Reverse engineering applied to a lumbar vertebra

Bone studies can be made in vivo or in vitro. However, disadvantages of both traditional techniques call for a compromise between the two. Reverse engineering allows in vitro bone samples to be simulated and analysed in a virtual in vivo environment thus offering a middle ground solution and a sound foundation on which biomechanical studies of bone could develop.peer-reviewe

A Hybrid Deep Feature-Based Deformable Image Registration Method for Pathology Images

Pathologists need to combine information from differently stained pathology slices for accurate diagnosis. Deformable image registration is a necessary technique for fusing multi-modal pathology slices. This paper proposes a hybrid deep feature-based deformable image registration framework for stained pathology samples. We first extract dense feature points via the detector-based and detector-free deep learning feature networks and perform points matching. Then, to further reduce false matches, an outlier detection method combining the isolation forest statistical model and the local affine correction model is proposed. Finally, the interpolation method generates the deformable vector field for pathology image registration based on the above matching points. We evaluate our method on the dataset of the Non-rigid Histology Image Registration (ANHIR) challenge, which is co-organized with the IEEE ISBI 2019 conference. Our technique outperforms the traditional approaches by 17% with the Average-Average registration target error (rTRE) reaching 0.0034. The proposed method achieved state-of-the-art performance and ranked 1st in evaluating the test dataset. The proposed hybrid deep feature-based registration method can potentially become a reliable method for pathology image registration.Comment: 22 pages, 12 figures. This work has been submitted to the IEEE for possible publication. Copyright may be transferred without notice, after which this version may no longer be accessibl

Multimodal anatomy of the human forniceal commissure

Ambiguity surrounds the existence and morphology of the human forniceal commissure. We combine advanced in-vivo tractography, multidirectional ex-vivo fiber dissection, and multiplanar histological analysis to characterize this structure's anatomy. Across all 178 subjects, in-vivo fiber dissection based on the Human Connectome Project 7 T MRI data identifies no interhemispheric connections between the crura fornicis. Multidirectional ex-vivo fiber dissection under the operating microscope demonstrates the psalterium as a thin soft-tissue membrane spanning between the right and left crus fornicis, but exposes no commissural fibers. Multiplanar histological analysis with myelin and Bielchowsky silver staining, however, visualizes delicate cruciform fibers extending between the crura fornicis, enclosed by connective tissue, the psalterium. The human forniceal commissure is therefore much more delicate than previously described and presented in anatomical textbooks. This finding is consistent with the observed phylogenetic trend of a reduction of the forniceal commissure in non-human primates compared to non-primate eutherian mammals

Shape Design and Optimization for 3D Printing

In recent years, the 3D printing technology has become increasingly popular, with wide-spread uses in rapid prototyping, design, art, education, medical applications, food and fashion industries. It enables distributed manufacturing, allowing users to easily produce customized 3D objects in office or at home. The investment in 3D printing technology continues to drive down the cost of 3D printers, making them more affordable to consumers. As 3D printing becomes more available, it also demands better computer algorithms to assist users in quickly and easily generating 3D content for printing. Creating 3D content often requires considerably more efforts and skills than creating 2D content. In this work, I will study several aspects of 3D shape design and optimization for 3D printing. I start by discussing my work in geometric puzzle design, which is a popular application of 3D printing in recreational math and art. Given user-provided input figures, the goal is to compute the minimum (or best) set of geometric shapes that can satisfy the given constraints (such as dissection constraints). The puzzle design also has to consider feasibility, such as avoiding interlocking pieces. I present two optimization-based algorithms to automatically generate customized 3D geometric puzzles, which can be directly printed for users to enjoy. They are also great tools for geometry education. Next, I discuss shape optimization for printing functional tools and parts. Although current 3D modeling software allows a novice user to easily design 3D shapes, the resulting shapes are not guaranteed to meet required physical strength. For example, a poorly designed stool may easily collapse when a person sits on the stool; a poorly designed wrench may easily break under force. I study new algorithms to help users strengthen functional shapes in order to meet specific physical properties. The algorithm uses an optimization-based framework — it performs geometric shape deformation and structural optimization iteratively to minimize mechanical stresses in the presence of forces assuming typical use scenarios. Physically-based simulation is performed at run-time to evaluate the functional properties of the shape (e.g., mechanical stresses based on finite element methods), and the optimizer makes use of this information to improve the shape. Experimental results show that my algorithm can successfully optimize various 3D shapes, such as chairs, tables, utility tools, to withstand higher forces, while preserving the original shape as much as possible. To improve the efficiency of physics simulation for general shapes, I also introduce a novel, SPH-based sampling algorithm, which can provide better tetrahedralization for use in the physics simulator. My new modeling algorithm can greatly reduce the design time, allowing users to quickly generate functional shapes that meet required physical standards

