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<article article-type="research-article" dtd-version="1.3" xmlns:mml="http://www.w3.org/1998/Math/MathML" xmlns:xlink="http://www.w3.org/1999/xlink" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xml:lang="en"><front><journal-meta><journal-id journal-id-type="publisher-id">sechenov</journal-id><journal-title-group><journal-title xml:lang="en">Sechenov Medical Journal</journal-title><trans-title-group xml:lang="ru"><trans-title>Сеченовский вестник</trans-title></trans-title-group></journal-title-group><issn pub-type="ppub">2218-7332</issn><issn pub-type="epub">2658-3348</issn><publisher><publisher-name>Сеченовский Университет</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="doi">10.47093/2218-7332.2023.14.1.39-49</article-id><article-id custom-type="elpub" pub-id-type="custom">sechenov-899</article-id><article-categories><subj-group subj-group-type="heading"><subject>Research Article</subject></subj-group><subj-group subj-group-type="section-heading" xml:lang="en"><subject>MODELING IN MEDICINE</subject></subj-group><subj-group subj-group-type="section-heading" xml:lang="ru"><subject>МОДЕЛИРОВАНИЕ В МЕДИЦИНЕ</subject></subj-group></article-categories><title-group><article-title>Segmentation of renal structures based on contrast computed tomography scans using a convolutional neural network</article-title><trans-title-group xml:lang="ru"><trans-title>Сегментация почечных структур по изображениям контрастной компьютерной томографии с помощью сверточной нейронной сети</trans-title></trans-title-group></title-group><contrib-group><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0000-0001-5968-9883</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Черненький</surname><given-names>И. М.</given-names></name><name name-style="western" xml:lang="en"><surname>Chernenkiy</surname><given-names>I. М.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Иван Михайлович Черненький, инженер-программист</p><p>Институт урологии и репродуктивных систем человека</p><p>центр нейросетевых технологий </p><p>119991</p><p>ул. Трубецкая, д. 8, стр. 2</p><p>Москва</p></bio><bio xml:lang="en"><p>Ivan М. Chernenkiy, software engineer</p><p>Institute of Urology and Human Reproductive Systems</p><p>Center for Neural Network Technologies</p><p>119991</p><p>8/2, Trubetskaya str.</p><p>Moscow</p></bio><email xlink:type="simple">chernenkiy_i_m@staff.sechenov.ru</email><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0000-0002-4001-5317</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Черненький</surname><given-names>М. М.</given-names></name><name name-style="western" xml:lang="en"><surname>Chernenkiy</surname><given-names>M. M.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Михаил Михайлович Черненький, инженер-физик</p><p>Институт урологии и репродуктивного здоровья человека</p><p>центр нейросетевых технологий</p><p>119991</p><p>ул. Трубецкая, д. 8, стр. 2</p><p>Москва</p></bio><bio xml:lang="en"><p>Michail M. Chernenkiy, physical engineer</p><p>Institute of Urology and Reproductive Health</p><p>Center for Neural Network Technologies</p><p>119991</p><p>8/2, Trubetskaya str.</p><p>Moscow</p></bio><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0000-0002-0401-8780</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Фиев</surname><given-names>Д. Н.</given-names></name><name name-style="western" xml:lang="en"><surname>Fiev</surname><given-names>D. N.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Дмитрий Николаевич Фиев, д-р мед. наук, врач-уролог</p><p>Институт урологии и репродуктивного здоровья человека</p><p>119991</p><p>ул. Трубецкая, д. 8, стр. 2</p><p>Москва</p></bio><bio xml:lang="en"><p>Dmitry N. Fiev, Dr. of Sci. (Medicine), urologist</p><p>Institute of Urology and Human Reproductive Health</p><p>119991</p><p>8/2, Trubetskaya str.</p><p>Moscow</p></bio><xref ref-type="aff" rid="aff-1"/></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">https://orcid.org/0000-0001-6419-0155</contrib-id><name-alternatives><name name-style="eastern" xml:lang="ru"><surname>Сирота</surname><given-names>Е. С.</given-names></name><name name-style="western" xml:lang="en"><surname>Sirota</surname><given-names>E. S.</given-names></name></name-alternatives><bio xml:lang="ru"><p>Евгений Сергеевич Сирота, д-р мед. наук, старший научный сотрудник</p><p>Институт урологии и репродуктивного здоровья человека</p><p>119991</p><p>ул. Трубецкая, д. 8, стр. 2</p><p>Москва</p></bio><bio xml:lang="en"><p>Evgeny S. Sirota, Dr. of Sci. (Medicine), Senior Researcher</p><p>Institute of Urology and Reproductive Health</p><p>119991</p><p>8/2, Trubetskaya str.</p><p>Moscow</p></bio><xref ref-type="aff" rid="aff-1"/></contrib></contrib-group><aff-alternatives id="aff-1"><aff xml:lang="ru"><institution>ФГАОУ ВО «Первый Московский государственный медицинский университет им. И. М. Сеченова» Минздрава России (Сеченовский Университет)</institution><country>Россия</country></aff><aff xml:lang="en"><institution>Sechenov First Moscow State Medical University (Sechenov University)</institution><country>Russian Federation</country></aff></aff-alternatives><pub-date pub-type="collection"><year>2023</year></pub-date><pub-date pub-type="epub"><day>30</day><month>03</month><year>2023</year></pub-date><volume>14</volume><issue>1</issue><fpage>39</fpage><lpage>49</lpage><permissions><copyright-statement>Copyright &amp;#x00A9; Chernenkiy I.М., Chernenkiy M.M., Fiev D.N., Sirota E.S., 2023</copyright-statement><copyright-year>2023</copyright-year><copyright-holder xml:lang="ru">Черненький И.