StyroStone: A protocol for scanning and extracting three-dimensional meshes of stone artefacts using Micro-CT scanners v1

2021 ◽  
Author(s):  
Dominik Göldner ◽  
Fotios Alexandros Karakostis ◽  
Armando Falcucci
Keyword(s):  
Three Dimensional ◽  
Computation Time ◽  
Ct Scanning ◽  
3D Models ◽  
Stone Tools ◽  
Surface Model ◽  
Micro Ct ◽  
Ct Scanner ◽  
Micro Computed Tomography ◽  
Ct Scanners

This protocol presents the first detailed step-by-step pipeline for the 3D scanning and post processing of large batches of lithic artefacts using a micro-computed tomography (micro-CT) scanner (i.e., a Phoenix v-tome-x S model by General Electronics MCC, Boston MA) and an Artec Space Spider scanner (Artec Inc., Luxembourg). This protocol was used to scan and analyze ca. 700 lithic artefacts from the Protoaurignacian layers at Fumane Cave in north-eastern Italy (Falcucci et al., in preparation). For this study several costly scanners and proprietary software packages were employed. Although it is not easy to find a low-budget alternative for the scanners, it is possible to use free and open-source software programs, such as 3D-Slicer (https://www.slicer.org/) or MorphoDig (https://morphomuseum.com/morphodig), to process CT data as well as MeshLab (Cignoni et al. 2008) to interact with the 3D models in general. However, if alternative software is used, the steps and their order described in this protocol might diverge significantly. A cost-effective alternative to create 3D models is digital photogrammetry using commercial cameras and freely available software like Meshroom (https://alicevision.org). Although photogrammetry is an affordable technique to create accurate 3D models of objects, this method might not be useful when scanning large batches of artefacts, as it will require a lot of computation time and processing capacity. Likewise, it could be difficult to generate accurate 3D models of very small and/or detailed tool shapes using 3D surface scanners because stone tools are often much smaller than the recommended minimum field of view. Similarly, the resolution of conventional medical CT scanners might not be sufficient to capture minor details of stone tools, such as the outline or dorsal scars. Thus, high-resolution micro-CT technology is the only reliable way to accurately capture the overall morphology of small stone tools. This protocol aims at providing the first detailed procedure dedicated to the scanning of small lithic implements for further three-dimensional analysis. Note that some of the steps must be repeated at different working stages throughout this protocol. In cases where a task must be done in the exact same way as described in a previous step, a reference to that step is provided. When slight changes were made, the step was modified and reported entirely. This protocol contains a few red and green colours (e.g., arrows or within-program colours) which might be perceived differently by people with dyschromatopsia. However, the display of these colours has been kept to a minimum. We recommend the reader to go over the entire protocol carefully, even if only some specific parts are required. A few points are in fact interdependent, and some of them must be applied simultaneously. Content: Part 1 – Styrofoam preparation Part 2 – Micro-CT scanning Part 3 – 3D model extraction of CT scanned stone artifacts using Avizo Part 4 – Cropping extracted surface model to separate Face A and B in Artec Studio Part 5 – Cropping Face A to separate the lines in Artec Studio Part 6 – Cropping each stone artefact from the lines in Artec Studio Part 7 – Virtually control measurements in MeshLab Part 8 – Artec scanning of larger artifacts Part 9 – Export meshes as non-binary ply models for successive analysis in geomorph Three-dimensional example (in ply format) of the effectivity of the StyroStone Protocol: You can download an example of one Styrofoam line in 3D obtained using our protocol to appreciate the result that can be achieved. We have selected a line where objects are characterized by different metric and morphological attributes. Notice the retouching well visible in the last five smaller artifacts (counting from the left when artifact are oriented with the dorsal face in front of the observer and the butt down), as well as the platforms and bulbs of all artifacts. For more information and examples, feel free to contact us!

