Harsh Bhatia

Harsh Bhatia

Computer Scientist
Center for Applied Scientific Computing, Lawrence Livermore National Laboratory

hbhatia at llnl dot gov  |    View Harsh Bhatia's Google Scholar profile View Harsh Bhatia's LinkedIn profile View Harsh Bhatia's ResearchGate profile

Lawrence Livermore National Laboratory, P.O. Box 808, L-478, Livermore, CA - 94551

Under Review / Arxived

  1. Machine Learning-driven Multiscale Modeling: Bridging the scales with a next generation simulation infrastructure
    Helgi I. Ingólfsson, Harsh Bhatia et al.

  2. Single Particle Tracking with Compressive Sensing using Progressive Refinement Method on Sparse Recovery (SPT-PRIS)
    Xiyu Yi, Rebika Shrestha, Torin McDonald, De Chen, Harsh Bhatia, Valerio Pasucci, Thomas J Turbyville, and Peer-Timo Bremer.
    BioArxiv, 2022. doi:10.1101/2022.05.13.491828v1.

Articles

  1. The Confluence of Machine Learning and Multiscale Simulations
    Harsh Bhatia, Fikret Aydin, Timothy S. Carpenter, Felice C. Lightstone, Peer-Timo Bremer, Helgi I. Ingólfsson, Dwight V. Nissley, and Frederick H. Streitz.
    Current Opinions in Structural Biology vol. 80, Jun 2023. doi:10.1016/j.sbi.2023.102569.

  2. Progressive Tree-Based Compression of Large-Scale Particle Data
    Duong Hoang, Harsh Bhatia, Peter Lindstrom, and Valerio Pascucci.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), Mar 2023. doi:10.1109/TVCG.2023.3260628.

  3. Data-driven Model for Divertor Plasma Detachment Prediction
    Ben Zhu, Menglong Zhao, Harsh Bhatia, Xue-qiao Xu, Peer-Timo Bremer, William Meyer, Nami Li, and Thomas Rognlien.
    Journal of Plasma Physics vol. 88, number 5, article: 895880504, Oct 2022. doi:10.1017/S002237782200085X.

  4. A Biology-Informed Similarity Metric for Simulated Patches of Human Cell Membrane
    Harsh Bhatia, Jayaraman J. Thiagarajan, Rushil Anirudh, T.S. Jayram, Tomas Oppelstrup, Helgi I. Ingolfsson, Felice C Lightstone, and Peer-Timo Bremer.
    Machine Learning: Science and Technology, vol. 3, number 3, pp. 035010, Aug 2022. doi:10.1088/2632-2153/ac8523.

  5. Asynchronous Reciprocal Coupling of Martini 2.2 Coarse-Grained and CHARMM36 All-Atom Simulations in an Automated Multiscale Framework
    Cesar A. López, Xiaohua Zhang, Fikret Aydin, Rebika Shrestha, Que N. Van, Christopher B. Stanley, Timothy S. Carpenter, Kien Nguyen, Lara A. Patel, De Chen, Violetta Burns, Nicolas W. Hengartner, Tyler J.E. Reddy, Harsh Bhatia, Francesco Di Natale, Timothy H. Tran, Albert H. Chan, Dhirendra K. Simanshu, Dwight V. Nissley, Frederick H. Streitz, Andrew G. Stephen, Thomas J. Turbyville, Felice C. Lightstone, Sandrasegaram Gnanakaran, Helgi I. Ingólfsson, Chris Neale.
    Journal of Computational and Theoretical Chemistry vol. 18, issue 8, pp. 5025–5045, Jul 2022. doi:10.1021/acs.jctc.2c00168.

