Estimation of tertiary dentin thickness on pulp capping treatment with digital image processing technology

Dentists usually observe the tertiary dentin formation after pulp capping treatment by comparing periapical radiograph before and after treatment visually. However many dentists find difficulties to observe tertiary dentin and also they can’t measure exactly the thickness of the tertiary dentin. The aims of this study is to assist the dentists to measure the area of tertiary dentin and calculate the dentin formation using b-spline image processing. The dental radiograph of 38 patients of pulp capping in the Dental Hospital Universitas Muhammadiyah Yogyakarta, Indonesia. Each of patient visited dental hospital 3 times. First, the patient got an application of pulp capping material. Second, after one-week treatment and temporary restoration and the third, after more than one month with the composite as the final restoration. Every visited the patient take a radiograph. Dentist placed the dot from the patient's radiograph. The dots were combined and processed with digital image processing. The b-spline method changed the dot to one area. After the calculation, the dentist can see whether there was dentin formation which means it is one of the treatment success indicators. Dentist has the better view to measure the dentin formation by providing area value of its tertiary dentin thickness calculation. We compare the result to the program calculation using the b-spline method and visual observation from the dentist. This study indicated the thickness of tertiary dentin can be measured by this program with an accuracy of 94.2%. Therefore, dentist can make tertiary dentin thickness prediction from patient’s radiograph

Open-Full-Jaw: An open-access dataset and pipeline for finite element models of human jaw

Developing computational models of the human jaw acquired from cone-beam computed tomography (CBCT) scans is time-consuming and labor-intensive. Besides, a quantitative comparison is not attainable in the literature due to the involved manual tasks and the lack of surface/volumetric meshes. We share an open-access repository of 17 patient-specific finite-element (FE) models of human jaws acquired from CBCT scans and the utilized pipeline for generating them. The proposed pipeline minimizes model generation time and potential errors caused by human interventions. It gets dense surface meshes and provides reduced conformal surface/volumetric meshes suitable for FE analysis. We have quantified the geometrical variations of developed models and assessed models' accuracy from different aspects; (1) the maximum deviations from the input meshes, (2) the mesh quality, and (3) the simulation results. Our results indicate that the developed computational models are precise and have quality meshes suitable for various FE scenarios. Therefore, we believe this dataset will pave the way for future population studies

Differently stained whole slide image registration technique with landmark validation

