Automated extraction of knowledge for model-based diagnostics

The concept of accessing computer aided design (CAD) design databases and extracting a process model automatically is investigated as a possible source for the generation of knowledge bases for model-based reasoning systems. The resulting system, referred to as automated knowledge generation (AKG), uses an object-oriented programming structure and constraint techniques as well as internal database of component descriptions to generate a frame-based structure that describes the model. The procedure has been designed to be general enough to be easily coupled to CAD systems that feature a database capable of providing label and connectivity data from the drawn system. The AKG system is capable of defining knowledge bases in formats required by various model-based reasoning tools

An Integrated Computer-Aided Robotic System for Dental Implantation

This paper describes an integrated system for dental implantation including both preoperative planning utilizing computer-aided technology and automatic robot operation during the intra-operative stage. A novel two-step registration procedure was applied for transforming the preoperative plan to the operation of the robot, with the help of a Coordinate Measurement Machine (CMM). Experiments with a patient-specific phantom were carried out to evaluate the registration error for both position and orientation. After adopting several improvements, registration accuracy of the system was significantly improved. Sub-millimeter accuracy with the Target Registration Errors (TREs) of 0.38±0.16 mm (N=5) was achieved. The target orientation errors after registration and after phantom drilling were 0.92±0.16 ° (N=5) and 1.99±1.27 ° (N=14), respectively. These results permit the ultimate goal of an automated robotic system for dental implantation

Orientation Invariant ECG-Based Stethoscope Tracking for Heart Auscultation Training on Augmented Standardized Patients

Auscultation, the act of listening to the heart and lung sounds, can reveal substantial information about patients’ health and other cardiac-related problems; therefore, competent training can be a key for accurate and reliable diagnosis. Standardized patients (SPs), who are healthy individuals trained to portray real patients, have been extensively used for such training and other medical teaching techniques; however, the range of symptoms and conditions they can simulate remains limited since they are only patient actors. In this work, we describe a novel tracking method for placing virtual symptoms in correct auscultation areas based on recorded ECG signals with various stethoscope diaphragm orientations; this augmented reality simulation would extend the capabilities of SPs and allow medical trainees to hear abnormal heart and lung sounds in a normal SP. ECG signals recorded from two different SPs over a wide range of stethoscope diaphragm orientations were processed and analyzed to accurately distinguish four different heart auscultation areas, aortic, mitral, pulmonic and tricuspid, for any stethoscope’s orientation. After processing the signals and extracting relevant features, different classifiers were applied for assessment of the proposed method; 95.1% and 87.1% accuracy were obtained for SP1 and SP2, respectively. The proposed system provides an efficient, non-invasive, and cost efficient method for training medical practitioners on heart auscultation

Design and Comparison of Immersive Interactive Learning and Instructional Techniques for 3D Virtual Laboratories

This work presents the design, development, and testing of 3D virtual laboratories for practice, specifically in undergraduate mechanical engineering laboratories. The 3D virtual laboratories, implemented under two virtual environments3DTV and Computer Automated Virtual Environment (CAVE)serve as pre-lab sessions performed before the actual physical laboratory experiment. The current study compares the influence of two instructional methods (conventional lecture-based and inquiry-based) under two virtual environments, and the results are compared with the pre-lab sessions using a traditional paper-based lab manual. Subsequently, the evaluation is done by conducting performance and quantitative assessments from students pre-and post-laboratory performances. The research results demonstrate that students in the virtual modules (3DTV and CAVE) performed significantly better in the actual physical experiment than the students in the control group in terms of the overall experiment familiarity and procedure and the conceptual knowledge associated with the experiment. 2015 by the Massachusetts Institute of Technology

Engineering Collaborations in Medical Modeling and Simulation

Fifty years ago computer science was just beginning to see common acceptance as a growing discipline and very few universities had a computer science department although other departments were utilizing computers and software to enhance their methodologies. We believe modeling and simulation (M&S) is on a similar path. Many other disciplines utilize M&S to enhance their methodologies but we also believe that M&S fundamentals can be essential in making better decisions by utilizing the appropriate model for the problem at hand, expanding the solution space through simulation, and understanding it through visualization and proper analyses. After our students learn these fundamentals, we offer the opportunity to apply them to varied application areas. One such application area is medical M&S, which is a broad area involving anatomical modeling, planning and training simulations, image-guided procedures and more. In this paper, we share several research projects involving M&S and the collaborations that make them possible

Adjacent Slice Prostate Cancer Prediction to Inform MALDI Imaging Biomarker Analysis

Prostate cancer is the second most common type of cancer among men in US [1]. Traditionally, prostate cancer diagnosis is made by the analysis of prostate-specific antigen (PSA) levels and histopathological images of biopsy samples under microscopes. Proteomic biomarkers can improve upon these methods. MALDI molecular spectra imaging is used to visualize protein/peptide concentrations across biopsy samples to search for biomarker candidates. Unfortunately, traditional processing methods require histopathological examination on one slice of a biopsy sample while the adjacent slice is subjected to the tissue destroying desorption and ionization processes of MALDI. The highest confidence tumor regions gained from the histopathological analysis are then mapped to the MALDI spectra data to estimate the regions for biomarker identification from the MALDI imaging. This paper describes a process to provide a significantly better estimate of the cancer tumor to be mapped onto the MALDI imaging spectra coordinates using the high confidence region to predict the true area of the tumor on the adjacent MALDI imaged slice

