARC 2019. Association for Computing Machinery, 3332240. (ACM International Conference Proceeding Series).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    2 Scopus citations

  • Analyzing domain knowledge for big data analysis: A case study with urban tree type classification

    Detor, S., Roh, A., Xie, Y. & Shekhar, S., 2019, Big Data Analytics - 7th International Conference, BDA 2019, Proceedings. Madria, S., Fournier-Viger, P., Chaudhary, S. & Reddy, P. K. (eds.). Springer, p. 176-192 17 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 11932 LNCS).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • ChURP: A lightweight CLI framework to enable novice users to analyze sequencing datasets in parallel

    Baller, J., Kono, T., Herman, A. & Zhang, Y., Jul 28 2019, Proceedings of the Practice and Experience in Advanced Research Computing: Rise of the Machines (Learning), PEARC 2019. Association for Computing Machinery, 3333156. (ACM International Conference Proceeding Series).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    25 Scopus citations

  • Enhancement of film cooling effectiveness using Dean vortices

    Chen, P., Wang, L., Li, X., Ren, J., Jiang, H. & Simon, T., 2019, Heat Transfer. American Society of Mechanical Engineers (ASME), (Proceedings of the ASME Turbo Expo; vol. 5A-2019).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Leveraging public cloud services for clia-certified personalized medicine pipelines

    Bollig, E. F., Henzler, C., Lam, H. C., Munro, S. A., LaRue, R., Onsongo, G., Yohe, S., Nelson, A. C., Bower, M., Schomaker, M. & Thyagarajan, B., Jul 28 2019, Proceedings of the Practice and Experience in Advanced Research Computing: Rise of the Machines (Learning), PEARC 2019. Association for Computing Machinery, 3332244. (ACM International Conference Proceeding Series).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    1 Scopus citations

  • Personalized difusions for top-n recommendation

    Nikolakopoulos, A. N., Berberidis, D., Karypis, G. & Giannakis, G. B., Sep 10 2019, RecSys 2019 - 13th ACM Conference on Recommender Systems. Association for Computing Machinery, Inc, p. 260-268 9 p. (RecSys 2019 - 13th ACM Conference on Recommender Systems).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    14 Scopus citations

  • Recurrent generative networks for multi-resolution satellite data: An application in cropland monitoring

    Jia, X., Wang, M., Khandelwal, A., Karpatne, A. & Kumar, V., 2019, Proceedings of the 28th International Joint Conference on Artificial Intelligence, IJCAI 2019. Kraus, S. (ed.). International Joint Conferences on Artificial Intelligence, p. 2628-2634 7 p. (IJCAI International Joint Conference on Artificial Intelligence; vol. 2019-August).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    6 Scopus citations
  • 2018

    Leveraging openstack and ceph for a controlled-access data cloud

    Bollig, E. F., Huerta, Y. A., Allan, G. T., Mix, M., Lynch, B. J., Munsell, E. A., Benson, R. M. & Swartz, B., Jul 22 2018, Practice and Experience in Advanced Research Computing 2018: Seamless Creativity, PEARC 2018. Association for Computing Machinery, a18. (ACM International Conference Proceeding Series).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    1 Scopus citations

  • Temperature calibration of the E and B experiment

    Aubin, F., Aboobaker, A. M., Bao, C., Geach, C., Hanany, S., Jones, T., Klein, J., Milligan, M., Raach, K., Young, K., Zilic, K., Helson, K., Korotkov, A., Marchenko, V., Tucker, G. S., Ade, P., Pascale, E., Araujo, D., Chapman, D. & Didier, J. & 23 others, Hillbrand, S., Johnson, B., Limon, M., Miller, A. D., Reichborn-Kjennerud, B., Feeney, S., Jaffe, A., Stompor, R., Tristram, M., Dobbs, M., Macdermid, K., Smecher, G., Borrill, J., Kisner, T., Hilton, G., Hubmayr, J., Reintsema, C., Baccigalupi, C., Puglisi, G., Lee, A., Westbrook, B., Levinson, L. & Sagiv, I., 2018, 14th Marcel Grossman Meeting On Recent Developments in Theoretical and Experimental General Relativity, Astrophysics and Relativistic Field Theories, Proceedings. Bianchi, M., Jantzen, R. T., Ruffini, R. & Ruffini, R. (eds.). World Scientific Publishing Co. Pte Ltd, p. 2084-2089 6 p. (14th Marcel Grossman Meeting On Recent Developments in Theoretical and Experimental General Relativity, Astrophysics and Relativistic Field Theories, Proceedings).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    1 Scopus citations
  • 2017

