Dr. Joshua Deal Profile

Dr. Joshua Deal

Senior Bio-Systems Applications Manager

SPIE Involvement:

Author

Area of Expertise:

Hyperspectral Imaging , Fluorescence , Optics , Data Analysis , Image Processing , Machine Vision

Websites:

Company Website

Profile Summary

I was recruited into the field of basic medical science to apply my knowledge and expertise in mathematics and statistics to biological problems. To that end, I joined a lab with an engineering oriented focus and began developing, improving, and applying a new technique called excitation-scanning hyperspectral imaging. This technique uses the behavior of light's unique response to objects to classify various materials and draw distinctions between them. For example, we are currently investigating the usefulness of excitation-scanning hyperspectral imaging in determination of disease states by classifying resected colon tissue into lesional and non-lesional segments. This research requires knowledge of optical pathways and components, basic scripting/programming to control the equipment, image processing techniques to combine the various images into a meaningful data set, and various types of data analysis techniques to interpret the data in a meaningful way.

Publications (16)

SPIE Journal Paper | 7 February 2023 Open Access

Open Access

Multifaceted mirror array illuminator for fluorescence excitation-scanning spectral imaging microscopy

Marina Parker, Samuel A. Mayes, Craig Browning, Joshua Deal, Samantha Gunn-Mayes, Naga Annamdevula, Thomas Rich, Silas Leavesley

JBO, Vol. 28, Issue 02, 026502, (February 2023) https://doi.org/10.1117/12.10.1117/1.JBO.28.2.026502

KEYWORDS: Light emitting diodes, Microscopes, Fluorescence, Mirrors, Signal to noise ratio, Tunable filters, Imaging systems, Prototyping, Autofluorescence, Optical filters

Read Abstract +

SignificanceHyperspectral imaging (HSI) technologies offer great potential in fluorescence microscopy for multiplexed imaging, autofluorescence removal, and analysis of autofluorescent molecules. However, there are also associated trade-offs when implementing HSI in fluorescence microscopy systems, such as decreased acquisition speed, resolution, or field-of-view due to the need to acquire spectral information in addition to spatial information. The vast majority of HSI fluorescence microscopy systems provide spectral discrimination by filtering or dispersing the fluorescence emission, which may result in loss of emitted fluorescence signal due to optical filters, dispersive optics, or supporting optics, such as slits and collimators. Technologies that scan the fluorescence excitation spectrum may offer an approach to mitigate some of these trade-offs by decreasing the complexity of the emission light path.AimWe describe the development of an optical technique for hyperspectral imaging fluorescence excitation-scanning (HIFEX) on a microscope system.ApproachThe approach is based on the design of an array of wavelength-dependent light emitting diodes (LEDs) and a unique beam combining system that uses a multifurcated mirror. The system was modeled and optimized using optical ray trace simulations, and a prototype was built and coupled to an inverted microscope platform. The prototype system was calibrated, and initial feasibility testing was performed by imaging multilabel slide preparations.ResultsWe present results from optical ray trace simulations, prototyping, calibration, and feasibility testing of the system. Results indicate that the system can discriminate between at least six fluorescent labels and autofluorescence and that the approach can provide decreased wavelength switching times, in comparison with mechanically tuned filters.ConclusionsWe anticipate that LED-based HIFEX microscopy may provide improved performance for time-dependent and photosensitive assays.

Proceedings Article | 2 March 2022 Presentation + Paper

Presentation + Paper

Validation of excitation-scan hyperspectral multi-faceted mirror array prototype system advancements to hyperspectral imaging applications

Marina Parker, Sam Mayes, Craig Browning, Joshua Deal, Samantha Gunn-Mayes, Thomas Rich, Silas Leavesley

Proceedings Volume 11966, 1196606 (2022) https://doi.org/10.1117/12.2607659

KEYWORDS: Prototyping, Microscopes, Imaging systems, Light emitting diodes, Confocal microscopy, Mirrors, Microscopy, Luminescence, Hyperspectral imaging

Read Abstract +

Proceedings Article | 2 March 2020 Paper

Paper

Optical simulations for determining efficacy of new light source designs for excitation-scanning high-speed hyperspectral imaging systems

Craig Browning, Joshua Deal, Samantha Gunn Mayes, Marina Parker, Thomas Rich, Silas Leavesley

Proceedings Volume 11216, 112160W (2020) https://doi.org/10.1117/12.2545201

KEYWORDS: Waveguides, Light emitting diodes, Light sources, Hyperspectral imaging, Solids, Sensors, Colorectal cancer, Endoscopy, Visualization, Ray tracing

Read Abstract +

Proceedings Article | 17 February 2020 Presentation + Paper

Presentation + Paper

Excitation-scan mirror array system advancements to hyperspectral imaging applications

Marina Parker, Craig Browning, Sam Mayes, Joshua Deal, Samantha Gunn-Mayes, Thomas Rich, Silas Leavesley

