Mr. Natzem A. Lima Profile

Natzem A. Lima

at Wyant College of Optical Sciences

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Author

Publications (9)

SPIE Journal Paper | 31 May 2024

Roadmap to a large area multispectral fluorescence imaging system

Natzem Lima, Travis Sawyer

OE, Vol. 63, Issue 05, 055105, (May 2024) https://doi.org/10.1117/12.10.1117/1.OE.63.5.055105

KEYWORDS: Tunable filters, Fluorescence, Fluorescence imaging, Imaging systems, Light sources and illumination, Equipment, Optical filters, Image filtering, Design, Multispectral imaging

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SignificanceMultispectral fluorescence imaging (MSFI) is a technique that measures endogenous and exogenous tissue fluorescence to reveal crucial insights into underlying biological mechanisms. Developing well-characterized high-performance fluorescence imaging equipment is crucial to any clinical or research application. Considering the diverse range of clinical scenarios and ongoing research areas in biomedicine leveraging MSFI instrumentation, there is an evident and pressing need for comprehensive resources that detail the development of such tools.AimThis study provides a template for developing an MSFI instrument by highlighting the development and verification of our instrumentation. We present the design roadmap alongside the development of a large-area MSFI instrument to measure tissue fluorescence and diffuse reflectance properties.ApproachWe divide our design approach into four subsections, highlighting the important physical milestones: illumination, imaging, detection, and computation. Each subsection includes design considerations, the methods used to validate the performance, and finally, the results and discussion of the validation process.ResultsWe present the validation of the instrument across the illumination, imaging, detection, and computation subsystems. Two fluorophores are used to validate the instrument through serial dilution to establish a detection threshold and spectral capabilities limit. A mouse model expressing multi-colored fluorescent proteins is used to verify the multispectral performance.ConclusionsOur study lays out the groundwork for researchers to design and validate their own MSFI instrument. We present this alongside our instrument design to study fluorescence and diffuse reflectance properties of large-area tissues, such as murine or resected surgical specimens. Findings from the application of MSFI instrumentation can be translated to motivate and guide the design of fluorescence-based medical tools for the clinic or research environment.

Proceedings Article | 13 March 2024 Presentation

Assessment of polarized light imaging and optical coherence tomography for improved esophageal cancer detection

Justina Bonaventura, Natzem Lima, Aws Alameri, Shivanand Bomman, Bhaskar Banerjee, Hemanth Gavini, Travis Sawyer

Proceedings Volume PC12845, PC1284505 (2024) https://doi.org/10.1117/12.3003412

KEYWORDS: Optical coherence tomography, Coherence imaging, Cancer detection, Tissues, Polarized light, Optical imaging, Cancer, Endoscopy, Diseases and disorders, Algorithm development

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Proceedings Article | 13 March 2024 Presentation

Hyperspectral and auto-fluorescence imaging show promise for detection of esophageal cancer

Natzem Lima, Travis Sawyer, Justina Bonaventura, Aws Alameri, Shivanand Bomman, Bhaskar Banerjee, Hemanth Gavini, Joshua Routh

Proceedings Volume PC12854, PC128540G (2024) https://doi.org/10.1117/12.3001730

KEYWORDS: Cancer detection, Cancer, Hyperspectral imaging, Autofluorescence imaging, Endoscopy, Equipment, Biopsy, Tissues, Specular reflections, Reflectivity

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Proceedings Article | 13 March 2024 Poster + Paper

Fixative induced effects in labeled and unlabeled fluorescence: implications for biomedical imaging studies

Eliana Stilson, Natzem Lima, Julianne Setiadi, Ricky Sontz, Suzann Duan, Juanita Merchant, Travis Sawyer

Proceedings Volume 12827, 1282706 (2024) https://doi.org/10.1117/12.2690314

KEYWORDS: Tissues, Fluorescence, Fluorophores, Fluorescence intensity, Autofluorescence, Biological samples, Brain tissue, Tunable filters, Quenching, Biomedical optics

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SPIE Journal Paper | 23 January 2024 Open Access

Combined flat-field and frequency filter approach to correcting artifacts of multichannel two-photon microscopy

Thomas Knapp, Natzem Lima, Noelle Daigle, Suzann Duan, Juanita L. Merchant, Travis Sawyer

JBO, Vol. 29, Issue 01, 016007, (January 2024) https://doi.org/10.1117/12.10.1117/1.JBO.29.1.016007

KEYWORDS: Image processing, Tunable filters, Tissues, Image filtering, Image quality, Vignetting, Image fusion, Biological samples, Fourier transforms, Autofluorescence