    A platform for computationally advanced collaborative agroinformatics data discovery and analysis

    Gustafson, A., Erdmann, J., Milligan, M., Onsongo, G., Pardey, P., Prather, T., Silverstein, K., Wilgenbusch, J. & Zhang, Y., Jul 9 2017, PEARC 2017 - Practice and Experience in Advanced Research Computing 2017: Sustainability, Success and Impact. Association for Computing Machinery, a2. (ACM International Conference Proceeding Series; vol. Part F128771).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    5 Scopus citations

  • Interactive HPC gateways with jupyter and jupyterhub

    Milligan, M., Jul 9 2017, PEARC 2017 - Practice and Experience in Advanced Research Computing 2017: Sustainability, Success and Impact. Association for Computing Machinery, a63. (ACM International Conference Proceeding Series; vol. Part F128771).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    9 Scopus citations

  • Managing dbGaP data with stratus, a research cloud for protected data

    Bollig, E. F., Allan, G. T., Lynch, B. J., Huerta, Y., Mix, M., Swartz, B., Munsell, E. A., Leibfried, J. & Hospodarsky, N., Jul 9 2017, PEARC 2017 - Practice and Experience in Advanced Research Computing 2017: Sustainability, Success and Impact. Association for Computing Machinery, a65. (ACM International Conference Proceeding Series; vol. Part F128771).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    2 Scopus citations
  • 2016

    Semi-Markov switching vector autoregressive model-based anomaly detection in aviation systems

    Melnyk, I., Banerjee, A., Matthews, B. & Oza, N., Aug 13 2016, KDD 2016 - Proceedings of the 22nd ACM SIGKDD International Conference on Knowledge Discovery and Data Mining. Association for Computing Machinery, p. 1065-1074 10 p. (Proceedings of the ACM SIGKDD International Conference on Knowledge Discovery and Data Mining; vol. 13-17-August-2016).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    42 Scopus citations
  • 2014

    High throughput genetic sequence analysis

    Lam, H. C., Cunningham, S., Sreevatsan, S. & Boley, D., 2014, Proceedings of the 11th ACM Conference on Computing Frontiers, CF 2014. Association for Computing Machinery, 28. (Proceedings of the 11th ACM Conference on Computing Frontiers, CF 2014).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • The performance of the bolometer array and readout system during the 2012/2013 flight of the e and B experiment (EBEX)

    MacDermid, K., Aboobaker, A. M., Ade, P., Aubin, F., Baccigalupi, C., Bandura, K., Bao, C., Borrill, J., Chapman, D., Didier, J., Dobbs, M., Grain, J., Grainger, W., Hanany, S., Helson, K., Hillbrand, S., Hilton, G., Hubmayr, H., Irwin, K. & Johnson, B. & 21 others, Jaffe, A., Jones, T., Kisner, T., Klein, J., Korotkov, A., Lee, A., Levinson, L., Limon, M., Miller, A., Milligan, M., Pascale, E., Raach, K., Reichborn-Kjennerud, B., Reintsema, C., Sagiv, I., Smecher, G., Stompor, R., Tristram, M., Tucker, G., Westbrook, B. & Zilic, K., 2014, Millimeter, Submillimeter, and Far-Infrared Detectors and Instrumentation for Astronomy VII. Zmuidzinas, J. & Holland, W. S. (eds.). SPIE, 915311. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 9153).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    15 Scopus citations
  • 2012

    The EBEX cryostat and supporting electronics

    Sagiv, I., Aboobaker, A. M., Bao, C., Hanany, S., Jones, T., Klein, J., Milligan, M., Polsgrove, D. E., Raach, K., Zilic, K., Korotkov, A., Tucker, G. S., Vinokurov, Y., Matsumura, T., Ade, P., Grainger, W., Pascale, E., Chapman, D., Didier, J. & Hillbrand, S. & 24 others, Reichborn-Kjennerud, B., Limon, M., Miller, A., Jaffe, A., Yadav, A., Zaldarriaga, M., Ponthieu, N., Tristram, M., Borrill, J., Cantalupo, C., Kisner, T., Aubin, F., Dobbs, M., Macdermid, K., Hilton, G., Hubmayr, J., Irwin, K., Reintsema, C., Baccigalupi, C., Leach, S., Johnson, B., Lee, A., Tran, H. & Levinson, L., 2012, 12th Marcel Grossmann Meeting on Recent Dev. in Theoretical and Experimental General Relativity, Astrophysics and Relativistic Field Theories - Proc. of the MG 2009 Meeting on General Relativity. World Scientific Publishing Co. Pte Ltd, p. 2166-2176 11 p. (12th Marcel Grossmann Meeting on Recent Dev. in Theoretical and Experimental General Relativity, Astrophysics and Relativistic Field Theories - Proc. of the MG 2009 Meeting on General Relativity).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    5 Scopus citations
  • 2011

