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Cyberinfrastructure of a Multi-Petabyte Microscopy Resource for Neuroscience Research

Authors:

Kathy Benninger,

Alexander Ropelewski,

Marcel BruchezAuthors Info & Claims

PEARC '20: Practice and Experience in Advanced Research Computing 2020: Catch the Wave

Pages 1 - 7

https://doi.org/10.1145/3311790.3396653

Published: 26 July 2020 Publication History

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Abstract

Advances in microscopy technologies and techniques are driving development of an integrated cyberinfrastructure to manage the vast amounts of image data being generated. To address this need, a team of neuroscientists and cyberinfrastructure engineers has integrated mass storage, networking, and high-performance computing components to create the Brain Image Library (BIL). BIL serves the neuroscience community by providing a persistent repository for the massive amounts of data being generated (multi-petabyte scale) and by offering brain researchers supercomputing-class processing and visualization capabilities for working with high-resolution brain image datasets.

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Cited By

Cao LYang CHu LJiang WRen YXia TXu MJi YLi MXu XLi YZhang YFang S(2024)Deciphering spatial domains from spatially resolved transcriptomics with Siamese graph autoencoderGigaScience10.1093/gigascience/giae00313Online publication date: 20-Feb-2024
https://doi.org/10.1093/gigascience/giae003
Yuan LChen XZhan HHenry GZador A(2024)Massive multiplexing of spatially resolved single neuron projections with axonal BARseqNature Communications10.1038/s41467-024-52756-x15:1Online publication date: 27-Sep-2024
https://doi.org/10.1038/s41467-024-52756-x
Sablosky G(2023)Rebuilding BridgesPractice and Experience in Advanced Research Computing 2023: Computing for the Common Good10.1145/3569951.3597589(324-327)Online publication date: 23-Jul-2023
https://dl.acm.org/doi/10.1145/3569951.3597589
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cover image ACM Conferences

PEARC '20: Practice and Experience in Advanced Research Computing 2020: Catch the Wave

July 2020

556 pages

ISBN:9781450366892

DOI:10.1145/3311790

Copyright © 2020 Owner/Author.

This work is licensed under a Creative Commons Attribution-ShareAlike International 4.0 License.

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Association for Computing Machinery

New York, NY, United States

Publication History

Published: 26 July 2020

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Refereed limited

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National Institute of Mental Health of the National Institutes of Health

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PEARC '20

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PEARC '20: Practice and Experience in Advanced Research Computing

July 26 - 30, 2020

OR, Portland, USA

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Overall Acceptance Rate 133 of 202 submissions, 66%

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Cited By

Cao LYang CHu LJiang WRen YXia TXu MJi YLi MXu XLi YZhang YFang S(2024)Deciphering spatial domains from spatially resolved transcriptomics with Siamese graph autoencoderGigaScience10.1093/gigascience/giae00313Online publication date: 20-Feb-2024
https://doi.org/10.1093/gigascience/giae003
Yuan LChen XZhan HHenry GZador A(2024)Massive multiplexing of spatially resolved single neuron projections with axonal BARseqNature Communications10.1038/s41467-024-52756-x15:1Online publication date: 27-Sep-2024
https://doi.org/10.1038/s41467-024-52756-x
Sablosky G(2023)Rebuilding BridgesPractice and Experience in Advanced Research Computing 2023: Computing for the Common Good10.1145/3569951.3597589(324-327)Online publication date: 23-Jul-2023
https://dl.acm.org/doi/10.1145/3569951.3597589
Servilha-Menezes GTalevi AGarcia-Cairasco N(2023)On Complexity and Emergence: Linking the Hypotheses of Pharmacoresistance in EpilepsyPharmacoresistance in Epilepsy10.1007/978-3-031-36526-3_4(39-62)Online publication date: 30-Aug-2023
https://doi.org/10.1007/978-3-031-36526-3_4
Bourget MKamentsky LGhosh SMazzamuto GLazari AMarkiewicz COostenveld RNiso GHalchenko YLipp ITakerkart SToussaint PKhan ANilsonne GCastelli FCohen-Adad J(2022)Microscopy-BIDS: An Extension to the Brain Imaging Data Structure for Microscopy DataFrontiers in Neuroscience10.3389/fnins.2022.87122816Online publication date: 19-Apr-2022
https://doi.org/10.3389/fnins.2022.871228
Newmaster KKronman FWu YKim Y(2022)Seeing the Forest and Its Trees Together: Implementing 3D Light Microscopy Pipelines for Cell Type Mapping in the Mouse BrainFrontiers in Neuroanatomy10.3389/fnana.2021.78760115Online publication date: 14-Jan-2022
https://doi.org/10.3389/fnana.2021.787601
Ropelewski ARizzo MSwedlow JHuisken JOsten PKhanjani NWeiss KBakalov VEngle MGridley LKrzyzanowski MMadden TMaiese DMandal MWaterfield JWilliams DHamilton CHuggins W(2022)Standard metadata for 3D microscopyScientific Data10.1038/s41597-022-01562-59:1Online publication date: 27-Jul-2022
https://doi.org/10.1038/s41597-022-01562-5

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