Rapid, portable and cost-effective yeast cell viability and concentration analysis using lensfree on-chip microscopy and machine learning

Handle URI:
http://hdl.handle.net/10754/623583
Title:
Rapid, portable and cost-effective yeast cell viability and concentration analysis using lensfree on-chip microscopy and machine learning
Authors:
Feizi, Alborz; Zhang, Yibo; Greenbaum, Alon; Guziak, Alex; Luong, Michelle; Chan, Raymond Yan Lok; Berg, Brandon; Ozkan, Haydar; Luo, Wei; Wu, Michael; Wu, Yichen; Ozcan, Aydogan
Abstract:
Monitoring yeast cell viability and concentration is important in brewing, baking and biofuel production. However, existing methods of measuring viability and concentration are relatively bulky, tedious and expensive. Here we demonstrate a compact and cost-effective automatic yeast analysis platform (AYAP), which can rapidly measure cell concentration and viability. AYAP is based on digital in-line holography and on-chip microscopy and rapidly images a large field-of-view of 22.5 mm2. This lens-free microscope weighs 70 g and utilizes a partially-coherent illumination source and an opto-electronic image sensor chip. A touch-screen user interface based on a tablet-PC is developed to reconstruct the holographic shadows captured by the image sensor chip and use a support vector machine (SVM) model to automatically classify live and dead cells in a yeast sample stained with methylene blue. In order to quantify its accuracy, we varied the viability and concentration of the cells and compared AYAP's performance with a fluorescence exclusion staining based gold-standard using regression analysis. The results agree very well with this gold-standard method and no significant difference was observed between the two methods within a concentration range of 1.4 × 105 to 1.4 × 106 cells per mL, providing a dynamic range suitable for various applications. This lensfree computational imaging technology that is coupled with machine learning algorithms would be useful for cost-effective and rapid quantification of cell viability and density even in field and resource-poor settings.
Citation:
Feizi A, Zhang Y, Greenbaum A, Guziak A, Luong M, et al. (2016) Rapid, portable and cost-effective yeast cell viability and concentration analysis using lensfree on-chip microscopy and machine learning. Lab Chip 16: 4350–4358. Available: http://dx.doi.org/10.1039/c6lc00976j.
Publisher:
Royal Society of Chemistry (RSC)
Journal:
Lab Chip
Issue Date:
24-Sep-2016
DOI:
10.1039/c6lc00976j
Type:
Article
ISSN:
1473-0197; 1473-0189
Sponsors:
The Ozcan Research Group at UCLA gratefully acknowledges the support of the Presidential Early Career Award for Scientists and Engineers (PECASE), the Army Research Office (ARO; W911NF-13-1-0419 and W911NF-13-1-0197), the ARO Life Sciences Division, the National Science Foundation (NSF) CBET Division Biophotonics Program, the NSF Emerging Frontiers in Research and Innovation (EFRI) Award, the NSF EAGER Award, NSF INSPIRE Award, NSF Partnerships for Innovation: Building Innovation Capacity (PFI:BIC) Program, Office of Naval Research (ONR), the Howard Hughes Medical Institute (HHMI), Vodafone Americas Foundation, and KAUST. This work is based upon research performed in a laboratory renovated by the National Science Foundation under Grant No. 0963183, which is an award funded under the American Recovery and Reinvestment Act of 2009 (ARRA).
Appears in Collections:
Publications Acknowledging KAUST Support