Stereotactic guidance for navigated percutaneous sacroiliac joint fusion.

Arthrodesis of the sacroiliac joint (SIJ) for surgical treatment of SIJ dysfunction has regained interest among spine specialists. Current techniques described in the literature most often utilize intraoperative fluoroscopy to aid in implant placement; however, image guidance for SIJ fusion may allow for minimally invasive percutaneous instrumentation with more precise implant placement. In the following cases, we performed percutaneous stereotactic navigated sacroiliac instrumentation using O-arm® multidimensional surgical imaging with StealthStation® navigation (Medtronic, Inc. Minneapolis, MN). Patients were positioned prone and an image-guidance reference frame was placed contralateral to the surgical site. O-arm® integrated with StealthStation® allowed immediate auto-registration. The skin incision was planned with an image-guidance probe. An image-guided awl, drill and tap were utilized to choose a starting point and trajectory. Threaded titanium cage(s) packed with autograft and/or allograft were then placed. O-arm® image-guidance allowed for implant placement in the SIJ with a small skin incision. However, we could not track the cage depth position with our current system, and in one patient, the SIJ cage had to be revised secondary to the anterior breach of sacrum

Remote sensing of tidal networks and their relation to vegetation

The study of the morphology of tidal networks and their relation to salt marsh vegetation is currently an active area of research, and a number of theories have been developed which require validation using extensive observations. Conventional methods of measuring networks and associated vegetation can be cumbersome and subjective. Recent advances in remote sensing techniques mean that these can now often reduce measurement effort whilst at the same time increasing measurement scale. The status of remote sensing of tidal networks and their relation to vegetation is reviewed. The measurement of network planforms and their associated variables is possible to sufficient resolution using digital aerial photography and airborne scanning laser altimetry (LiDAR), with LiDAR also being able to measure channel depths. A multi-level knowledge-based technique is described to extract networks from LiDAR in a semi-automated fashion. This allows objective and detailed geomorphological information on networks to be obtained over large areas of the inter-tidal zone. It is illustrated using LIDAR data of the River Ems, Germany, the Venice lagoon, and Carnforth Marsh, Morecambe Bay, UK. Examples of geomorphological variables of networks extracted from LiDAR data are given. Associated marsh vegetation can be classified into its component species using airborne hyperspectral and satellite multispectral data. Other potential applications of remote sensing for network studies include determining spatial relationships between networks and vegetation, measuring marsh platform vegetation roughness, in-channel velocities and sediment processes, studying salt pans, and for marsh restoration schemes

Validation of Radiocarpal Joint Contact Models Based On Images from a Clinical MRI Scanner

Due to the severity and continuing escalation in occurrences of degenerative joint diseases, it is vital to establish a means of detection and prevention that could lead to an improvement in quality of life. One such means is MRI-based modeling for joint contact analysis of in vivo functional loading. The purpose of this study was to validate models generated from a clinical MR scanner for future in vivo joint contact analyses. Models were tested using 3 cadaver forearm specimens and compared with experimental data. It was found that models were validated based on contact area. Direct contact area measurements were observed to be very close to experimental data. Model force measurements were reasonable, but did not agree with experimental data as well as contact area. Peak pressure data from the models were less consistent in correspondence with experimental data. Also, radiocarpal mechanics were investigated to determine the effect of inserting a sensor into the joint space. Magnitudes of bone motions were found to be greater with film inserted than without film. Model results showed contact areas to be higher with film than without film