Using Computational Modeling Derived From Micro CT Scanning for the Post-Implant Analyses of Various Cardiac Devices

2020 ◽  
Author(s):  
Thomas Valenzuela ◽  
Jorge Zhingre Sanchez ◽  
Mikayle Holm ◽  
Tinen Iles ◽  
Paul Iaizzo
Keyword(s):  
High Resolution ◽  
Medical Device ◽  
Medical Devices ◽  
Ct Scanning ◽  
3D Models ◽  
Micro Ct ◽  
Ct Scanner ◽  
Cardiac Devices ◽  
High Resolution Models ◽  
Implanted Devices

Abstract There are few medical devices currently utilized that have not had, at the very least, a second iteration. Medical device companies continually strive to improve their product to make it the best on the market. Medical devices are often optimized by defining the size of the device, making it more efficient and/or improving the device to tissue interface. Using the capabilities of the Visible Heart® Laboratories various cardiac devices can be implanted in reanimated swine and human hearts for the assessment of the various aforementioned parameters. After the implantation of these devices and assessment in functional anatomies, specimens were perfusion-fixed and then a micro-CT scanner was utilized to take high-resolution scans of the resultant device and tissue interfaces. These scans are used to generate high-resolution (∼20 microns) 3D models of the numerous implanted devices, measurement analyses, device simulations, and the creation of virtual reality scenes. All can then be used for detailed visual analyses. These abilities to render high-resolution models will allow medical device designers to closely evaluate their designs, in order to optimize their next iterations.

scholarly journals Marginal and Internal Adaptation Evaluation of Dental Composites Using Micro-CT

2019 ◽  
Vol 2019 ◽  
pp. 1-6
Author(s):  
Adrian Tudor Stan ◽  
Laura Cîrligeriu ◽  
Laura Idorași ◽  
Meda Lavinia Negruțiu ◽  
Cosmin Sinescu ◽  
...  
Keyword(s):  
Composite Resin ◽  
Resin Composite ◽  
Three Dimensional ◽  
Ct Scanning ◽  
Dental Composite ◽  
Micro Ct ◽  
Gap Formation ◽  
Micro Computed Tomography ◽  
Vertical Slot ◽  
Internal Adaptation

The aim of the study was to determine the marginal and internal adaptation after curing of different composite resin restorations, using a nondestructive X-ray micro-computed tomography (micro-CT). Forty previously extracted human molars, kept in 10% formalin to preserve the bonding capabilities of the tooth structures, were divided into four groups based on the composite system used and different light-curing times. Class II (vertical slot) cavities were prepared on one proximal side and restored with dental composite using a Tofflemire matrix, with a bulk-fill composite resin (Venus Bulk Fill, Heraeus Kulzer) and a universal posterior composite (G-ænial Posterior, GC). A curing lamp (Kerr Demi Ultra) was used with different curing times. Micro-CT scanning was performed by using Nikon XTH 225ST to reveal any defects in adaptation or gaps at the tooth restoration interface. The 3D images of the adaptation around the restorations were reconstructed using VG Studio Max 2.2 and myVGL 2.2.6 64-bit software. All samples from the G-ænial group showed marginal and internal gaps, with G-ænial Posterior having higher polymerization shrinkage and marginal gap values. In the Venus Bulk Fill group, there were fewer restorations with internal and external gap formation. Micro-CT is a three-dimensional imaging technique that can nondestructively detect adaptation around the resin composite restorations at every level of the sample.

scholarly journals Ten Years of Micro-CT in Dentistry and Maxillofacial Surgery: A Literature Overview

2020 ◽  
Vol 10 (12) ◽  
pp. 4328 ◽  
Author(s):  
Ilaria Campioni ◽  
Raffaella Pecci ◽  
Rossella Bedini
Keyword(s):  
Bone Structure ◽  
Ex Vivo ◽  
Maxillofacial Surgery ◽  
Three Dimensional ◽  
3D Models ◽  
Micro Ct ◽  
Micro Computed Tomography ◽  
Scientific Publications ◽  
Ct Analysis