Abstract. One of the most significant features in digital pathology is to compare and fuse successive differently stained tissue sections, also called slides, visually. Doing so, aligning different images to a common frame, ground truth, is required. Current sample scanning tools enable to create images full of informative layers of digitalized tissues, stored with a high resolution into whole slide images. However, there are a limited amount of automatic alignment tools handling large images precisely in acceptable processing time. The idea of this study is to propose a deep learning solution for histopathology image registration. The main focus is on the understanding of landmark validation and the impact of stain augmentation on differently stained histopathology images. Also, the developed registration method is compared with the state-of-the-art algorithms which utilize whole slide images in the field of digital pathology. There are previous studies about histopathology, digital pathology, whole slide imaging and image registration, color staining, data augmentation, and deep learning that are referenced in this study. The goal is to develop a learning-based registration framework specifically for high-resolution histopathology image registration. Different whole slide tissue sample images are used with a resolution of up to 40x magnification. The images are organized into sets of consecutive, differently dyed sections, and the aim is to register the images based on only the visible tissue and ignore the background. Significant structures in the tissue are marked with landmarks. The quality measurements include, for example, the relative target registration error, structural similarity index metric, visual evaluation, landmark-based evaluation, matching points, and image details. These results are comparable and can be used also in the future research and in development of new tools. Moreover, the results are expected to show how the theory and practice are combined in whole slide image registration challenges. DeepHistReg algorithm will be studied to better understand the development of stain color feature augmentation-based image registration tool of this study. Matlab and Aperio ImageScope are the tools to annotate and validate the image, and Python is used to develop the algorithm of this new registration tool. As cancer is globally a serious disease regardless of age or lifestyle, it is important to find ways to develop the systems experts can use while working with patients’ data. There is still a lot to improve in the field of digital pathology and this study is one step toward it.Eri menetelmin värjättyjen virtuaalinäytelasien rekisteröintitekniikka kiintopisteiden validointia hyödyntäen. Tiivistelmä. Yksi tärkeimmistä digitaalipatologian ominaisuuksista on verrata ja fuusioida peräkkäisiä eri menetelmin värjättyjä kudosleikkeitä toisiinsa visuaalisesti. Tällöin keskenään lähes identtiset kuvat kohdistetaan samaan yhteiseen kehykseen, niin sanottuun pohjatotuuteen. Nykyiset näytteiden skannaustyökalut mahdollistavat sellaisten kuvien luonnin, jotka ovat täynnä kerroksittaista tietoa digitalisoiduista näytteistä, tallennettuna erittäin korkean resoluution virtuaalisiin näytelaseihin. Tällä hetkellä on olemassa kuitenkin vain kourallinen automaattisia työkaluja, jotka kykenevät käsittelemään näin valtavia kuvatiedostoja tarkasti hyväksytyin aikarajoin. Tämän työn tarkoituksena on syväoppimista hyväksikäyttäen löytää ratkaisu histopatologisten kuvien rekisteröintiin. Tärkeimpänä osa-alueena on ymmärtää kiintopisteiden validoinnin periaatteet sekä eri väriaineiden augmentoinnin vaikutus. Lisäksi tässä työssä kehitettyä rekisteröintialgoritmia tullaan vertailemaan muihin kirjallisuudessa esitettyihin algoritmeihin, jotka myös hyödyntävät virtuaalinäytelaseja digitaalipatologian saralla. Kirjallisessa osiossa tullaan siteeraamaan aiempia tutkimuksia muun muassa seuraavista aihealueista: histopatologia, digitaalipatologia, virtuaalinäytelasi, kuvantaminen ja rekisteröinti, näytteen värjäys, data-augmentointi sekä syväoppiminen. Tavoitteena on kehittää oppimispohjainen rekisteröintikehys erityisesti korkearesoluutioisille digitalisoiduille histopatologisille kuville. Erilaisissa näytekuvissa tullaan käyttämään jopa 40-kertaista suurennosta. Kuvat kudoksista on järjestetty eri menetelmin värjättyihin peräkkäisiin kuvasarjoihin ja tämän työn päämääränä on rekisteröidä kuvat pohjautuen ainoastaan kudosten näkyviin osuuksiin, jättäen kuvien tausta huomioimatta. Kudosten merkittävimmät rakenteet on merkattu niin sanotuin kiintopistein. Työn laatumittauksina käytetään arvoja, kuten kohteen suhteellinen rekisteröintivirhe (rTRE), rakenteellisen samankaltaisuuindeksin mittari (SSIM), sekä visuaalista arviointia, kiintopisteisiin pohjautuvaa arviointia, yhteensopivuuskohtia, ja kuvatiedoston yksityiskohtia. Nämä arvot ovat verrattavissa myös tulevissa tutkimuksissa ja samaisia arvoja voidaan käyttää uusia työkaluja kehiteltäessä. DeepHistReg metodi toimii pohjana tässä työssä kehitettävälle näytteen värjäyksen parantamiseen pohjautuvalle rekisteröintityökalulle. Matlab ja Aperio ImageScope ovat ohjelmistoja, joita tullaan hyödyntämään tässä työssä kuvien merkitsemiseen ja validointiin. Ohjelmointikielenä käytetään Pythonia. Syöpä on maailmanlaajuisesti vakava sairaus, joka ei katso ikää eikä elämäntyyliä. Siksi on tärkeää löytää uusia keinoja kehittää työkaluja, joita asiantuntijat voivat hyödyntää jokapäiväisessä työssään potilastietojen käsittelyssä. Digitaalipatologian osa-alueella on vielä paljon innovoitavaa ja tämä työ on yksi askel eteenpäin taistelussa syöpäsairauksia vastaan

An Image-Based Tool to Examine Joint Congruency at the Elbow

Post-traumatic osteoarthritis commonly occurs as a result of a traumatic event to the articulation. Although the majority of this type of arthritis is preventable, the sequence and mechanism of the interaction between joint injury and the development of osteoarthritis (OA) is not well understood. It is hypothesized that alterations to the joint alignment can cause excessive and damaging wear to the cartilage surfaces resulting in OA. The lack of understanding of both the cause and progression of OA has contributed to the slow development of interventions which can modify the course of the disease. Currently, there have been no reported techniques that have been developed to examine the relationship between joint injury and joint alignment. Therefore, the objective of this thesis was to develop a non-invasive image-based technique that can be used to assess joint congruency and alignment of joints undergoing physiologic motion. An inter-bone distance algorithm was developed and validated to measure joint congruency at the ulnohumeral joint of the elbow. Subsequently, a registration algorithm was created and its accuracy was assessed. This registration algorithm registered 3D reconstructed bone models obtained using x-ray CT to motion capture data of cadaveric upper extremities undergoing simulated elbow flexion. In this way, the relative position and orientation of the 3D bone models could be visualized for any frame of motion. The effect of radial head arthroplasty was used to illustrate the utility of this technique. Once this registration was refined, the inter-bone distance algorithm was integrated to be able to visualize the joint congruency of the ulnohumeral joint undergoing simulated elbow flexion. The effect of collateral ligament repair was examined. This technique proved to be sensitive enough to detect large changes in joint congruency in spite of only small changes in the motion pathways of the ulnohumeral joint following simulated ligament repair. Efforts were also made in this thesis to translate this research into a clinical environment by examining CT scanning protocols that could reduce the amount of radiation exposure required to image patient’s joints. For this study, the glenohumeral joint of the shoulder was examined as this joint is particularly sensitive to potential harmful effects of radiation due to its proximity to highly radiosensitive organs. Using the CT scanning techniques examined in this thesis, the effective dose applied to the shoulder was reduced by almost 90% compared to standard clinical CT imaging. In summary, these studies introduced a technique that can be used to non-invasively and three-dimensionally examine joint congruency. The accuracy of this technique was assessed and its ability to predict regions of joint surface interactions was validated against a gold standard casting approach. Using the techniques developed in this thesis the complex relationship between injury, loading and mal-alignment as contributors to the development and progression of osteoarthritis in the upper extremity can be examined

