Design principles for open source bioinstrumentation: the poseidon syringe pump system as an example

The poseidon syringe pump and microscope system is an open source alternative to commercial systems. It costs less than $400 and can be assembled in under an hour using the instructions and source files available at https://pachterlab.github.io/poseidon. We describe the poseidon system and use it to illustrate design principles that can facilitate the adoption and development of open source bioinstruments. The principles are functionality, robustness, simplicity, modularity, benchmarking, and documentation.

[1]  Matheus Carvalho de Carvalho,et al.  Osmar, the open-source microsyringe autosampler , 2018 .

[2]  Evan Z. Macosko,et al.  Highly Parallel Genome-wide Expression Profiling of Individual Cells Using Nanoliter Droplets , 2015, Cell.

[3]  Joshua M. Pearce,et al.  Building Research Equipment with Free, Open-Source Hardware , 2012, Science.

[4]  Lucia L Prieto-Godino,et al.  The €100 lab: A 3D-printable open-source platform for fluorescence microscopy, optogenetics, and accurate temperature control during behaviour of zebrafish, Drosophila, and Caenorhabditis elegans , 2017, PLoS biology.

[5]  Joshua M. Pearce,et al.  Open-Source Syringe Pump Library , 2014, PloS one.

[6]  André Maia Chagas,et al.  Haves and have nots must find a better way: The case for open scientific hardware , 2018, PLoS biology.

[7]  Luka Banović,et al.  Development of an Extruder for Open Source 3D Bioprinting , 2018 .

[8]  Andre Maia Chagas,et al.  Haves and have nots must find a better way: The case for open scientific hardware. , 2018 .

[9]  Craig A. Simmons,et al.  Generating vascular channels within hydrogel constructs using an economical open-source 3D bioprinter and thermoreversible gels , 2018 .

[10]  C. Sanders,et al.  Auto-HPGe, an autosampler for gamma-ray spectroscopy using high-purity germanium (HPGe) detectors and heavy shields , 2018, HardwareX.

[11]  Andrew Butler,et al.  Single-cell RNA-seq of rheumatoid arthritis synovial tissue using low-cost microfluidic instrumentation , 2018, Nature Communications.

[12]  Joshua M. Pearce Open-Source Lab: How to Build Your Own Hardware and Reduce Research Costs , 2013 .

[13]  Tamara Matute,et al.  Low cost and open source multi-fluorescence imaging system for teaching and research in biology and bioengineering , 2017, PloS one.

[14]  C J Forman,et al.  Openspritzer: an open hardware pressure ejection system for reliably delivering picolitre volumes , 2017, Scientific Reports.

[15]  Matthias Landgraf,et al.  A Cartesian Coordinate Robot for Dispensing Fruit Fly Food , 2018 .

[16]  Elie Dolgin How to start a lab when funds are tight , 2018, Nature.

[17]  Alicia Gibb,et al.  Building Open Source Hardware: DIY Manufacturing for Hackers and Makers , 2014 .

[18]  Allon M. Klein,et al.  Single-cell barcoding and sequencing using droplet microfluidics , 2016, Nature Protocols.