Mapping Solar Magnetic Fields from the Photosphere to the Base of the Corona

Routine ultraviolet imaging of the Sun's upper atmosphere shows the spectacular manifestation of solar activity; yet we remain blind to its main driver, the magnetic field. Here we report unprecedented spectropolarimetric observations of an active region plage and its surrounding enhanced network, showing circular polarization in ultraviolet (Mg II $h$ & $k$ and Mn I) and visible (Fe I) lines. We infer the longitudinal magnetic field from the photosphere to the very upper chromosphere. At the top of the plage chromosphere the field strengths reach more than 300 gauss, strongly correlated with the Mg II $k$ line core intensity and the electron pressure. This unique mapping shows how the magnetic field couples the different atmospheric layers and reveals the magnetic origin of the heating in the plage chromosphere.Comment: 50 pages, 11 figures, 1 table, published in Science Advance

Integrated monitoring of mola mola behaviour in space and time

Over the last decade, ocean sunfish movements have been monitored worldwide using various satellite tracking methods. This study reports the near-real time monitoring of finescale (< 10 m) behaviour of sunfish. The study was conducted in southern Portugal in May 2014 and involved satellite tags and underwater and surface robotic vehicles to measure both the movements and the contextual environment of the fish. A total of four individuals were tracked using custom-made GPS satellite tags providing geolocation estimates of fine-scale resolution. These accurate positions further informed sunfish areas of restricted search (ARS), which were directly correlated to steep thermal frontal zones. Simultaneously, and for two different occasions, an Autonomous Underwater Vehicle (AUV) videorecorded the path of the tracked fish and detected buoyant particles in the water column. Importantly, the densities of these particles were also directly correlated to steep thermal gradients. Thus, both sunfish foraging behaviour (ARS) and possibly prey densities, were found to be influenced by analogous environmental conditions. In addition, the dynamic structure of the water transited by the tracked individuals was described by a Lagrangian modelling approach. The model informed the distribution of zooplankton in the region, both horizontally and in the water column, and the resultant simulated densities positively correlated with sunfish ARS behaviour estimator (r(s) = 0.184, p < 0.001). The model also revealed that tracked fish opportunistically displace with respect to subsurface current flow. Thus, we show how physical forcing and current structure provide a rationale for a predator's finescale behaviour observed over a two weeks in May 2014

Mitochondrial physiology

As the knowledge base and importance of mitochondrial physiology to evolution, health and disease expands, the necessity for harmonizing the terminology concerning mitochondrial respiratory states and rates has become increasingly apparent. The chemiosmotic theory establishes the mechanism of energy transformation and coupling in oxidative phosphorylation. The unifying concept of the protonmotive force provides the framework for developing a consistent theoretical foundation of mitochondrial physiology and bioenergetics. We follow the latest SI guidelines and those of the International Union of Pure and Applied Chemistry (IUPAC) on terminology in physical chemistry, extended by considerations of open systems and thermodynamics of irreversible processes. The concept-driven constructive terminology incorporates the meaning of each quantity and aligns concepts and symbols with the nomenclature of classical bioenergetics. We endeavour to provide a balanced view of mitochondrial respiratory control and a critical discussion on reporting data of mitochondrial respiration in terms of metabolic flows and fluxes. Uniform standards for evaluation of respiratory states and rates will ultimately contribute to reproducibility between laboratories and thus support the development of data repositories of mitochondrial respiratory function in species, tissues, and cells. Clarity of concept and consistency of nomenclature facilitate effective transdisciplinary communication, education, and ultimately further discovery

Mitochondrial physiology

As the knowledge base and importance of mitochondrial physiology to evolution, health and disease expands, the necessity for harmonizing the terminology concerning mitochondrial respiratory states and rates has become increasingly apparent. The chemiosmotic theory establishes the mechanism of energy transformation and coupling in oxidative phosphorylation. The unifying concept of the protonmotive force provides the framework for developing a consistent theoretical foundation of mitochondrial physiology and bioenergetics. We follow the latest SI guidelines and those of the International Union of Pure and Applied Chemistry (IUPAC) on terminology in physical chemistry, extended by considerations of open systems and thermodynamics of irreversible processes. The concept-driven constructive terminology incorporates the meaning of each quantity and aligns concepts and symbols with the nomenclature of classical bioenergetics. We endeavour to provide a balanced view of mitochondrial respiratory control and a critical discussion on reporting data of mitochondrial respiration in terms of metabolic flows and fluxes. Uniform standards for evaluation of respiratory states and rates will ultimately contribute to reproducibility between laboratories and thus support the development of data repositories of mitochondrial respiratory function in species, tissues, and cells. Clarity of concept and consistency of nomenclature facilitate effective transdisciplinary communication, education, and ultimately further discovery