    A cryogenic half-wave plate polarimeter using a superconducting magnetic bearing

    Klein, J., Aboobaker, A., Ade, P., Aubin, F., Baccigalupi, C., Bao, C., Borrill, J., Chapman, D., Didier, J., Dobbs, M., Gold, B., Grainger, W., Hanany, S., Hubmayr, J., Hillbrand, S., Grain, J., Jaffe, A., Johnson, B., Jones, T. & Kisner, T. & 22 others, Korotkov, A., Leach, S., Lee, A., Levinson, L., Limon, M., MacDermid, K., Matsumura, T., Miller, A., Milligan, M., Pascale, E., Polsgrove, D., Ponthieu, N., Raach, K., Reichborn-Kjennerud, B., Sagiv, I., Stompor, R., Tran, H., Ram, M. T., Tucker, G. S., Yadav, A., Zaldarriaga, M. & Zilie, K., 2011, Cryogenic Optical Systems and Instruments XIII. SPIE, 815004. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 8150).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    23 Scopus citations

  • Ensuring reliability, reproducibility and transferability in atomistic simulations: The knowledgebase of interatomic models (openKIM. org)

    Tadmor, E. B., Elliott, R. S., Sethna, J. P., Miller, R. E., Becker, C. A., Smirichinski, V. & Wennblom, T. J., 2011, Engineering Sciences and Fundamentals - Core Programming Topic at the 2011 AIChE Annual Meeting. AIChE, p. 503 1 p. (Engineering Sciences and Fundamentals - Core Programming Topic at the 2011 AIChE Annual Meeting; vol. 1).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • 2010

    EBEX: A balloon-borne CMB polarization experiment

    Reichborn-Kjennerud, B., Aboobaker, A. M., Ade, P., Aubin, F., Baccigalupi, C., Bao, C., Borrill, J., Cantalupo, C., Chapman, D., Didier, J., Dobbs, M., Grain, J., Grainger, W., Hanany, S., Hillbrand, S., Hubmayr, J., Jaffe, A., Johnson, B., Jones, T. & Kisner, T. & 26 others, Klein, J., Korotkov, A., Leach, S., Lee, A., Levinson, L., Limon, M., MacDermid, K., Matsumura, T., Meng, X., Miller, A., Milligan, M., Pascale, E., Polsgrove, D., Ponthieu, N., Raach, K., Sagiv, I., Smecher, G., Stivoli, F., Stompor, R., Tran, H., Tristram, M., Tucker, G. S., Vinokurov, Y., Yadav, A., Zaldarriaga, M. & Zilic, K., 2010, Millimeter, Submillimeter, and Far-Infrared Detectors and Instrumentation for Astronomy V. SPIE, 77411C. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 7741).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    98 Scopus citations

  • First implementation of TES bolometer arrays with SQUID-based multiplexed readout on a balloon-borne platform

    Aubin, F., Aboobaker, A. M., Ade, P., Baccigalupi, C., Bao, C., Borrill, J., Cantalupo, C., Chapman, D., Didier, J., Dobbs, M., Grainger, W., Hanany, S., Hubmayr, J., Hyland, P., Hillbrand, S., Jaffe, A., Johnson, B., Jones, T., Kisner, T. & Klein, J. & 21 others, Korotkov, A., Leach, S., Lee, A., Limon, M., MacDermid, K., Matsumura, T., Meng, X., Miller, A., Milligan, M., Polsgrove, D., Ponthieu, N., Raach, K., Reichborn-Kjennerud, B., Sagiv, I., Smecher, G., Tran, H., Tucker, G. S., Vinokurov, Y., Yadav, A., Zaldarriaga, M. & Zilic, K., 2010, Millimeter, Submillimeter, and Far-Infrared Detectors and Instrumentation for Astronomy V. 77411T. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 7741).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    9 Scopus citations