  6. Exploring CRD Mobility during RAS/RAF Engagement at the Membrane
    Kien Nguyen, Cesar A. López, Chris Neale, Que N. Van, Timothy S. Carpenter, Francesco Di Natale, Timothy Travers, Timothy H. Tran, Albert H. Chan, Harsh Bhatia, Peter H. Frank, Marco Tonelli, Xiaohua Zhang, Gulcin Gulten, Tyler Reddy, Violetta Burns, Tomas Oppelstrup, Nick Hengartner, Dhirendra K. Simanshu, Peer-Timo Bremer, De Chen, James N. Glosli, Rebika Shrestha, Thomas Turbyville, Frederick H. Streitz, Dwight V. Nissley, Helgi I. Ingólfsson, Andrew G. Stephen, Felice C. Lightstone, and S Gnanakaran.
    Biophysics Journal In Press, Jun 2022. doi:10.1016/j.bpj.2022.06.035.

  7. AMM: Adaptive Multilinear Meshes
    Harsh Bhatia, Duong Hoang, Nate Morrical, Valerio Pascucci, Peer-Timo Bremer, and Peter Lindstrom.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), vol. 28, issue 6, pp. 2350–3363, Jun 2022. doi:10.1109/TVCG.2022.3165392.
        Best Paper Award at IEEE Pacific Visualization Symposium.

  8. Machine Learning-driven Multiscale Modeling Reveals Lipid-Dependent Dynamics of RAS Signaling Protein
    Helgi Ingolfsson, Chris Neale, Timothy Carpenter, Rebika Shrestha, Cesar Lopez, Timothy Tran, Tomas Oppelstrup, Harsh Bhatia, Liam Stanton, Xiaohua Zhang, Shiv Sundram, Francesco Di Natale, Animesh Agarwal, Gautham Dharuman, Sara Kokkila Schumacher, Thomas Turbyville, Gulcin Gulten, Que Van, Debanjan Goswami, Frantz Jean-Francios, Constance Agamasu, De Chen, Jeevapani Hettige, Timothy Travers, Sumantra Sarkar, Michael Surh, Yue Yang, Adam Moody, Shusen Liu, Brian Van Essen, Arthur Voter, Arvind Ramanathan, Nicolas Hengartner, Dhirendra Simanshu, Andrew Stephen, Peer-Timo Bremer, S Gnanakaran, James Glosli, Felice Lightstone, Frank McCormick, Dwight Nissley, and Frederick Streitz.
    Proceedings of National Academy of Sciences (PNAS)/ vol. 119, issue 1, number e2113297119. 2022. doi:10.1073/pnas.2113297119.

  9. Scalable Comparative Visualization of Ensembles of Call Graphs
    Suraj P. Kesavan, Harsh Bhatia, Abhinav Bhatele, Stephanie Brink, Olga Pearce, Todd Gamblin, Peer-Timo Bremer, and Kwan-Liu Ma.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), preprint, 2021. doi:10.1109/TVCG.2021.3129414.

  10. Vector Field Decompositions using Multiscale Poisson Kernel
    Harsh Bhatia, Robert M. Kirby, Valerio Pascucci, and Peer-Timo Bremer.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), vol. 27, issue 9, pp. 3781–3793, Sep 2021. doi:10.1109/TVCG.2020.2984413.

  11. Leveraging Topological Events in Tracking Graphs for Understanding Particle Diffusion
    Torin McDonald, Rebika Shrestha, Xiyu Yi, Harsh Bhatia, De Chen, Debanjan Goswami, Valerio Pasucci, Thomas J Turbyville, and Peer-Timo Bremer.
    Computer Graphics Forum (Proceedings of EuroVis), vol. 40, issue 3, pp. 251–262, June 2021. doi:10.1111/cgf.14304.

  12. Machine Learning Based Dynamic-Importance Sampling for Adaptive Multiscale Simulations
    Harsh Bhatia, Timothy S. Carpenter, Helgi I. Ingólfsson, Gautham Dharuman, Piyush Karande, Shusen Liu, Tomas Oppelstrup, Chris Neale, Felice C. Lightstone, Brian Van Essen, James N. Glosli, and Peer-Timo Bremer.
    Nature Machine Intelligence, vol. 3, pp. 401–409, May 2021. doi:10.1038/s42256-021-00327-w.

