Publications by authors named "Pradipta Mukherjee"

The wavelength and system-resolution dependencies of dynamic optical coherence tomography (DOCT) are investigated experimentally and numerically. Experimental investigations demonstrate significant wavelength dependency for the DOCT values but no marked resolution dependency. Numerical simulations were performed using diffusion, random-ballistic motion, and mono-directional flow-based motion models.

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Dynamic optical coherence tomography (DOCT) enables label-free functional imaging by capturing temporal OCT signal variations caused by intracellular and intratissue motions. However, the relationship between DOCT signals and the sample motion behind them remains unclear. This paper presents a comprehensive DOCT simulation framework that incorporates mathematical models of intracellular/intratissue motions, two OCT signal generator types that generate OCT signal time sequences from the moving scatterer models, and representative DOCT algorithms.

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The germination process of radish sprouts was investigated in detail using volumetric dynamic optical coherence tomography (OCT). Dynamic OCT involves the sequential acquisition of 16 OCT images and subsequent temporal variance analysis of each pixel, enabling non-invasive visualization of the cellular and tissue activities of plants. The radish sprouts were longitudinally investigated for up to 12 days, and changes in morphology and dynamic OCT image patterns were observed as the plants developed.

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Article Synopsis
  • A new deep-learning scatterer density estimator (SDE) was developed to analyze speckle patterns in optical coherence tomography (OCT) images and accurately estimate the density of scatterers.
  • This SDE was trained on a large dataset of simulated OCT images that included a sophisticated noise model, accounting for shot noise, relative-intensity noise, and non-optical noise.
  • Evaluations using scattering phantoms and tumor spheroids showed that the SDE significantly improved estimation accuracy compared to previous versions that used less effective noise models.
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Article Synopsis
  • The text mentions a correction to an article found on page 168 of volume 13.
  • The article is identified by its PubMed ID (PMID) 35154862.
  • This correction likely addresses errors or updates that need to be noted for accuracy in the original publication.
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We demonstrate label-free dynamic optical coherence tomography (D-OCT)-based visualization and quantitative assessment of patterns of tumor spheroid response to three anti-cancer drugs. The study involved treating human breast adenocarcinoma (MCF-7 cell-line) with paclitaxel (PTX), tamoxifen citrate (TAM), and doxorubicin (DOX) at concentrations of 0 (control), 0.1, 1, and 10 µM for 1, 3, and 6 days.

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  • Polarization-sensitive optical coherence tomography (PS-OCT) is a biomedical imaging technique that helps differentiate tissue properties but struggles with accuracy due to multiple-scattering signals.
  • A new method was developed to reduce these multiple-scattering signals by using different focal positions and averaging multiple measurements, while maintaining single scattering signals via computational refocusing.
  • Validation tests on a scattering phantom and a medaka fish showed that this approach significantly reduced measurement artifacts, leading to improved accuracy in analyzing tissue properties, especially in deeper sample regions.
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This study aims at demonstrating label-free drug-response-patterns assessment of different tumor spheroids and drug types by dynamic optical coherence tomography (D-OCT). The study involved human breast cancer (MCF-7) and colon cancer (HT-29) spheroids. The MCF-7 and HT-29 spheroids were treated with paclitaxel (Taxol; PTX) and the active metabolite of irinotecan SN-38, respectively.

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Renal tubule has distinct metabolic features and functional activity that may be altered during kidney disease. In this paper, we present label-free functional activity imaging of renal tubule in normal and obstructed mouse kidney models using three-dimensional (3D) dynamic optical coherence tomography (OCT) ex vivo. To create an obstructed kidney model, we ligated the ureter of the left kidney for either 7 or 14 days.

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A new formulation of the lateral imaging process of point-scanning optical coherence tomography (OCT) and a new differential contrast method designed by using this formulation are presented. The formulation is based on a mathematical sample model called the dispersed scatterer model (DSM), in which the sample is represented as a material with a spatially slowly varying refractive index and randomly distributed scatterers embedded in the material. It is shown that the formulation represents a meaningful OCT image and speckle as two independent mathematical quantities.

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An organoid is a three-dimensional (3D) cell culture emulating human organs. We applied 3D dynamic optical coherence tomography (DOCT) to visualize the intratissue and intracellular activities of human induced pluripotent stem cells (hiPSCs)-derived alveolar organoids in normal and fibrosis models. 3D DOCT data were acquired with an 840-nm spectral domain optical coherence tomography with axial and lateral resolutions of 3.