Proceedings Volume 11245, 112450Y (2020) https://doi.org/10.1117/12.2546485

KEYWORDS: Light emitting diodes, Hyperspectral imaging, Green fluorescent protein, Mirrors, Imaging systems, Microscopy, Systems modeling, Spectral resolution, Luminescence, Light sources

Read Abstract +

Proceedings Article | 17 February 2020 Presentation + Paper

Presentation + Paper

Comparison of spectral FRET microscopy approaches for single-cell analysis

Joshua Deal, Naga Annamdevula, Donald Pleshinger, John Robert Griswold, Aliyah Odom, Alia Tayara, Malvika Lall, Craig Browning, Marina Parker, Thomas Rich, Silas Leavesley

Proceedings Volume 11243, 112430Y (2020) https://doi.org/10.1117/12.2546308

KEYWORDS: Fluorescence resonance energy transfer, Confocal microscopy, Microscopy, Molecules, Luminescence, Molecular energy transfer, Data acquisition, Electronic filtering, Optical filters, Hyperspectral imaging

Read Abstract +

Proceedings Article | 4 March 2019 Presentation + Paper

Presentation + Paper

Optimizing channel selection for excitation-scanning hyperspectral imaging

Joshua Deal, Thomas Rich, Silas Leavesley

Proceedings Volume 10881, 108811B (2019) https://doi.org/10.1117/12.2510784

KEYWORDS: Fluorescent markers, Hyperspectral imaging, Luminescence, Microscopes, Data acquisition, Image processing, Image visualization, Visualization, RGB color model, Optical filters

Read Abstract +

Proceedings Article | 4 March 2019 Paper

Paper

Hyperspectral imaging fluorescence excitation scanning spectral characteristics of remodeled mouse arteries

Joshua Deal, Stuart McFarland, Anna Robinson, Anna Alford, David Weber, Thomas Rich, Silas Leavesley

Proceedings Volume 10890, 108902M (2019) https://doi.org/10.1117/12.2510770

KEYWORDS: Arteries, Signal detection, Molecules, Luminescence, Visualization, Optical filters, Hyperspectral imaging, Microscopes, Ultraviolet radiation, Image filtering

Read Abstract +

Proceedings Article | 4 March 2019 Presentation + Paper

Presentation + Paper

Hyperspectral imaging microscopy for measurement of localized second messenger signals in single cells

Thomas Rich, J. Griswold, Joshua Deal, Naga Annamdevula, Kathleen McAlister, Samuel Mayes, Craig Browning, Marina Parker, Silas Leavesley

Proceedings Volume 10881, 108811F (2019) https://doi.org/10.1117/12.2508052

KEYWORDS: Proteins, Signal to noise ratio, Signal detection, 3D metrology

Read Abstract +

Proceedings Article | 27 February 2019 Paper

Paper

Sensitivity analysis of a multibranched light guide for real time hyperspectral imaging systems

Craig Browning, Samuel Mayes, Joshua Deal, Arslan Arshad, Samantha Gunn Mayes, Marina Parker, Thomas Rich, Silas Leavesley

Proceedings Volume 10871, 1087107 (2019) https://doi.org/10.1117/12.2510506

KEYWORDS: Light emitting diodes, Waveguides, Solids, Prototyping, Endoscopy, Hyperspectral imaging, Data modeling, Monte Carlo methods, Colorectal cancer, Transmittance

Read Abstract +

Proceedings Article | 21 February 2019 Presentation + Paper

Presentation + Paper

Hyperspectral imaging fluorescence excitation scanning (HIFEX) microscopy for live cell imaging

Silas Leavesley, John Griswold, Joshua Deal, Kathleen McAlister, Sam Mayes, Craig Browning, Marina Parker, Samantha Gunn Mayes, Thomas Rich

Proceedings Volume 10883, 108831A (2019) https://doi.org/10.1117/12.2510562

KEYWORDS: Luminescence, Hyperspectral imaging, Visualization, Tunable filters, Imaging spectroscopy, Optical filters, Microscopy, Live cell imaging, Microscopes, Image filtering

Read Abstract +

SPIE Journal Paper | 27 December 2018 Open Access

Open Access

Identifying molecular contributors to autofluorescence of neoplastic and normal colon sections using excitation-scanning hyperspectral imaging

Joshua Deal, Sam Mayes, Craig Browning, Shante Hill, Paul Rider, Carole Boudreaux, Thomas Rich, Silas Leavesley

JBO, Vol. 24, Issue 02, 021207, (December 2018) https://doi.org/10.1117/12.10.1117/1.JBO.24.2.021207

KEYWORDS: Colon, Tissues, Hyperspectral imaging, Luminescence, Molecules, Image visualization, Collagen, Image processing, Signal detection, Image analysis