  13. Visualizing Hierarchical Performance Profiles of Parallel Codes using CallFlow
    Huu Tan Nguyen, Abhinav Bhatele, Nikhil Jain, Suraj Kesavan, Harsh Bhatia, Todd Gamblin, Kwan-Liu Ma, and Peer-Timo Bremer.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), vol. 27, issue 4, pp. 2455–2468, Apr 2021. doi:10.1109/TVCG.2019.2953746.

  14. Efficient and Flexible Hierarchical Data Layouts for a Unified Encoding of Scalar Field Precision and Resolution
    Duong Hoang, Brian Summa, Harsh Bhatia, Peter Lindstrom, Pavol Klacansky, Will Usher, Peer-Timo Bremer, and Valerio Pascucci.
    IEEE Transactions on Visualization and Computer Graphics (TVCG) (Proc. of IEEE VIS), vol. 27, issue 2, pp. 603–613, Feb 2021. doi:10.1109/TVCG.2020.3030381.

  15. Capturing Biologically Complex Tissue-Specific Membranes at Different Levels of Compositional Complexity
    Helgi I Ingólfsson, Harsh Bhatia, Talia Zeppelin, W.F. Drew Bennett, Kristy Carpenter, Pin-Chia Hsu, Gautham Dharuman, Peer-Timo Bremer, Birgit Schiøtt, Felice Lightstone, and Timothy Carpenter.
    The Journal of Physical Chemistry B: Biophysics, Biomaterials, Liquids, Soft Matter, vol. 124, issue 36, pp. 7819–7829, Aug 2020. doi:10.1021/acs.jpcb.0c03368.

  16. Scalable Topological Data Analysis and Visualization for Evaluating Data-Driven Models in Scientific Applications
    Shusen Liu, Di Wang, Dan Maljovec, Rushil Anirudh, Jayaraman J. Thiagarajan, Sam Ade Jacobs, Brian C. Van Essen, David Hysom, Jae-Seung Yeom, Jim Gaffney, Luc Peterson, Peter B. Robinson, Harsh Bhatia, Valerio Pascucci, Brian K. Spears, and Peer-Timo Bremer.
    IEEE Transactions on Visualization and Computer Graphics (TVCG) (Proc. of IEEE VIS), vol. 26, issue 1, pp. 291–300, Jan. 2020. doi:10.1109/TVCG.2019.2934594.

  17. MemSurfer: A Tool for Robust Computation and Characterization of Curved Membranes
    Harsh Bhatia, Helgi I Ingólfsson, Timothy S Carpenter, Felice C Lightstone, and Peer-Timo Bremer.
    Journal of Chemtical Theory and Computation, vol. 15, issue 11, pp 6411–6421, November 2019. doi:10.1021/acs.jctc.9b00453.

  18. A Study of the Trade-off between Reducing Precision and Reducing Resolution for Data Analysis and Visualization
    Duong Hoang, Pavol Klacansky, Harsh Bhatia, Peer-Timo Bremer, Peter Lindstrom, and Valerio Pascucci.
    IEEE Transactions on Visualization and Computer Graphics (TVCG) (Proc. of IEEE VIS), vol. 25, issue 1, pp 1193–1203, August 2018. doi:10.1109/TVCG.2018.2864853.

  19. Interactive Investigation of Traffic Congestion on Fat-Tree Networks Using TreeScope
    Harsh Bhatia, Nikhil Jain, Abhinav Bhatele, Yarden Livnat, Jens Domke, Valerio Pascucci, and Peer-Timo Bremer.
    Computer Graphics Forum (Proceedings of EuroVis), vol. 33, issue 3, pp. 561–572, June 2018. doi:10.1111/cgf.13442.

