An open source 16-channel fluidics system for automating sequential fluorescent in situ hybridization (FISH)-based imaging
Fluorescent in situ hybridization (FISH) can provide spatial information about DNA/RNA targets in fixed cells and tissues. However, the workflows of multiplexed FISH-based imaging that use sequential rounds of hybridization quickly become laborious as the number of rounds increases because of liquid...
| Main Authors: | , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Elsevier
2022-10-01
|
| Series: | HardwareX |
| Subjects: | |
| Online Access: | http://www.sciencedirect.com/science/article/pii/S2468067222000888 |
| _version_ | 1811298305768947712 |
|---|---|
| author | Zhaojie Deng Brian J. Beliveau |
| author_facet | Zhaojie Deng Brian J. Beliveau |
| author_sort | Zhaojie Deng |
| collection | DOAJ |
| description | Fluorescent in situ hybridization (FISH) can provide spatial information about DNA/RNA targets in fixed cells and tissues. However, the workflows of multiplexed FISH-based imaging that use sequential rounds of hybridization quickly become laborious as the number of rounds increases because of liquid handling demands. Here, we present an open-source and low-cost fluidics system that is purpose built for automating the workflows of sequential FISH-based imaging. Our system features a fluidics module with 16 addressable channels in which flow is positive pressure-driven and switched on/off by solenoid valves in order to transfer FISH reagents to the sample. Our system also includes a controller with a main printed circuit board that can control up to 120 solenoid valves and allows users to control the fluidics module via serial communication. We demonstrate the automatic and robust fluid exchange with this system by targeting the alpha satellite repeat in HeLa cell with 14 rounds of sequential hybridization and imaging. We anticipate that this simple and flexible system will be of utility to researchers performing multiplexed in situ assays in a range of experimental systems. |
| first_indexed | 2024-04-13T06:17:30Z |
| format | Article |
| id | doaj.art-baae5b5edb1446f88613a9f960ee745e |
| institution | Directory Open Access Journal |
| issn | 2468-0672 |
| language | English |
| last_indexed | 2024-04-13T06:17:30Z |
| publishDate | 2022-10-01 |
| publisher | Elsevier |
| record_format | Article |
| series | HardwareX |
| spelling | doaj.art-baae5b5edb1446f88613a9f960ee745e2022-12-22T02:58:47ZengElsevierHardwareX2468-06722022-10-0112e00343An open source 16-channel fluidics system for automating sequential fluorescent in situ hybridization (FISH)-based imagingZhaojie Deng0Brian J. Beliveau1Department of Genome Sciences, University of Washington, Seattle, WA, United StatesDepartment of Genome Sciences, University of Washington, Seattle, WA, United States; Brotman Baty Insitute for Precision Medicine, Seattle, WA, United States; Corresponding author at: Department of Genome Sciences, University of Washington, Seattle, WA, United States.Fluorescent in situ hybridization (FISH) can provide spatial information about DNA/RNA targets in fixed cells and tissues. However, the workflows of multiplexed FISH-based imaging that use sequential rounds of hybridization quickly become laborious as the number of rounds increases because of liquid handling demands. Here, we present an open-source and low-cost fluidics system that is purpose built for automating the workflows of sequential FISH-based imaging. Our system features a fluidics module with 16 addressable channels in which flow is positive pressure-driven and switched on/off by solenoid valves in order to transfer FISH reagents to the sample. Our system also includes a controller with a main printed circuit board that can control up to 120 solenoid valves and allows users to control the fluidics module via serial communication. We demonstrate the automatic and robust fluid exchange with this system by targeting the alpha satellite repeat in HeLa cell with 14 rounds of sequential hybridization and imaging. We anticipate that this simple and flexible system will be of utility to researchers performing multiplexed in situ assays in a range of experimental systems.http://www.sciencedirect.com/science/article/pii/S2468067222000888Liquid handlingSequential FISH-based imagingLaboratory automationPneumatic drivenESP32 |
| spellingShingle | Zhaojie Deng Brian J. Beliveau An open source 16-channel fluidics system for automating sequential fluorescent in situ hybridization (FISH)-based imaging HardwareX Liquid handling Sequential FISH-based imaging Laboratory automation Pneumatic driven ESP32 |
| title | An open source 16-channel fluidics system for automating sequential fluorescent in situ hybridization (FISH)-based imaging |
| title_full | An open source 16-channel fluidics system for automating sequential fluorescent in situ hybridization (FISH)-based imaging |
| title_fullStr | An open source 16-channel fluidics system for automating sequential fluorescent in situ hybridization (FISH)-based imaging |
| title_full_unstemmed | An open source 16-channel fluidics system for automating sequential fluorescent in situ hybridization (FISH)-based imaging |
| title_short | An open source 16-channel fluidics system for automating sequential fluorescent in situ hybridization (FISH)-based imaging |
| title_sort | open source 16 channel fluidics system for automating sequential fluorescent in situ hybridization fish based imaging |
| topic | Liquid handling Sequential FISH-based imaging Laboratory automation Pneumatic driven ESP32 |
| url | http://www.sciencedirect.com/science/article/pii/S2468067222000888 |
| work_keys_str_mv | AT zhaojiedeng anopensource16channelfluidicssystemforautomatingsequentialfluorescentinsituhybridizationfishbasedimaging AT brianjbeliveau anopensource16channelfluidicssystemforautomatingsequentialfluorescentinsituhybridizationfishbasedimaging AT zhaojiedeng opensource16channelfluidicssystemforautomatingsequentialfluorescentinsituhybridizationfishbasedimaging AT brianjbeliveau opensource16channelfluidicssystemforautomatingsequentialfluorescentinsituhybridizationfishbasedimaging |