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SPIE Journal Paper | 13 September 2023 Open Access

Wide field-of-view fluorescence imaging for organ-level lineage tracing of rare intestinal stem cell populations

Noelle Daigle, Suzann Duan, Heyu Song, Natzem Lima, Ricky Sontz, Juanita L. Merchant, Travis W. Sawyer

JBO, Vol. 28, Issue 09, 096004, (September 2023) https://doi.org/10.1117/12.10.1117/1.JBO.28.9.096004

KEYWORDS: Tissues, Fluorescence imaging, Stem cells, Animal model studies, Fluorescence, Intestine, Fluorescence microscopy, Proteins, Animals, Light sources and illumination

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SignificanceLineage tracing using fluorescent reporters is a common tool for monitoring the expression of genes and transcription factors in stem cell populations and their progeny. The zinc-binding protein 89 (ZBP-89/Zfp148 mouse gene) is a transcription factor that plays a role in gastrointestinal (GI) stem cell maintenance and cellular differentiation and has been linked to the progression of colon cancer. While lineage tracing is a useful tool, it is commonly performed with high-magnification microscopy on a small field of view within tissue sections, thereby limiting the ability to resolve reporter expression at the organ level. Furthermore, this technique requires extensive tissue processing, which is time consuming and requires euthanizing the animal. Further knowledge could be elucidated by measuring the expression of fluorescent reporters across entire organs with minimal tissue processing.AimWe present the application of wide-field fluorescence imaging for whole-organ lineage tracing of an inducible Zfp148-tdTomato-expressing transgenic mouse line to assess the expression of ZBP-89/Zfp148 in the GI tract.ApproachWe measured tdTomato fluorescence in ex vivo organs at time points between 24 h and 6 months post-induction. Fluctuations in tdTomato expression were validated by fluorescence microscopy of tissue sections.ResultsQuantification of the wide field-of-view images showed a statistically significant increase in fluorescent signal across the GI tract between transgenic mice and littermate controls. The results also showed a gradient of decreasing reporter expression from proximal to distal intestine, suggesting a higher abundance of ZBP-89 expressing stem cells, or higher expression of ZBP-89 within the stem cells, in the proximal intestine.ConclusionsWe demonstrate that wide-field fluorescence imaging is a valuable tool for monitoring whole-organ expression of fluorescent reporters. This technique could potentially be applied in vivo for longitudinal assessment of a single animal, further enhancing our ability to resolve rare stem cell lineages spatially and temporally.

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Proceedings Article | 4 March 2022 Presentation + Paper

Design and validation of a multispectral fluorescence imaging system for characterizing whole organ tissue fluorescence and reflectance properties

Natzem Lima, Travis Sawyer

Proceedings Volume 11944, 1194407 (2022) https://doi.org/10.1117/12.2608872

KEYWORDS: Sensors, Optical filters, Image filtering, Imaging systems, Modulation transfer functions, Luminescence, Tissues, Multispectral imaging, Ray tracing, Image sensors

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Proceedings Article | 2 March 2022 Presentation + Paper

Evaluation of tile artifact correction methods for multiphoton microscopy mosaics of whole-slide tissue sections

Thomas Knapp, Natzem Lima, Suzann Duan, Juanita Merchant, Travis Sawyer

Proceedings Volume 11966, 119660D (2022) https://doi.org/10.1117/12.2609634

KEYWORDS: Image processing, Image filtering, Image fusion, Image quality, Tissues, Multiphoton microscopy, Digital filtering, Microscopes, Microscopy, Tissue optics

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SPIE Journal Paper | 23 June 2021 Open Access

Mobile-based oral cancer classification for point-of-care screening

Bofan Song, Sumsum Sunny, Shaobai Li, Keerthi Gurushanth, Pramila Mendonca, Nirza Mukhia, Sanjana Patrick, Shubha Gurudath, Subhashini Raghavan, Tsusennaro Imchen, Shirley Leivon, Trupti Kolur, Vivek Shetty, Vidya Bushan, Rohan Ramesh, Natzem Lima, Vijay Pillai, Petra Wilder-Smith, Alben Sigamani, Amritha Suresh, Moni Kuriakose, Praveen Birur, Rongguang Liang

JBO, Vol. 26, Issue 06, 065003, (June 2021) https://doi.org/10.1117/12.10.1117/1.JBO.26.6.065003

KEYWORDS: Cancer, Image classification, Point-of-care devices, Internet, Convolution, Optimization (mathematics), Image processing, Tumor growth modeling, Light emitting diodes, Gold

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