  20. TopoMS: Comprehensive Topological Exploration for Molecular and Condensed-Matter Systems
    Harsh Bhatia, Attila G. Gyulassy, Vincenzo Lordi, John E. Pask, Valerio Pascucci, and Peer-Timo Bremer.
    Journal of Computational Chemistry, vol. 39, issue 16, pp 936–952, June 2018. doi:10.1002/jcc.25181.
        Appeared as the cover image of Journal of Computational Chemistry.

  21. Computational Lipidomics of the Neuronal Plasma Membrane
    Helgi I. Ingólfsson, Timothy S. Carpenter, Harsh Bhatia, Peer-Timo Bremer, Siewert J. Marrink, and Felice C. Lightstone.
    Biophysical Journal, vol. 113, issue 10, pp 2271–2280, November 2017. doi:10.1016/j.bpj.2017.10.017.
        Appeared as the cover image of Biophysics Journal, and appeared in the Best of 2017 collection.

  22. Complex Ion Dynamics in Carbonate Lithium-Ion Battery Electrolytes
    Mitchell T. Ong, Harsh Bhatia, Attila G. Gyulassy, Erik W. Draeger, Valerio Pascucci, Peer-Timo Bremer, Vincenzo Lordi, and John E. Pask.
    The Journal of Physical Chemistry C, vol. 121, no. 12, pp 6589–6595, March 2017. doi:10.1021/acs.jpcc.7b02006.

  23. Enabling Discovery Through Visual Exploration: An Introduction to Data Visualization & Its Applications
    Harsh Bhatia.
    ACM SIGCAS Computer Society, vol. 46, no. 3, Nov. 2016. doi:10.1145/3024949.3024952.

  24. Critical Point Cancellation in 3D Vector Fields: Robustness and Discussion
    Primoz Skraba, Paul Rosen, Bei Wang, Guoning Chen, Harsh Bhatia, and Valerio Pascucci.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), vol. 22, no. 6, pp. 1683–1693, Jun. 2016. doi:10.1109/TVCG.2016.2534538.
        Won the Best Paper Award at IEEE Pacific Visualization Symposium, 2016.

  25. Local, Smooth, and Consistent Jacobi Set Simplification.
    Harsh Bhatia, Bei Wang, Gregory Norgard, Valerio Pascucci, and Peer-Timo Bremer
    Computational Geometry — Theory and Applications, vol. 48, issue 5, pp. 311–332, May 2015. doi:10.1016/j.comgeo.2014.10.009.

  26. The Natural Helmholtz-Hodge Decomposition for Open-Boundary Flow Analysis
    Harsh Bhatia, Valerio Pascucci, and Peer-Timo Bremer.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), vol. 20, no. 11, pp. 1566–1578, Nov. 2014. doi:10.1109/TVCG.2014.2312012.

  27. Extracting Features from Time-Dependent Vector Fields Using Internal Reference Frames
    Harsh Bhatia, Valerio Pascucci, Robert M. Kirby, and Peer-Timo Bremer.
    Computer Graphics Forum (Proceedings of EuroVis), vol. 33, issue 3, pp. 21–39, Jun. 2014. doi:10.1111/cgf.12358.

  28. The Helmholtz-Hodge Decomposition — A Survey
    Harsh Bhatia, Gregory Norgard, Valerio Pascucci, and Peer-Timo Bremer.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), vol. 19, no. 8, pp. 1386–1404, Aug. 2013. doi:10.1109/TVCG.2012.316.
        Appeared as the IEEE TVCG spotlight of the month.

  29. Visualizing Robustness of Critical Points for 2D Time-Varying Vector Fields
    Bei Wang, Paul Rosen, Primoz Skraba, Harsh Bhatia, and Valerio Pascucci.
    Computer Graphics Forum (Proceedings of EuroVis), vol. 32, issue 3pt 2, pp. 221–230, Jun. 2013. doi:10.1111/cgf.12109.

