Label-free cell viability assay using phase imaging with computational specificity

Abstract Existing approaches to evaluate cell viability involve cell staining with chemical reagents. However, this step of exogenous staining makes these methods undesirable for rapid, nondestructive and long term investigation. Here, we present instantaneous viability assessment of unlabeled cells using phase imaging with computation specificity (PICS). This new concept utilizes deep learning techniques to compute viability markers associated with the specimen measured by quantitative phase imaging. Demonstrated on HeLa cells culture, the proposed method reports approximately 95% accuracy in identifying injured and dead cells. Further comparison of cell morphology with labeled HeLa cells suggests that potential adverse effect on cell dynamics introduced by the viability reagents can be avoided using the label-free investigation method, which would be valuable for a broad range of biomedical applications.

[1]  Qiang Yang,et al.  A Survey on Transfer Learning , 2010, IEEE Transactions on Knowledge and Data Engineering.

[2]  T. Abee,et al.  Assessment of viability of microorganisms employing fluorescence techniques. , 2000, International journal of food microbiology.

[3]  H. J. Phillips Dye Exclusion Tests for Cell Viability , 1973 .

[4]  YoungJu Jo,et al.  Quantitative Phase Imaging Techniques for the Study of Cell Pathophysiology: From Principles to Applications , 2013, Sensors.

[5]  Nan Chi,et al.  Group-III-Nitride Superluminescent Diodes for Solid-State Lighting and High-Speed Visible Light Communications , 2019, IEEE Journal of Selected Topics in Quantum Electronics.

[6]  Li Fei-Fei,et al.  ImageNet: A large-scale hierarchical image database , 2009, CVPR.

[7]  Yuchen R. He,et al.  Reproductive outcomes predicted by phase imaging with computational specificity of spermatozoon ultrastructure , 2020, Proceedings of the National Academy of Sciences.

[8]  J. Zachary,et al.  Mechanisms and Morphology of Cellular Injury, Adaptation, and Death , 2017, Pathologic Basis of Veterinary Disease.

[9]  Gabriel Popescu,et al.  Imaging Collagen Properties in the Uterosacral Ligaments of Women With Pelvic Organ Prolapse Using Spatial Light Interference Microscopy (SLIM) , 2019, Front. Phys..

[10]  C. Depeursinge,et al.  Quantitative phase imaging in biomedicine , 2012, 2012 Conference on Lasers and Electro-Optics (CLEO).

[11]  Jong Chul Ye,et al.  Real-time Visualization of 3-d Dynamic Microscopic Objects Using Optical Diffraction Tomography References and Links , 2022 .

[12]  Young Jae Lee,et al.  PICS: Phase Imaging with Computational Specificity , 2020 .

[13]  Mingguang Shan,et al.  Optical excitation and detection of neuronal activity , 2017, bioRxiv.

[14]  Simcha K. Mirsky,et al.  Holographic virtual staining of individual biological cells , 2020, Proceedings of the National Academy of Sciences.

[15]  Christopher P. Austin,et al.  Cell Viability Assays -- Assay Guidance Manual , 2004 .

[16]  Gabriel Popescu,et al.  Quantitative Phase Imaging: Principles and Applications , 2019, Biological and Medical Physics, Biomedical Engineering.

[17]  Jimmy Ba,et al.  Adam: A Method for Stochastic Optimization , 2014, ICLR.

[18]  Ji Yi,et al.  Deep spectral learning for label-free optical imaging oximetry with uncertainty quantification , 2019, Light: Science & Applications.

[19]  Johannes Schindelin,et al.  TrackMate: An open and extensible platform for single-particle tracking. , 2017, Methods.

[20]  A. Ozcan,et al.  Deep learning in holography and coherent imaging , 2019, Light: Science & Applications.

[21]  J. Rogers,et al.  Spatial light interference microscopy (SLIM) , 2010, IEEE Photonic Society 24th Annual Meeting.

[22]  Hyun-seok Min,et al.  Quantitative Phase Imaging and Artificial Intelligence: A Review , 2018, IEEE Journal of Selected Topics in Quantum Electronics.

[23]  S. D. Babacan,et al.  White-light diffraction tomography of unlabelled live cells , 2014, Nature Photonics.

[24]  Gabriel Popescu,et al.  Quantitative Phase Imaging (QPI) in Neuroscience , 2019, IEEE Journal of Selected Topics in Quantum Electronics.

[25]  Pasquale Memmolo,et al.  Tomographic flow cytometry by digital holography , 2016, Light: Science & Applications.

[26]  Govind Rao,et al.  Comparison of Trypan Blue Dye Exclusion and Fluorometric Assays for Mammalian Cell Viability Determinations , 1993, Biotechnology progress.

[27]  Yibo Zhang,et al.  Phase recovery and holographic image reconstruction using deep learning in neural networks , 2017, Light: Science & Applications.

[28]  Laura Waller,et al.  Deep phase decoder: self-calibrating phase microscopy with an untrained deep neural network , 2020, Optica.

[29]  Ross B. Girshick,et al.  Focal Loss for Dense Object Detection , 2017, IEEE Transactions on Pattern Analysis and Machine Intelligence.

[30]  Gabriel Popescu,et al.  Epi-illumination gradient light interference microscopy for imaging opaque structures , 2019, Nature Communications.

[31]  Gabriel Popescu,et al.  Harmonic optical tomography of nonlinear structures , 2020, Nature Photonics.

[32]  Entanglement and nonlocality in multi-particle systems , 2011, 1112.0378.

[33]  Barry R. Masters,et al.  Quantitative Phase Imaging of Cells and Tissues , 2012 .

[34]  Adam Wax,et al.  Optical Phase Measurements of Disorder Strength Link Microstructure to Cell Stiffness. , 2017, Biophysical journal.

[35]  Yibo Zhang,et al.  PhaseStain: the digital staining of label-free quantitative phase microscopy images using deep learning , 2018, Light: Science & Applications.

[36]  Warren Strober,et al.  Trypan Blue Exclusion Test of Cell Viability , 2001, Current protocols in immunology.

[37]  Gabriel Popescu,et al.  Quantitative Phase Imaging , 2012 .

[38]  Quoc V. Le,et al.  EfficientNet: Rethinking Model Scaling for Convolutional Neural Networks , 2019, ICML.

[39]  G. Popescu,et al.  Bond-selective transient phase imaging via sensing of the infrared photothermal effect , 2019, Light, science & applications.

[40]  Anne E Carpenter,et al.  Evaluation of Deep Learning Strategies for Nucleus Segmentation in Fluorescence Images , 2018, bioRxiv.

[41]  Suliana Manley,et al.  Optical measurement of cell membrane tension. , 2006, Physical review letters.