Full metadata record

DC FieldValue Language
dc.contributor.authorFeizi, Alborzen
dc.contributor.authorZhang, Yiboen
dc.contributor.authorGreenbaum, Alonen
dc.contributor.authorGuziak, Alexen
dc.contributor.authorLuong, Michelleen
dc.contributor.authorChan, Raymond Yan Loken
dc.contributor.authorBerg, Brandonen
dc.contributor.authorOzkan, Haydaren
dc.contributor.authorLuo, Weien
dc.contributor.authorWu, Michaelen
dc.contributor.authorWu, Yichenen
dc.contributor.authorOzcan, Aydoganen
dc.date.accessioned2017-05-15T10:35:09Z-
dc.date.available2017-05-15T10:35:09Z-
dc.date.issued2016-09-24en
dc.identifier.citationFeizi A, Zhang Y, Greenbaum A, Guziak A, Luong M, et al. (2016) Rapid, portable and cost-effective yeast cell viability and concentration analysis using lensfree on-chip microscopy and machine learning. Lab Chip 16: 4350–4358. Available: http://dx.doi.org/10.1039/c6lc00976j.en
dc.identifier.issn1473-0197en
dc.identifier.issn1473-0189en
dc.identifier.doi10.1039/c6lc00976jen
dc.identifier.urihttp://hdl.handle.net/10754/623583-
dc.description.abstractMonitoring yeast cell viability and concentration is important in brewing, baking and biofuel production. However, existing methods of measuring viability and concentration are relatively bulky, tedious and expensive. Here we demonstrate a compact and cost-effective automatic yeast analysis platform (AYAP), which can rapidly measure cell concentration and viability. AYAP is based on digital in-line holography and on-chip microscopy and rapidly images a large field-of-view of 22.5 mm2. This lens-free microscope weighs 70 g and utilizes a partially-coherent illumination source and an opto-electronic image sensor chip. A touch-screen user interface based on a tablet-PC is developed to reconstruct the holographic shadows captured by the image sensor chip and use a support vector machine (SVM) model to automatically classify live and dead cells in a yeast sample stained with methylene blue. In order to quantify its accuracy, we varied the viability and concentration of the cells and compared AYAP's performance with a fluorescence exclusion staining based gold-standard using regression analysis. The results agree very well with this gold-standard method and no significant difference was observed between the two methods within a concentration range of 1.4 × 105 to 1.4 × 106 cells per mL, providing a dynamic range suitable for various applications. This lensfree computational imaging technology that is coupled with machine learning algorithms would be useful for cost-effective and rapid quantification of cell viability and density even in field and resource-poor settings.en
dc.description.sponsorshipThe Ozcan Research Group at UCLA gratefully acknowledges the support of the Presidential Early Career Award for Scientists and Engineers (PECASE), the Army Research Office (ARO; W911NF-13-1-0419 and W911NF-13-1-0197), the ARO Life Sciences Division, the National Science Foundation (NSF) CBET Division Biophotonics Program, the NSF Emerging Frontiers in Research and Innovation (EFRI) Award, the NSF EAGER Award, NSF INSPIRE Award, NSF Partnerships for Innovation: Building Innovation Capacity (PFI:BIC) Program, Office of Naval Research (ONR), the Howard Hughes Medical Institute (HHMI), Vodafone Americas Foundation, and KAUST. This work is based upon research performed in a laboratory renovated by the National Science Foundation under Grant No. 0963183, which is an award funded under the American Recovery and Reinvestment Act of 2009 (ARRA).en
dc.publisherRoyal Society of Chemistry (RSC)en
dc.titleRapid, portable and cost-effective yeast cell viability and concentration analysis using lensfree on-chip microscopy and machine learningen
dc.typeArticleen
dc.identifier.journalLab Chipen
dc.contributor.institutionDepartment of Electrical Engineering, University of California Los Angeles (UCLA), USAen
dc.contributor.institutionDepartment of Bioengineering, University of California Los Angeles (UCLA), USAen
dc.contributor.institutionCalifornia Nanosystems Institute (CNSI), University of California Los Angeles (UCLA), USAen
dc.contributor.institutionDivision of Biology and Biological Engineering, California Institute of Technology, USAen
dc.contributor.institutionPhysics and Astronomy Department, University of California Los Angeles (UCLA), USAen
dc.contributor.institutionDepartment of Microbiology, Immunology, and Molecular Genetics, University of California (UCLA), USAen
dc.contributor.institutionPhysics Department, University of Michigan, USAen
dc.contributor.institutionDepartment of Surgery, David Geffen School of Medicine, University of California (UCLA), USAen
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