Soichi Hayashi

Publications

1,127 words6 min read#Publications

Selected work across neuroscience, astronomy, and distributed computing. Cited 800+ times (h-index 10) — the authoritative, always-current list is on my Google Scholar profile.

Journal articles

  • Hayashi, S., Caron, B.A., Heinsfeld, A.S. et al. “brainlife.io: a decentralized and open-source cloud platform to support neuroscience research.” Nature Methods 21, 809–813 (2024). doi:10.1038/s41592-024-02237-2
  • Levitas, D., Hayashi, S. et al. “ezBIDS: guided standardization of neuroimaging data interoperable with major data archives and platforms.” Scientific Data 11, 179 (2024). doi:10.1038/s41597-024-02959-0
  • Halchenko, Y. et al. “DataLad: a distributed system for joint management of code, data, and their relationship.” Journal of Open Source Software 6(63), 3262 (2021). doi:10.21105/joss.03262
  • Bertò, G. et al. “Classifyber, a robust streamline-based linear classifier for white matter bundle segmentation.” NeuroImage (2020). doi:10.1016/j.neuroimage.2020.117402
  • Avesani, P. et al. “The open diffusion data derivatives, brain data upcycling via integrated publishing of derivatives, and reproducible open cloud services.” Scientific Data (2019). doi:10.1038/s41597-019-0073-y
  • Andrade, P. et al. “Distributed Monitoring Infrastructure for the Worldwide LHC Computing Grid.” J. Phys.: Conf. Ser. 396, 032002 (2012). doi:10.1088/1742-6596/396/3/032002
  • Wogu, E., Filima, P., Caron, B., …, Hayashi, S., … Pestilli, F. “A labeled Clinical-MRI dataset of Nigerian brains.” Scientific Data 12, 518 (2025). doi:10.1038/s41597-025-04743-0
  • Shih, P.C., Obi, I., Paul, L.J., Liao, W., Loukil, M., Hayashi, S., et al. “Project APRED: A web-based data analytics platform for supporting community disaster resilience.” Journal of Emergency Management 21(5), 399–419 (2023). doi:10.5055/jem.0735
  • Gopu, A., Hayashi, S. et al. “An archive of spectra from the Mayall Fourier Transform Spectrometer at Kitt Peak.” Publ. Astron. Soc. Pacific 129(972), 024006 (2017).
  • “GOC-TX: A Reliable Ticket Synchronization Application for the Open Science Grid.” J. Phys.: Conf. Ser. 331, 082013 (2011). doi:10.1088/1742-6596/331/8/082013
  • “Open Science Grid (OSG) Ticket Synchronization: Keeping Your Home Field Advantage in a Distributed Environment.” J. Phys.: Conf. Ser. 396(6), 062009 (2012). doi:10.1088/1742-6596/396/6/062009
  • Teige, S., Hayashi, S. et al. “The Event Notification and Alarm System for the Open Science Grid Operations Center.” J. Phys.: Conf. Ser. 396, 032105 (2012). doi:10.1088/1742-6596/396/3/032105
  • Quick, R., Hayashi, S. et al. “One network metric datastore to track them all: the OSG network metric service.” J. Phys.: Conf. Ser. 898, 082044 (2017). doi:10.1088/1742-6596/898/8/082044