Read Abstract +

Autofluorescence, the endogenous fluorescence present in cells and tissues, has historically been considered a nuisance in biomedical imaging. Many endogenous fluorophores, specifically, collagen, elastin, nicotinamide adenine dinucleotide, and flavin adenine dinucleotide (FAD), are found throughout the human body. In fluorescence imaging scenarios, these signals can be prohibitive as they can outcompete signals introduced for diagnostic purposes. However, autofluorescence also contains information that has diagnostic value. Recent advances in hyperspectral imaging have allowed the acquisition of significantly more data in a shorter time period by scanning the excitation spectra of fluorophores. The reduced acquisition time and increased signal-to-noise ratio allow for separation of significantly more fluorophores than previously possible. We propose to utilize excitation-scanning hyperspectral imaging of autofluorescence to differentiate neoplastic lesions from surrounding non-neoplastic “normal” tissue. The spectra of isolated autofluorescent molecules are obtained using a custom inverted microscope (TE-2000, Nikon Instruments) with an Xe arc lamp and thin-film tunable filter array (VersaChrome, Semrock, Inc.). Scans utilize excitation wavelengths from 360 to 550 nm in 5-nm increments. The resultant molecule-specific spectra are used to analyze hyperspectral image stacks from normal and neoplastic colorectal tissues. Due to a limited number of samples, neoplastic tissues examined here are a pool of both colorectal adenocarcinoma and adenomatous polyps. The hyperspectral images are analyzed with ENVI software and custom MATLAB scripts, including linear spectral unmixing. Initial results indicate the ability to separate signals of endogenous fluorophores and measure the relative concentrations of fluorophores among healthy and diseased states, in this case, normal colon versus neoplastic colon. These results suggest pathology-specific changes to endogenous fluorophores can be detected using excitation-scanning hyperspectral imaging. Future work will focus on expanding the library of pure molecules, exploring histogram distance metrics as a means for identifying deviations in spectral signatures, and examining more defined disease states.

Proceedings Article | 20 February 2018 Presentation + Paper

Presentation + Paper

Demystifying autofluorescence with excitation scanning hyperspectral imaging

Joshua Deal, Bradley Harris, Will Martin, Malvika Lall, Carmen Lopez, Paul Rider, Carole Boudreaux, Thomas Rich, Silas Leavesley

Proceedings Volume 10497, 1049715 (2018) https://doi.org/10.1117/12.2290818

KEYWORDS: Luminescence, Hyperspectral imaging, Tissues, Molecules, Signal detection, Collagen, Image processing, Imaging systems, Microscopy, Diagnostics

Read Abstract +

Proceedings Article | 19 February 2018 Presentation + Paper

Presentation + Paper

Colorectal cancer detection by hyperspectral imaging using fluorescence excitation scanning

Silas Leavesley, Joshua Deal, Shante Hill, Will Martin, Malvika Lall, Carmen Lopez, Paul Rider, Thomas Rich, Carole Boudreaux

Proceedings Volume 10489, 104890K (2018) https://doi.org/10.1117/12.2290696

KEYWORDS: Tumors, Hyperspectral imaging, Tissues, Luminescence, Image classification, Imaging spectroscopy, Biomedical optics, Colorectal cancer, Pathology, Image analysis

Read Abstract +

Proceedings Article | 17 February 2017 Paper

Paper

5D imaging approaches reveal the formation of distinct intracellular cAMP spatial gradients

Thomas Rich, Naga Annamdevula, Kenny Trinh, Andrea Britain, Samuel Mayes, John Griswold, Joshua Deal, Chase Hoffman, Savannah West, Silas Leavesley

Proceedings Volume 10070, 100700R (2017) https://doi.org/10.1117/12.2253164

KEYWORDS: Fluorescence resonance energy transfer, Hyperspectral imaging, Microscopy, Signal to noise ratio, 3D metrology, Visualization, Sensors, Venus, Fluorescent proteins, Imaging technologies, 3D image processing, Luminescence

Read Abstract +

Proceedings Article | 16 February 2017 Presentation + Paper

Presentation + Paper

Excitation-scanning hyperspectral imaging as a means to discriminate various tissues types

Joshua Deal, Peter Favreau, Carmen Lopez, Malvika Lall, David Weber, Thomas Rich, Silas Leavesley

Proceedings Volume 10068, 1006816 (2017) https://doi.org/10.1117/12.2251682

KEYWORDS: Tissues, Hyperspectral imaging, Luminescence, Image analysis, Principal component analysis, Diagnostics, Microscopes, Xenon, Lamps, Thin films, Colon, Image visualization, Data acquisition, Visualization

Read Abstract +

Proceedings Article | 6 April 2016 Presentation + Paper

Presentation + Paper

Feasibility for detection of autofluorescent signatures in rat organs using a novel excitation-scanning hyperspectral imaging system

Peter Favreau, Joshua Deal, David Weber, Thomas Rich, Silas Leavesley

Proceedings Volume 9711, 971113 (2016) https://doi.org/10.1117/12.2213214

KEYWORDS: Lung, Tunable filters, Cancer, Tumors

Read Abstract +

Showing 5 of 16 publications

SIGN IN TO:

View contact details

UPDATE YOUR PROFILE

Is this your profile? Update it now.

Sign into your SPIE.org account

Don’t have a profile and want one?

Create an account on SPIE.org

Advertisement

Advertisement