Micro-computed tomography (micro-CT) is a consolidated imaging technology allowing non-destructive three-dimensional (3D) qualitative and quantitative analysis by the observation of microstructures with high resolution. This paper aims at delivering a structured overview of literature about studies performed using micro-CT in dentistry and maxillofacial surgery (MFS) by analyzing the entire set of articles to portray the state of the art of the last ten years of scientific publications on the topic. It draws the scenario focusing on biomaterials, in vitro and in/ex vivo applications, bone structure analysis, and tissue engineering. It confirms the relevance of the micro-CT analysis for traditional research applications and mainly in dentistry with respect to MFS. Possible developments are discussed in relation to the use of the micro-CT combined with other, traditional, and not, techniques and technologies, as the elaboration of 3D models based on micro-CT images and emerging numerical methods. Micro-CT results contribute effectively with whose ones obtained from other techniques in an integrated multimethod approach and for multidisciplinary studies, opening new possibilities and potential opportunities for the next decades of developments.

Performance Evaluation of Micro-CT Scanners as Visualization Systems

2015 ◽  
Vol 1084 ◽  
pp. 694-697 ◽  
Author(s):  
Andrey Batranin ◽  
Denis Ivashkov ◽  
Sergei Stuchebrov
Keyword(s):  
Material Science ◽  
Materials Characterization ◽  
Evaluation Technique ◽  
Micro Ct ◽  
Ct Scanner ◽  
Micro Computed Tomography ◽  
Visualization System ◽  
X Ray ◽  
Ct Scanners ◽  
Visualization Systems

High-resolution X-ray tomography, also known as micro-computed tomography (micro-CT) or microtomography, is a versatile evaluation technique, which extends application in various fields including material science. Micro-CT is a suitable method for quantitative and dimensional materials characterization. Needless to say, the accuracy of the method and applied equipments – micro-CT scanners – should be assessed to obtain reliable, solid results. In this paper, the performance of a micro-CT scanner as a visualization system is discussed. Quantitative parameters of image quality and visualization systems as well as methods to obtain their numerical values are briefly described. The results of experiments carried out on in-house made micro-CT scanner TOLMI-150-10 developed in Tomsk Polytechnic University are presented.

scholarly journals A Microcomputed Tomographic Evaluation of Root Canal Morphology of Maxillary Second Premolars in a Pakistani Cohort

2021 ◽  
Vol 11 (11) ◽  
pp. 5086
Author(s):  
Mazen F. Alkahtany ◽  
Saqib Ali ◽  
Abdul Khabeer ◽  
Shafqat A. Shah ◽  
Khalid H. Almadi ◽  
...  
Keyword(s):  
Root Canal ◽  
Three Dimensional ◽  
Ct Scanning ◽  
Micro Ct ◽  
Single Root ◽  
Root Canal Morphology ◽  
Spss Software ◽  
Variable Morphology ◽  
Canal Morphology

This study aimed to investigate variations in the root canal morphology of maxillary second premolar (MSP) teeth using microcomputed tomography (micro-CT). Sixty (N = 60) human extracted MSPs were collected and prepared for micro-CT scanning. The duration for scanning a single sample ranged between 30 and 40 min and a three-dimensional (3-D) image was obtained for all the MSPs. The images were evaluated by a single observer who recorded the canal morphology type, number of roots, canal orifices, apical foramina(s), apical delta(s), and accessory canals. The root canal configuration was categorized in agreement with Vertucci’s classification, and any configuration not in agreement with Vertucci’s classification was reported as an “additional canal configuration”. Descriptive statistics (such as mean percentages) were calculated using SPSS software. The most common types agreeing with Vertucci’s classification (in order of highest to lowest incidence) were types I, III, V, VII, II, and VI. The teeth also exhibited four additional configurations that were different from Vertucci’s classification: types 2-3, 1-2-3, 2-1-2-1, and 1-2-1-3. A single root was found in 96.7% and the majority of the samples demonstrated two canals (73.3%). Further, 80% of the teeth showed one canal orifice. The number of apical foramina’s in the teeth was variable, with 56.7% having solitary apical foramen. The accessory canal was found in 33.3%, and apical delta was found in only 20% of the samples. Variable morphology of the MSPs was detected in our study. The canal configuration most prevalent was type 1; however, the results also revealed some additional canal types.

