Microscope Upcycling: Transforming legacy microscopes into automated cloud-integrated imaging systems
Computerized microscopes improve repeatability, throughput, antisepsis, data analysis and data sharing in the biological laboratory, but these machines are cost-prohibitive in most academic environments. This is a barrier into collecting the large and consistent datasets required for machine learnin...
Saved in:
| Main Authors: | , , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2025-06-01
|
| Series: | HardwareX |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S246806722500015X |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1850213205326954496 |
|---|---|
| author | Drew Ehrlich Yohei Rosen David F. Parks Kivilcim Doganyigit Ryan Fenimore Samira Vera-Choqqueccota Sebastian Hernandez Anna Toledo David Haussler Sri Kurniawan Mircea Teodorescu |
| author_facet | Drew Ehrlich Yohei Rosen David F. Parks Kivilcim Doganyigit Ryan Fenimore Samira Vera-Choqqueccota Sebastian Hernandez Anna Toledo David Haussler Sri Kurniawan Mircea Teodorescu |
| author_sort | Drew Ehrlich |
| collection | DOAJ |
| description | Computerized microscopes improve repeatability, throughput, antisepsis, data analysis and data sharing in the biological laboratory, but these machines are cost-prohibitive in most academic environments. This is a barrier into collecting the large and consistent datasets required for machine learning analyses of microscopy data. We demonstrate hardware modifications and software to bring the features of modern computerized microscopes to decades-old legacy laboratory inverted microscopes. We demonstrate automation of X-Y positioning, focus stacking, image acquisition and image storage. |
| format | Article |
| id | doaj-art-2cc4fa581d1b4f719b427627b1177229 |
| institution | OA Journals |
| issn | 2468-0672 |
| language | English |
| publishDate | 2025-06-01 |
| publisher | Elsevier |
| record_format | Article |
| series | HardwareX |
| spelling | doaj-art-2cc4fa581d1b4f719b427627b11772292025-08-20T02:09:11ZengElsevierHardwareX2468-06722025-06-0122e0063710.1016/j.ohx.2025.e00637Microscope Upcycling: Transforming legacy microscopes into automated cloud-integrated imaging systemsDrew Ehrlich0Yohei Rosen1David F. Parks2Kivilcim Doganyigit3Ryan Fenimore4Samira Vera-Choqqueccota5Sebastian Hernandez6Anna Toledo7David Haussler8Sri Kurniawan9Mircea Teodorescu10UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Computational Media, University of California, Santa Cruz, Santa Cruz, CA, USA; Correspondence to: 1156 High Street, Santa Cruz, California 95064, United States of America.UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Biomolecular Engineering and Bioinformatics, University of California, Santa Cruz, Santa Cruz, CA, USA; Correspondence to: 1156 High Street, Santa Cruz, California 95064, United States of America.UC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Computer Science and Engineering, University of California, Santa Cruz, Santa Cruz, CA, USAUC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Biomolecular Engineering and Bioinformatics, University of California, Santa Cruz, Santa Cruz, CA, USAUC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Chemistry and Biochemistry, University of California, Santa Cruz, Santa Cruz, CA, USAUC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Biomolecular Engineering and Bioinformatics, University of California, Santa Cruz, Santa Cruz, CA, USAUC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Electrical and Computer Engineering, University of California, Santa Cruz, Santa Cruz, CA, USADepartment of Performance, Play and Design, University of California, Santa Cruz, Santa Cruz, CA, USAUC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Biomolecular Engineering, University of California, Santa Cruz, Santa Cruz, CA, USAUC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Computational Media, University of California, Santa Cruz, Santa Cruz, CA, USAUC Santa Cruz Genomics Institute, University of California, Santa Cruz, Santa Cruz, CA, USA; Department of Electrical and Computer Engineering, University of California, Santa Cruz, Santa Cruz, CA, USA; Correspondence to: 1156 High Street, Santa Cruz, California 95064, United States of America.Computerized microscopes improve repeatability, throughput, antisepsis, data analysis and data sharing in the biological laboratory, but these machines are cost-prohibitive in most academic environments. This is a barrier into collecting the large and consistent datasets required for machine learning analyses of microscopy data. We demonstrate hardware modifications and software to bring the features of modern computerized microscopes to decades-old legacy laboratory inverted microscopes. We demonstrate automation of X-Y positioning, focus stacking, image acquisition and image storage.http://www.sciencedirect.com/science/article/pii/S246806722500015XInternet of ThingsMicroscopyOpen Labware |
| spellingShingle | Drew Ehrlich Yohei Rosen David F. Parks Kivilcim Doganyigit Ryan Fenimore Samira Vera-Choqqueccota Sebastian Hernandez Anna Toledo David Haussler Sri Kurniawan Mircea Teodorescu Microscope Upcycling: Transforming legacy microscopes into automated cloud-integrated imaging systems HardwareX Internet of Things Microscopy Open Labware |
| title | Microscope Upcycling: Transforming legacy microscopes into automated cloud-integrated imaging systems |
| title_full | Microscope Upcycling: Transforming legacy microscopes into automated cloud-integrated imaging systems |
| title_fullStr | Microscope Upcycling: Transforming legacy microscopes into automated cloud-integrated imaging systems |
| title_full_unstemmed | Microscope Upcycling: Transforming legacy microscopes into automated cloud-integrated imaging systems |
| title_short | Microscope Upcycling: Transforming legacy microscopes into automated cloud-integrated imaging systems |
| title_sort | microscope upcycling transforming legacy microscopes into automated cloud integrated imaging systems |
| topic | Internet of Things Microscopy Open Labware |
| url | http://www.sciencedirect.com/science/article/pii/S246806722500015X |
| work_keys_str_mv | AT drewehrlich microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT yoheirosen microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT davidfparks microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT kivilcimdoganyigit microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT ryanfenimore microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT samiraverachoqqueccota microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT sebastianhernandez microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT annatoledo microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT davidhaussler microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT srikurniawan microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems AT mirceateodorescu microscopeupcyclingtransforminglegacymicroscopesintoautomatedcloudintegratedimagingsystems |