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Breast cancer is a leading cause of death in female patients worldwide. Further research is needed to get a deeper insight into the mechanisms involved in the development of this devastating disease and to find new therapy strategies. The zebrafish is an established animal model, especially in the field of oncology, which has shown to be a promising candidate for pre-clinical research and precision-based medicine.

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Label-free metabolic imaging of non-alcoholic fatty liver disease (NAFLD) mouse liver is demonstrated by dynamic optical coherence tomography (OCT). The NAFLD mouse is a methionine choline-deficient (MCD)-diet model, and two mice fed the MCD diet for 1 and 2 weeks are involved in addition to a normal-diet mouse. The dynamic OCT is based on repeating raster scan and logarithmic intensity variance (LIV) analysis that enables volumetric metabolic imaging with a standard-speed (50,000 A-lines/s) OCT system.

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Article Synopsis
  • This text serves as a correction to a previously published article.
  • It specifically addresses an issue found on page 2975 in volume 13.
  • The aim is to clarify or amend information that was presented incorrectly in the original article.
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Article Synopsis
  • This study presents a new imaging technique called polarization sensitive optical coherence tomography (PS-OCT) that allows for long-depth-of-focus imaging through advanced computational methods.
  • The technique combines phase-sensitive refocusing based on the Fresnel diffraction model with Jones-matrix based PS-OCT, capturing four complex images for different polarization channels.
  • The effectiveness of this method was tested on various samples, including zebrafish and porcine muscle, showing that computational refocusing minimizes polarization artifacts that usually distort image quality.
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Article Synopsis
  • The study explores the use of zebrafish as a model for pre-clinical cancer research, employing advanced imaging technologies like Jones matrix optical coherence tomography (JM-OCT) and intensity-based spectral-domain OCT.
  • Researchers characterized various anatomical features of the zebrafish based on scattering and polarization to identify abnormalities related to tumors, particularly in the brain and eye regions.
  • The findings indicate a significant reduction in birefringence in tumor areas, demonstrating the effectiveness of OCT and JM-OCT for non-invasive, high-resolution imaging in cancer research.
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  • Researchers developed a deep convolutional neural network (DCNN) to estimate key parameters such as tissue scatterer density, resolution, signal-to-noise ratio, and effective number of scatterers from optical coherence tomography (OCT) images.
  • The DCNN was trained on a massive dataset of 1,280,000 digitally generated image patches and was validated both numerically and experimentally, showing high accuracy in its estimations.
  • Experimental results indicated that the model could effectively measure scatterer density in scattering phantoms and even demonstrated its application in monitoring changes in a tumor cell spheroid during cell necrosis.
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Article Synopsis
  • * Researchers aimed to visualize and analyze the scattering and polarization features of the zebrafish's organs, including eyes, gills, and muscles, to understand developmental changes.
  • * The findings demonstrated that JM-OCT effectively captured detailed images of zebrafish organs and their blood vessels without using labels, providing a promising tool for studying zebrafish biology in real-time.
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We present a completely label-free three-dimensional (3D) optical coherence tomography (OCT)-based tissue dynamics imaging method for visualization and quantification of the metabolic and necrotic activities of tumor spheroid. Our method is based on a custom 3D scanning protocol that is designed to capture volumetric tissue dynamics tomography images only in a few tens of seconds. The method was applied to the evaluation of a tumor spheroid.

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We demonstrate label-free imaging of the functional and structural properties of microvascular complex in mice liver. The imaging was performed by a custom-built Jones-matrix based polarization sensitive optical coherence tomography (JM-OCT), which is capable of measuring tissue's attenuation coefficient, birefringence, and tiny tissue dynamics. Two longitudinal studies comprising a healthy liver and an early fibrotic liver model were performed.

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We present optical coherence tomography (OCT)-based tissue dynamics imaging method to visualize and quantify tissue dynamics such as subcellular motion based on statistical analysis of rapid-time-sequence OCT signals at the same location. The analyses include logarithmic intensity variance (LIV) method and two types of OCT correlation decay speed analysis (OCDS). LIV is sensitive to the magnitude of the signal fluctuations, while OCDSs including early- and late-OCDS (OCDS and OCDS , respectively) are sensitive to the fast and slow tissue dynamics, respectively.

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We propose a method for estimating the stiffness of bio-specimens by measuring their linear retardance properties under applied stress. For this purpose, we employ an epi-illumination Mueller matrix microscope and show the procedures for its calibration. We provide experimental results demonstrating how to apply Mueller matrix data to elastography, using chicken liver and chicken heart as biological samples.

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