MicroCT protocols for scanning of embryos and juvenile Hexaplex trunculus v1

2021 ◽  
Author(s):  
Eva Chatzinikolaou ◽  
Kleoniki Keklikoglou
Keyword(s):  
Computed Tomography ◽  
High Resolution ◽  
3D Imaging ◽  
Imaging Technique ◽  
Ct Scanning ◽  
Micro Ct ◽  
Micro Computed Tomography ◽  
Gastropod Species ◽  
Biological Studies ◽  
Hexaplex Trunculus

Micro-computed tomography (micro-CT) is a high-resolution 3D-imaging technique which is now increasingly applied in biological studies focusing on taxonomy and functional morphology. The creation of virtual representations of specimens can increase availability of otherwise underexploited and inaccessible samples. This protocol aims to standardise micro-CT scanning procedures for embryos and juveniles of the marine gastropod species Hexaplex trunculus.

scholarly journals Three-Dimensional Reconstruction of Structural Surface Model of Heritage Bridges Using UAV-Based Photogrammetric Point Clouds

2019 ◽  
Vol 11 (10) ◽  
pp. 1204 ◽  
Author(s):  
Yue Pan ◽  
Yiqing Dong ◽  
Dalei Wang ◽  
Airong Chen ◽  
Zhen Ye
Keyword(s):  
Classification Tree ◽  
Three Dimensional ◽  
Point Clouds ◽  
3D Models ◽  
Surface Model ◽  
Reconstruction Method ◽  
3D Point Clouds ◽  
Surface Models ◽  
Structural Surface ◽  
Better Than

Three-dimensional (3D) digital technology is essential to the maintenance and monitoring of cultural heritage sites. In the field of bridge engineering, 3D models generated from point clouds of existing bridges is drawing increasing attention. Currently, the widespread use of the unmanned aerial vehicle (UAV) provides a practical solution for generating 3D point clouds as well as models, which can drastically reduce the manual effort and cost involved. In this study, we present a semi-automated framework for generating structural surface models of heritage bridges. To be specific, we propose to tackle this challenge via a novel top-down method for segmenting main bridge components, combined with rule-based classification, to produce labeled 3D models from UAV photogrammetric point clouds. The point clouds of the heritage bridge are generated from the captured UAV images through the structure-from-motion workflow. A segmentation method is developed based on the supervoxel structure and global graph optimization, which can effectively separate bridge components based on geometric features. Then, recognition by the use of a classification tree and bridge geometry is utilized to recognize different structural elements from the obtained segments. Finally, surface modeling is conducted to generate surface models of the recognized elements. Experiments using two bridges in China demonstrate the potential of the presented structural model reconstruction method using UAV photogrammetry and point cloud processing in 3D digital documentation of heritage bridges. By using given markers, the reconstruction error of point clouds can be as small as 0.4%. Moreover, the precision and recall of segmentation results using testing date are better than 0.8, and a recognition accuracy better than 0.8 is achieved.

scholarly journals An Indirect Method to Measure Abutment Screw Preload: A Pilot Study Based on Micro-CT Scanning

2015 ◽  
Vol 26 (6) ◽  
pp. 596-601 ◽  
Author(s):  
Carlos Eduardo E. Rezende ◽  
Jason Alan Griggs ◽  
Yuanyuan Duan ◽  
Amanda M. Mushashe ◽  
Gisele Maria Correr Nolasco ◽  
...  
Keyword(s):  
Ct Scanning ◽  
Measuring Method ◽  
Micro Ct ◽  
Ct Scanner ◽  
Removal Torque ◽  
Ct Technique ◽  
Original Length ◽  
Implant Abutment ◽  
Torque Values ◽  
Abutment Screw

