DOI: 10.7910/dvn/1fw2i6
title: 3D numerical breast phantom: Normalization of optical fluence distribution for 3D functional OAT

description: Companion dataset of the manuscript:
&lt;br&gt; Seonyeong Park, Frank J. Brooks, Umberto Villa, Richard Su, Mark A. Anastasio, Alexander A. Oraevsky, "&lt;b&gt;Normalization of optical fluence distribution for three-dimensional functional optoacoustic tomography of the breast&lt;/b&gt;," &lt;em&gt;J. Biomed. Opt.&lt;/em&gt; 27(3) 036001 (16 March 2022) &lt;a href="https://doi.org/10.1117/1.JBO.27.3.036001" rel="nofollow" target="_blank"&gt;https://doi.org/10.1117/1.JBO.27.3.036001&lt;/a&gt;
&lt;hr&gt; This dataset contains an anatomically realistic numerical breast phantom (NBP) to validate &lt;em&gt;optical fluence normalization&lt;/em&gt; methods for quantitative and functional optoacoustic tomography (OAT). Specifically, it includes &lt;b&gt;1)&lt;/b&gt; 3D maps of optical absorption coefficient; &lt;b&gt;2)&lt;/b&gt; 3D maps of simulated optical fluence distribution, and &lt;b&gt;3)&lt;/b&gt; 3D OAT reconstructed images at three wavelengths in the near-infrared range. 
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&lt;br&gt;The images were reconstructed from noisy synthetic data using filtered back-projection (FBP). The size of the reconstructed image is 480 × 480 × 240 voxels (120 × 120 × 60 mm&lt;sup&gt;3&lt;/sup&gt;). To simulate the synthetic data, a NBP was created using a &lt;em&gt;computational framework for virtual 3D OAT breast imaging trials&lt;/em&gt;, developed by the authors of the reference &lt;a href="https://doi.org/10.1117/12.2552380" rel="nofollow" target="_blank"&gt;[Park2020]&lt;/a&gt;. Further details of the NBP; functional, optical, and acoustic property assignment; and simulation of optoacoustic signals are in the accompanying paper &lt;a href="https://doi.org/10.1117/1.JBO.27.3.036001" rel="nofollow" target="_blank"&gt;[Park2022]&lt;/a&gt;. 

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&lt;br&gt; The following files are included in this dataset: 
&lt;ul&gt;
 &lt;li&gt; &lt;strong&gt;mu_a_w{757, 800, 850}.mat&lt;/strong&gt;: Optical absorption coefficient distributions of a NBP at illumination wavelengths of 757 nm, 800 nm, and 850 nm; &lt;/li&gt;
 &lt;li&gt; &lt;strong&gt;optical_fluence_w{757, 800, 850}.mat&lt;/strong&gt;: Optical fluence distributions of a NBP that were simulated at illumination wavelengths of 757 nm, 800 nm, and 850 nm using the &lt;a href="http://mcx.space/wiki/index.cgi?Doc/MCXLAB" rel="nofollow" target="_blank"&gt;MCXLAB software&lt;/a&gt; &lt;a href="https://doi.org/10.1364/OE.17.020178" rel="nofollow" target="_blank"&gt;[Fang2009]&lt;/a&gt;, &lt;a href="https://doi.org/10.1117/1.JBO.23.1.010504" rel="nofollow" target="_blank"&gt;[Yu2018]&lt;/a&gt;; and &lt;/li&gt;
 &lt;li&gt; &lt;strong&gt;RECON_NOISY_w{757, 800, 850}_FBP.mat&lt;/strong&gt;: Images reconstructed from noisy synthetic measurements of a NBP, that were simulated at illumination wavelengths of 757 nm, 800 nm, and 850 nm, using FBP. &lt;/li&gt; 
&lt;/ul&gt; These data were saved as MATLAB binary files version 5 (extension &lt;b&gt;.mat&lt;/b&gt;). They can be imported in MATLAB using the &lt;b&gt;load&lt;/b&gt; function.
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&lt;br&gt; The code of &lt;em&gt;optical fluence normalization&lt;/em&gt; is available from the GitHub repository: &lt;a href="https://github.com/comp-imaging-sci/optical-fluence-normalization_3d-oat-breast" rel="nofollow" target="_blank"&gt;comp-imaging-sci/optical-fluence-normalization_3d-oat-breast&lt;/a&gt;.
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