  30. Comments on the "Meshless Helmholtz-Hodge decomposition"
    Harsh Bhatia, Gregory Norgard, Valerio Pascucci, and Peer-Timo Bremer.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), vol. 19, no. 3, pp. 527–528, Mar. 2013. doi:10.1109/TVCG.2012.62.

  31. Flow Visualization with Quantified Spatial and Temporal Errors using Edge Maps
    Harsh Bhatia, Shreeraj Jadhav, Peer-Timo Bremer, Guoning Chen, Joshua A. Levine, Luis Gustavo Nonato, and Valerio Pascucci.
    IEEE Transactions on Visualization and Computer Graphics (TVCG), vol. 18, no. 9, pp. 1383–1396, Sept. 2012. doi:10.1109/TVCG.2011.265.

  32. A Quantized boundary representation of 2D Flow
    Joshua A. Levine, Shreeraj Jadhav, Harsh Bhatia, Valerio Pascucci, and Peer-Timo Bremer.
    Computer Graphics Forum (Proceedings of EuroVis), vol. 31, issue 3pt1, pp. 945–954, Jun. 2012. doi:10.1111/j.1467-8659.2012.03087.x.

Conference Proceedings and Book Chapters

  1. Generalizable Coordination of Large Multiscale Ensembles: Challenges and Learnings at Scale
    Harsh Bhatia, Francesco Di Natale, Joseph Y. Moon, Xiaohua Zhang, Joseph R. Chavez, Fikret Aydin, Chris Stanley, Tomas Oppelstrup, Chris Neale, Sara Kokkila Schumacher, Dong Ahn, Stephen Herbein, Timothy S. Carpenter, Sandrasegaram Gnanakaran, Peer-Timo Bremer, James N. Glosli, Felice C. Lightstone, and Helgi I. Ingólfsson. In Proceedings of the ACM/IEEE International Conference for High Performance Computing, Networking, Storage and Analysis, SC '21, Article No. 10, November 2021. doi:10.1145/3458817.3476210.

  2. Data-Driven Estimation of Temporal-Sampling Errors in Unsteady Flows
    Harsh Bhatia, Steve N. Petruzza, Rushil Anirudh, Attila G. Gyulassy, Robert M. Kirby, Valerio Pascucci, and Peer-Timo Bremer.
    In: Bebis G. et al. (eds) Advances in Visual Computing. ISVC 2021. Lecture Notes in Computer Science, vol 13017. Springer, Cham. doi:03010.1007/978-3-030-90439-5_19.

  3. High-quality and Low-memory-footprint Progressive Decoding of Large-scale Particle Data
    Duong Hoang, Harsh Bhatia, Peter Lindstrom, and Valerio Pascucci.
    The 11th IEEE Symposium on Large Data Analysis and Visualization (LDAV), 32–42, 2021. doi:10.1109/LDAV53230.2021.00011.
    Honorable Mention.

  4. A Massively Parallel Infrastructure for Adaptive Multiscale Simulations: Modeling RAS Initiation Pathway for Cancer
    Francesco Di Natale, Harsh Bhatia, Timothy S. Carpenter, Chris Neale, Sara Kokkila Schumacher, Tomas Oppelstrup, Liam Stanton, Xiaohua Zhang, Shiv Sundram, Thomas R. W. Scogland, Gautham Dharuman, Michael P. Surh, Yue Yang, Claudia Misale, Lars Schneidenbach, Carlos Costa, Changhoan Kim, Bruce D'Amora, Sandrasegaram Gnanakaran, Dwight V. Nissley, Fred Streitz, Felice C. Lightstone, Peer-Timo Bremer, James N. Glosli, and Helgi I. Ingólfsson. In Proceedings of the ACM/IEEE International Conference for High Performance Computing, Networking, Storage and Analysis, SC '19, Article No. 57, November 2019. doi:10.1145/3295500.3356197.
        Best Paper at SC 2019.