Conference proceedings

  • “Scalable Quality Assurance for Neuroimaging (SQAN): automated quality control for medical imaging.” SPIE Medical Imaging 1131807 (2020). doi:10.1117/12.2549722
  • “Shape Analysis of White Matter Tracts via the Laplace–Beltrami Spectrum.” MICCAI, Granada, Spain (2018).
  • “ImageX: new and improved image explorer for astronomical images and beyond.” SPIE (2016). doi:10.1117/12.2233425
  • “Galaxy-based BLAST submission to Open Science Grid resources.” PoS (ISGC2014) 025.
  • Gopu, A., Hayashi, S. et al. “ODI — Portal, Pipeline, and Archive (ODI-PPA): a web-based astronomical compute archive, visualization, and analysis service.” SPIE 9152, article 9152-14 (2014).
  • Gopu, A., Hayashi, S., Young, M.D. “Image Explorer: Astronomical Image Analysis on an HTML5-based Web Application.” ADASS XXIII, ASP Conf. Ser. 485, p.417 (2014).
  • Young, M.D., Gopu, A., Hayashi, S. “Source Explorer: Towards Web Browser Based Tools for Astronomical Source Visualization and Analysis.” ASP Conf. Ser. 485, p.269 (2014).
  • Young, M.D., Gopu, A., Hayashi, S., Cox, J.A. “FRIAA: A Framework for Web-based Interactive Astronomy Analysis using AMQP Messaging.” ADASS XXII, ASP Conf. Ser. 475 (2012).
  • “MyOSG: a user-centric information resource for OSG infrastructure data sources.” SC-GCE (2009).
  • Young, M.D., Gopu, A., Hayashi, S. “Trident: scalable compute archives — workflows, visualization, and analysis.” SPIE Astronomical Telescopes + Instrumentation 9913, 559–570 (2016).
  • Young, M.D., Gopu, A., Hayashi, S. “StarDock: shipping customized computing environments to the data.” SPIE 9913, 484–490 (2016).
  • Young, M.D., Gopu, A., Hayashi, S. “RabbitQR: Fast and flexible Big Data Processing at LSST data rates using existing, shared-use hardware.” SPIE 9913, 733–739 (2016).
  • Welch, V., Altunay, M., Basney, J., …, Hayashi, S., et al. “OSG PKI Transition: Experiences and Lessons Learned.” PoS (ISGC2014) 007.
  • Quick, R., Teige, S., Hayashi, S. et al. “Building a Chemical-Protein Interactome on the Open Science Grid (SPLINTER).” PoS (ISGC2015) 024. doi:10.22323/1.239.0024
  • “Connecting central shared file systems across the Open Science Grid and the European Grid Initiative.” ISGC 2013, Academia Sinica, Taipei.
  • “RSV: OSG fabric monitoring and interoperation with WLCG monitoring systems.” CHEP 2009.
  • Gopu, A., Hayashi, S. et al. “Rapid Large Scale Reprocessing of the ODI Archive using the QuickReduce Pipeline.” ADASS XXIV, ASP Conf. Ser. 495, p.53 (2015).
  • Gopu, A., Hayashi, S. et al. “Operational Support for Instrument Stability through ODI-PPA Metadata Visualization and Analysis.” ADASS XXIV, ASP Conf. Ser. 495, p.181 (2015).
  • Young, M.D., Gopu, A., Hayashi, S. et al. “User Driven Image Stacking for ODI Data and Beyond via a Highly Customizable Web Interface.” ADASS XXIV, ASP Conf. Ser. 495, p.421 (2015).
  • Gopu, A., Hayashi, S. et al. “Image Archives Made Easy with Docker and ImageX.” ADASS XXVII, ASP Conf. Ser. 522, p.267 (2020).

Academic Presentations

  • “Galaxy based BLAST submission to distributed national high throughput computing resources.” ISGC 2014 — International Symposium on Grids and Clouds, Academia Sinica, Taipei. slides (IU ScholarWorks)
  • “OSG PKI Transition: Experiences and Lessons Learned.” ISGC 2014 — International Symposium on Grids and Clouds, Academia Sinica, Taipei — presented on behalf of the primary author (V. Welch).
  • “Galaxy Deployment on Heterogeneous Hardware.” Galaxy Community Conference 2014, Baltimore, MD — with Carrie Ganote. slides (IU ScholarWorks)
  • “brainlife.io: a decentralized and open-source cloud platform to support neuroscience research.” OHBM 2022.
  • “Using OASIS” — demo/training session, OSG All Hands Meeting 2013, Indianapolis — with Scott Teige. indico
  • perfSONAR 3.6 configuration interface — presented at the WLCG Network Transfer Metrics Working Group (2016).
  • “Orchestrating cloud networks for discoverable, accessible, interoperable, and reusable neuroscience.” OHBM 2019 — Neuroinformatics and Data Sharing.