М., Черненький М.М., Фиев Д.Н., Сирота Е.С.</copyright-holder><copyright-holder xml:lang="en">Chernenkiy I.М., Chernenkiy M.M., Fiev D.N., Sirota E.S.</copyright-holder><license xml:lang="ru" license-type="creative-commons-attribution" xlink:href="https://creativecommons.org/licenses/by/4.0/" xlink:type="simple"><license-p>Данная работа распространяется под лицензией Creative Commons Attribution 4.0.</license-p></license><license xml:lang="en" license-type="creative-commons-attribution" xlink:href="https://creativecommons.org/licenses/by/4.0/" xlink:type="simple"><license-p>This work is licensed under a Creative Commons Attribution 4.0 License.</license-p></license></permissions><self-uri xlink:href="https://www.sechenovmedj.com/jour/article/view/899">https://www.sechenovmedj.com/jour/article/view/899</self-uri><abstract><p>   Aim. Develop a neural network to build 3D models of kidney neoplasms and adjacent structures.   Materials and methods. DICOM data (Digital Imaging and Communications in Medicine standard) from 41 patients with kidney neoplasms were used. Data included all phases of contrast-enhanced multispiral computed tomography. We split the data: 32 observations for the training set and 9 – for the validation set. At the labeling stage, the arterial, venous, and excretory phases were taken, affine registration was performed to jointly match the location of the kidneys, and noise was removed using a median filter and a non-local means filter. Then the masks of arteries, veins, ureters, kidney parenchyma and kidney neoplasms were marked. The model was the SegResNet architecture. To assess the quality of segmentation, the Dice score was compared with the AHNet, DynUNet models and with three variants of the nnU-Net (lowres, fullres, cascade) model.   Results. On the validation subset, the values of the Dice score of the SegResNet architecture were: 0.89 for the normal parenchyma of the kidney, 0.58 for the kidney neoplasms, 0.86 for arteries, 0.80 for veins, 0.80 for ureters. The mean values of the Dice score for SegResNet, AHNet and DynUNet were 0.79; 0.67; and 0.75, respectively. When compared with the nnU-Net model, the Dice score was greater for the kidney parenchyma in SegResNet – 0.89 compared to three model variants: lowres – 0.69, fullres – 0.70, cascade – 0.69. At the same time, for the neoplasms of the parenchyma of the kidney, the Dice score was comparable: for SegResNet – 0.58, for nnU-Net fullres – 0.59; lowres and cascade had lower Dice score of 0.37 and 0.45, respectively.   Conclusion. The resulting SegResNet neural network finds vessels and parenchyma well. Kidney neoplasms are more difficult to determine, possibly due to their small size and the presence of false alarms in the network. It is planned to increase the sample size to 300 observations and use post-processing operations to improve the model.</p></abstract><trans-abstract xml:lang="ru"><p>   Цель. Разработать нейронную сеть для построения 3D-моделей образований почек и прилежащих структур.   Материалы и методы. Использованы DICOM данные 41 пациента с образованием почек. Данные включали все фазы мультиспиральной компьютерной томографии с контрастированием. Для обучения отобрано 32 наблюдения, для валидации – 9 наблюдений. На этапе разметки брались артериальная, венозная и экскреторная фазы, проводилась аффинная регистрация для совместного совпадения расположения почек и удаление шумов с помощью медианного фильтра и фильтра нелокальных средних. Затем были размечены маски артерий, вен, мочеточников, паренхимы почки и образований паренхимы. Моделью являлась архитектура SegResNet. Для оценки качества сегментации сравнивалась метрика Дайса с моделями AHNet, DynUNet и с тремя вариантами модели nnU-Net (lowres, fullres, cascade).   Результаты. На валидационной выборке значение метрики Дайса архитектуры SegResNet составило: для нормальной паренхимы почки – 0,89, образований почки – 0,58, артерий – 0,86, вен – 0,80, мочеточников – 0,80. Получены средние значения метрики Дайса для SegResNet, AHNet и DynUNet – 0,79; 0,67 и 0,75 соответственно. При сравнении с моделью nnU-Net метрика Дайса была больше для паренхимы почки у SegResNet – 0,89 по сравнению с тремя вариантами модели: lowres – 0,69, fullres – 0,70, cascade – 0,69. При этом для образований паренхимы почки метрикаДайса была сопоставимой: для SegResNet – 0,58, для nnU-Net fullres – 0,59; lowres и cascade имели меньшие значения метрики Дайса – 0,37 и 0,45 соответственно.   Заключение. Полученная нейронная сеть SegResNet хорошо находит сосуды и паренхиму. Образования почек определяются труднее, возможно, из-за малых размеров и наличия ложных срабатываний сети. Планируется увеличение размера выборки до 300 наблюдений и использование операций постобработки для улучшения модели.</p></trans-abstract><kwd-group xml:lang="ru"><kwd>нейронная сеть</kwd><kwd>опухоль почек</kwd><kwd>компьютерная томография</kwd><kwd>3D-моделирование</kwd><kwd>искусственный интеллект</kwd></kwd-group><kwd-group xml:lang="en"><kwd>neural network</kwd><kwd>kidney neoplasms</kwd><kwd>CT scan</kwd><kwd>3D modeling</kwd><kwd>artificial intelligence</kwd></kwd-group><funding-group><funding-statement xml:lang="ru">Исследование не имело спонсорской поддержки (собственные ресурсы)</funding-statement><funding-statement xml:lang="en">The study was not sponsored (own resources)</funding-statement></funding-group></article-meta></front><back><ref-list><title>References</title><ref id="cit1"><label>1</label><citation-alternatives><mixed-citation xml:lang="ru">Аксель Е. М. 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