  5. Comparing GPU Power and Frequency Capping: A Case Study with the MuMMI Workflow
    Tapasya Patki, Zachary Frye, Harsh Bhatia, Francesco Di Natale, James Glosli, Helgi Ingolfsson and Barry Rountree. In 2019 IEEE/ACM Workflows in Support of Large-Scale Science (WORKS), 31–39, November 2019. doi:10.1109/WORKS49585.2019.00009.

  6. Interpreting Galilean Invariant Vector Field Analysis via Extended Robustness
    Bei Wang, Roxana Bujack, Paul Rosen, Primoz Skraba, Harsh Bhatia, and Hans Hagen.
    In Topological Methods in Data Analysis and Visualization V, 221–235, 2020 doi:10.1007/978-3-030-43036-8_14.

  7. Interactive Exploration of Atomic Trajectories Through Relative-Angle Distribution and Associated Uncertainties
    Harsh Bhatia, Attila G. Gyulassy, Valerio Pascucci, Martina Bremer, Mitchell T. Ong, Vincenzo Lordi, Erik W. Draeger, John E. Pask, and Peer-Timo Bremer.
    In Proceedings of the 9th IEEE Pacific Visualization Symposium, pp. 120–127, Taipei, Taiwan. Apr. 19–22, 2016. doi:10.1109/PACIFICVIS.2016.7465259.

  8. Computing Accurate Morse-Smale Complexes from Gradient Vector Fields
    Attila Gyulassy, Harsh Bhatia, Peer-Timo Bremer, and Valerio Pascucci.
    In Topological and Statistical Methods for Complex Data — Tackling Large-Scale, High-Dimensional, and Multivariate Data Sets, Mathematics and Visualization, pp. 205–218, J Bennett, F Vivodtzev, V Pascucci (Eds.), Springer Berlin Heidelberg, 2015. doi:10.1007/978-3-662-44900-4_12.

  9. Robust Detection of Singularities in Vector Fields
    Harsh Bhatia, Attila Gyulassy, Hao Wang, Peer-Timo Bremer, and Valerio Pascucci.
    In Topological Methods in Data Analysis and Visualization III - Theory, Algorithms, and Applications, Mathematics and Visualization, pp. 3–18, P-T Bremer, I Hotz, V Pascucci, R Peikert (Eds.), Springer Berlin Heidelberg, 2014. doi:10.1007/978-3-319-04099-8_1.

  10. Consistent Approximation of Local Flow Behavior for 2D Vector Fields
    Shreeraj Jadhav, Harsh Bhatia, Peer-Timo Bremer, Joshua A. Levine, Luis Gustavo Nonato, and Valerio Pascucci.
    In Topological Methods in Data Analysis and Visualization II — Theory, Algorithms, and Applications, Mathematics and Visualization, pp. 141–159, R Peikert, H Hauser, H Carr, R Fuchs (Eds.), Springer Berlin Heidelberg, 2012. doi:10.1007/978-3-642-23175-9_10.

  11. Edge Maps: Representing Flow with Bounded Error
    Harsh Bhatia, Shreeraj Jadhav, Peer-Timo Bremer, Guoning Chen, Joshua A. Levine, Luis Gustavo Nonato, and Valerio Pascucci.
    In Proceedings of the 4th IEEE Pacific Visualization Symposium, pp. 75–82, Hong Kong, China, Mar. 1–4, 2011. doi:10.1109/PACIFICVIS.2011.5742375.
        Appeared on the cover of the Proceedings, and won the Best Paper Award.

  12. A Queuing-Theoretic Framework for Modeling and Analysis of Mobility in WSNs
    Harsh Bhatia, Rathinasamy B. Lenin, Aarti Munjal, Srini Ramaswamy, and Sanjay Srivastava.
    In Proceedings of the 8th Workshop on Performance Metrics for Intelligent Systems (PerMIS), 248–253, Gaithersburg, Maryland, USA, Aug. 19–21, 2008. doi:10.1145/1774674.1774713.

Dissertations

Other Peer-Reviewed Papers

Non-Peer-Reviewed Posters