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Internet of Things Architecture for High Throughput Biology

View ORCID ProfileDavid F. Parks, View ORCID ProfileKateryna Voitiuk, View ORCID ProfileJinghui Geng, View ORCID ProfileMatthew A. T. Elliott, View ORCID ProfileMatthew G. Keefe, Erik A. Jung, Ash Robbins, View ORCID ProfilePierre V. Baudin, View ORCID ProfileVictoria T. Ly, Nico Hawthorne, Dylan Yong, Sebastian E. Sanso, Nick Rezaee, View ORCID ProfileJess Sevetson, Spencer T. Seiler, View ORCID ProfileRob Currie, View ORCID ProfileKeith B. Hengen, View ORCID ProfileTomasz J. Nowakowski, View ORCID ProfileSofie R. Salama, View ORCID ProfileMircea Teodorescu, View ORCID ProfileDavid Haussler
doi: https://doi.org/10.1101/2021.07.29.453595
David F. Parks
aDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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  • For correspondence: dfparks@ucsc.edu
Kateryna Voitiuk
aDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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  • ORCID record for Kateryna Voitiuk
Jinghui Geng
bDepartment of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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  • ORCID record for Jinghui Geng
Matthew A. T. Elliott
aDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Matthew G. Keefe
eDepartment of Anatomy, University of California San Francisco, San Francisco, CA 94143, USA
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  • ORCID record for Matthew G. Keefe
Erik A. Jung
bDepartment of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Ash Robbins
bDepartment of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Pierre V. Baudin
bDepartment of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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  • ORCID record for Pierre V. Baudin
Victoria T. Ly
bDepartment of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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  • ORCID record for Victoria T. Ly
Nico Hawthorne
bDepartment of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Dylan Yong
bDepartment of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Sebastian E. Sanso
dUC Santa Cruz Genomics Institute, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Nick Rezaee
dUC Santa Cruz Genomics Institute, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Jess Sevetson
aDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Spencer T. Seiler
aDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Rob Currie
dUC Santa Cruz Genomics Institute, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Keith B. Hengen
gDepartment of Biology, Washington University in St. Louis, St. Louis, MO, 63130, USA
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Tomasz J. Nowakowski
eDepartment of Anatomy, University of California San Francisco, San Francisco, CA 94143, USA
fThe Eli and Edythe Broad Center of Regeneration Medicine and Stem Cell Research, University of California San Francisco, San Francisco, CA 94143, USA
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Sofie R. Salama
aDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
cHoward Hughes Medical Institute, University of California, Santa Cruz, Santa Cruz, CA, 95064, USA
dUC Santa Cruz Genomics Institute, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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Mircea Teodorescu
bDepartment of Electrical and Computer Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
dUC Santa Cruz Genomics Institute, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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David Haussler
aDepartment of Biomolecular Engineering, University of California Santa Cruz, Santa Cruz, CA 95060, USA
cHoward Hughes Medical Institute, University of California, Santa Cruz, Santa Cruz, CA, 95064, USA
dUC Santa Cruz Genomics Institute, University of California Santa Cruz, Santa Cruz, CA 95060, USA
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  • ORCID record for David Haussler
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Abstract

New cell culture techniques have led to complex tissue models in biological experiments. For example, 3-D cerebral organoids provide a more realistic model of the human cortical tissue. However, these cell culture experiments are restricted by high costs and limited labor. A massively scalable and cost efficient platform for tissue experiments would benefit genomics, neuroscience, and translational medicine by enabling advanced high throughput tissue screens. Cloud computing and the Internet of Things (IoT) provide new tools for managing multiple experiments in parallel that are remotely controlled through automation. We introduce a cloud-based IoT architecture that takes advantage of these tools to offer an environment where researchers can run thousands of cell culture experiments at once. This technology allows studies with cell cultures to be performed at scales far beyond a single lab setting, democratizing access to advanced tissue models and enabling new avenues of research.

IoT Cloud Laboratory Experiments are automated through cloud connected devices to allow scalability, reproducibility, and online monitoring.

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Competing Interest Statement

The authors have declared no competing interest.

Footnotes

  • ↵1 Lead Contact

  • ↵2 Co-Author

Copyright 
The copyright holder for this preprint is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under a CC-BY 4.0 International license.
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Posted August 01, 2021.
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Internet of Things Architecture for High Throughput Biology
David F. Parks, Kateryna Voitiuk, Jinghui Geng, Matthew A. T. Elliott, Matthew G. Keefe, Erik A. Jung, Ash Robbins, Pierre V. Baudin, Victoria T. Ly, Nico Hawthorne, Dylan Yong, Sebastian E. Sanso, Nick Rezaee, Jess Sevetson, Spencer T. Seiler, Rob Currie, Keith B. Hengen, Tomasz J. Nowakowski, Sofie R. Salama, Mircea Teodorescu, David Haussler
bioRxiv 2021.07.29.453595; doi: https://doi.org/10.1101/2021.07.29.453595
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Internet of Things Architecture for High Throughput Biology
David F. Parks, Kateryna Voitiuk, Jinghui Geng, Matthew A. T. Elliott, Matthew G. Keefe, Erik A. Jung, Ash Robbins, Pierre V. Baudin, Victoria T. Ly, Nico Hawthorne, Dylan Yong, Sebastian E. Sanso, Nick Rezaee, Jess Sevetson, Spencer T. Seiler, Rob Currie, Keith B. Hengen, Tomasz J. Nowakowski, Sofie R. Salama, Mircea Teodorescu, David Haussler
bioRxiv 2021.07.29.453595; doi: https://doi.org/10.1101/2021.07.29.453595

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