Artificial Intelligence in Oral Health

This Special Issue is intended to lay the foundation of AI applications focusing on oral health, including general dentistry, periodontology, implantology, oral surgery, oral radiology, orthodontics, and prosthodontics, among others

Image-Based Fracture Mechanics with Digital Image Correlation and Digital Volume Correlation

Analysis that requires human judgement can add bias which may, as a result, increase uncertainty. Accurate detection of a crack and segmentation of the crack geometry is beneficial to any fracture experiment. Studies of crack behaviour, such as the effect of closure, residual stress in fatigue or elastic-plastic fracture mechanics, require data on crack opening displacement. Furthermore, the crack path can give critical information of how the crack interacts with the microstructure and stress fields. Digital Image Correlation (DIC) and Digital Volume Correlation (DVC) have been widely accepted and routinely used to measure full-field displacements in many areas of solid mechanics, including fracture mechanics. However, current practise for the extraction of crack parameters from displacement fields usually requires manual methods and are quite onerous, particularly for large amounts of data. This thesis introduces the novel application of Phase Congruency-based Crack Detection (PC-CD) to automatically detect and characterise cracks from displacement fields. Phase congruency is a powerful mathematical tool that highlights a discontinuity more efficiently than gradient based methods. Phase congruency’s invariance to the magnitude of the discontinuity and its state-of-the-art de-noising method, make it ideal for the application to crack tip displacement fields. PC-CD’s accuracy is quantified and benchmarked using both theoretical and virtual displacement fields. The accuracy of PC-CD is evaluated and compared with conventional, manual computation methods such as Heaviside function fitting and gradient based methods. It is demonstrated how PC-CD can be coupled with a new method that is based on the conjoint use of displacement fields and finite element analysis to extract the strain energy release rate of cracks automatically. The PC-CD method is extended to volume displacement fields (VPC-CD) and semi-autonomously extracts crack surface, crack front and opening displacement through the thickness. As a proof of concept, PC-CD and VPC-CD are applied to a range of fracture experiments varying in material and fracture behaviour: two ductile and one quasi-brittle for surface displacement measurements; and two quasi-brittle and one ductile for volume measurements. Using the novel PC-CD and VPC-CD analyses, the crack geometry is obtained fully automatically and without any user judgement or intervention. The geometrical parameters extracted by PC-CD and VPC-CD are validated experimentally through other tools such as: optical microscope measurements, high resolution fractography and visual inspection

Book of Abstracts 15th International Symposium on Computer Methods in Biomechanics and Biomedical Engineering and 3rd Conference on Imaging and Visualization

In this edition, the two events will run together as a single conference, highlighting the strong connection with the Taylor & Francis journals: Computer Methods in Biomechanics and Biomedical Engineering (John Middleton and Christopher Jacobs, Eds.) and Computer Methods in Biomechanics and Biomedical Engineering: Imaging and Visualization (JoãoManuel R.S. Tavares, Ed.). The conference has become a major international meeting on computational biomechanics, imaging andvisualization. In this edition, the main program includes 212 presentations. In addition, sixteen renowned researchers will give plenary keynotes, addressing current challenges in computational biomechanics and biomedical imaging. In Lisbon, for the first time, a session dedicated to award the winner of the Best Paper in CMBBE Journal will take place. We believe that CMBBE2018 will have a strong impact on the development of computational biomechanics and biomedical imaging and visualization, identifying emerging areas of research and promoting the collaboration and networking between participants. This impact is evidenced through the well-known research groups, commercial companies and scientific organizations, who continue to support and sponsor the CMBBE meeting series. In fact, the conference is enriched with five workshops on specific scientific topics and commercial software.info:eu-repo/semantics/draf