This study aimed to measure the preload in different implant platform geometries based on micro-CT images. External hexagon (EH) implants and Morse Tapered (MT) implants (n=5) were used for the preload measurement. The abutment screws were scanned in micro-CT to obtain their virtual models, which were used to record their initial length. The abutments were screwed on the implant with a 20 Ncm torque and the set composed by implant, abutment screw and abutment were taken to the micro-CT scanner to obtain virtual slices of the specimens. These slices allowed the measurement of screw lengths after torque application and based on the screw elongation. Preload values were calculated using the Hooke's Law. The preloads of both groups were compared by independent t-test. Removal torque of each specimen was recorded. To evaluate the accuracy of the micro-CT technique, three rods with known lengths were scanned and the length of their virtual model was measured and compared with the original length. One rod was scanned four times to evaluate the measuring method variation. There was no difference between groups for preload (EH = 461.6 N and MT = 477.4 N), but the EH group showed higher removal torque values (13.8±4.7 against 8.2±3.6 Ncm for MT group). The micro-CT technique showed a variability of 0.053% and repeatability showed an error of 0.23 to 0.28%. Within the limitations of this study, there was no difference between external hexagon and Morse taper for preload. The method using micro-CT may be considered for preload calculation.

The endocranial anatomy of Gogonasus andrewsae Long, 1985 revealed through micro CT-scanning

2014 ◽  
Vol 105 (1) ◽  
pp. 9-34 ◽  
Author(s):  
Timothy Holland
Keyword(s):  
Computed Tomography ◽  
Blood Vessels ◽  
Western Australia ◽  
Nasal Septum ◽  
Ct Scanning ◽  
Micro Ct ◽  
Micro Computed Tomography ◽  
New Research ◽  
Nasal Capsule

ABSTRACTMicro computed tomography has revealed as yet undescribed internal braincase anatomy of the tetrapodomorph fish Gogonasus andrewsae from the Frasnian Gogo Formation, Paddy's Valley, Kimberley Region, Western Australia. The complete material, including the cranial cavities and channels for blood vessels and nerves, reveals several notable features inside the endocranium. The ethmosphenoid unit includes a median capsule, which lies underneath the median postrostral and rostral series. Based on innervation and association with cutaneous vessels, potential electroreceptive function is inferred for this capsule. Several regions of poor ossification, including foramina for the glossopharyngeal and abducens nerves, as well as the apparent suture separating the ethmoid from the sphenoid portions of the braincase, are possibly indicative of early ontogenetic features. Former interpretations of the course for the superficial ophthalmic nerve inside the nasal capsule of Osteolepis and Gyroptychius may be incorrect, with new research supporting a path through the nasal septum, as in Gogonasus.

scholarly journals PEG-modified gadolinium nanoparticles as contrast agents for in vivo micro-CT

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Charmainne Cruje ◽  
P. Joy Dunmore-Buyze ◽  
Eric Grolman ◽  
David W. Holdsworth ◽  
Elizabeth R. Gillies ◽  
...  
Keyword(s):  
Contrast Agent ◽  
Contrast Agents ◽  
Soft Tissues ◽  
Three Dimensional ◽  
Blood Pool ◽  
Micro Ct ◽  
Micro Computed Tomography ◽  
Poly Ethylene

AbstractVascular research is largely performed in rodents with the goal of developing treatments for human disease. Micro-computed tomography (micro-CT) provides non-destructive three-dimensional imaging that can be used to study the vasculature of rodents. However, to distinguish vasculature from other soft tissues, long-circulating contrast agents are required. In this study, we demonstrated that poly(ethylene glycol) (PEG)-coated gadolinium nanoparticles can be used as a vascular contrast agent in micro-CT. The coated particles could be lyophilized and then redispersed in an aqueous solution to achieve 100 mg/mL of gadolinium. After an intravenous injection of the contrast agent into mice, micro-CT scans showed blood pool contrast enhancements of at least 200 HU for 30 min. Imaging and quantitative analysis of gadolinium in tissues showed the presence of contrast agent in clearance organs including the liver and spleen and very low amounts in other organs. In vitro cell culture experiments, subcutaneous injections, and analysis of mouse body weight suggested that the agents exhibited low toxicity. Histological analysis of tissues 5 days after injection of the contrast agent showed cytotoxicity in the spleen, but no abnormalities were observed in the liver, lungs, kidneys, and bladder.

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