  • Software systems for operation, control, and monitoring of the EBEX instrument

    Milligan, M., Ade, P., Aubin, F., Baccigalupi, C., Bao, C., Borrill, J., Cantalupo, C., Chapman, D., Didier, J., Dobbs, M., Grainger, W., Hanany, S., Hillbrand, S., Hubmayr, J., Hyland, P., Jaffe, A., Johnson, B., Kisner, T., Klein, J. & Korotkov, A. & 19 others, Leach, S., Lee, A., Levinson, L., Limon, M., MacDermid, K., Matsumura, T., Miller, A., Pascale, E., Polsgrove, D., Ponthieu, N., Raach, K., Reichborn-Kjennerud, B., Sagiv, I., Tran, H., Tucker, G. S., Vinokurov, Y., Yadav, A., Zaldarriaga, M. & Zilic, K., 2010, Software and Cyberinfrastructure for Astronomy. PART 1 ed. 774007. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 7740, no. PART 1).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    6 Scopus citations
  • 2009

    Narrow angle tail radio galaxies as ICM interaction probes

    Porter, D. H., Mendygral, P. J. & Jones, T. W., 2009, Monster's Fiery Breath: Feedback in Galaxies, Groups, and Clusters - Proceedings of the International Conference. p. 259-262 4 p. (AIP Conference Proceedings; vol. 1201).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    5 Scopus citations
  • 2008

    EBEX - The e and B experiment

    Grainger, W., Aboobaker, A. M., Ade, P., Aubin, F., Baccigalupi, C., Bissonnette, E., Borrilla, J., Dobbs, M., Hanany, S., Hogen-Chin, C., Hubmayr, J., Jaffe, A., Johnson, B., Jones, T., Klein, J., Korotkov, A., Leach, S., Lee, A., Levinson, L. & Limon, M. & 19 others, Macaluso, J., MacDermid, K., Matsumura, T., Meng, X., Miller, A., Milligan, M., Pascale, E., Polsgrove, D., Ponthieu, N., Reichborn-Kjennerud, B., Renbarger, T., Sagiv, I., Stivoli, F., Stompor, R., Tran, H., Tucker, G., Vinokurov, J., Zaldarriaga, M. & Zilic, K., 2008, Millimeter and Submillimeter Detectors and Instrumentation for Astronomy IV. SPIE, 70202N. (Proceedings of SPIE - The International Society for Optical Engineering; vol. 7020).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    16 Scopus citations

  • Nuclear burning and mixing in the first stars: Entrainment at a convective boundary using the PPB advection scheme

    Woodward, P. R., Herwig, F., Porter, D. H., Fuchs, T., Nowatzki, A. & Pignatari, M., 2008, First Stars III. p. 300-308 9 p. (AIP Conference Proceedings; vol. 990).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    Open Access
    18 Scopus citations
  • 2007

    Interactive volume visualization of fluid flow simulation data

    Woodward, P. R., Porter, D. H., Greensky, J., Larson, A. J., Knox, M., Hanson, J., Ravindran, N. & Fuchs, T., 2007, Applied Parallel Computing: State of the Art in Scientific Computing - 8th International Workshop, PARA 2006, Revised Selected Papers. Springer Verlag, p. 659-664 6 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 4699 LNCS).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    4 Scopus citations

  • Multilevel methods for thermochemistry and thermochemical kinetics

    Lynch, B. J. & Truhla, D. G., 2007, Electron Correlation Methodology. Wilson, A. & Peterson, K. (eds.). p. 153-167 15 p. (ACS Symposium Series; vol. 958).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    9 Scopus citations
  • 2005

    A system for interactive volume visualization on the powerwall

    Woodward, P. R., Porter, D. H., Knox, M. R., Andringa, S. T., Larson, A. J. & Stender, A., 2005, VIS 05: IEEE Visualization 2005, Proceedings. p. 110 1 p. 1566092. (Proceedings of the IEEE Visualization Conference).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    1 Scopus citations

  • High dynamic range volume visualization

    Yuan, X., Nguyen, M. X., Chen, B. & Porter, D. H., 2005, VIS 05: IEEE Visualization 2005, Proceedings. p. 42 1 p. 1566024. (Proceedings of the IEEE Visualization Conference).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    15 Scopus citations
  • 1999

    Very high resolution simulation of compressible turbulence on the IBM-SP system

    Mirin, A. A., Cohen, R. H., Curtis, B. C., Dannevik, W. P., Dimits, A. M., Duchauneau, M. A., Eliason, D. E., Schikore, D. R., Anderson, S. E., Porter, D. H., Woodward, P. R., Shieh, L. J. & White, S. W., 1999, ACM/IEEE SC 1999 Conference, SC 1999. Institute of Electrical and Electronics Engineers Inc., p. 69 1 p. 1592712. (ACM/IEEE SC 1999 Conference, SC 1999).

    Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

    43 Scopus citations