Abstract: Deconvolution systems and methods based on cornea smoothing can be used to obtain an ablation target or treatment shape that does not induce significant high order aberrations such as spherical aberration. Exemplary ablation targets or treatment shapes can provide a post-operative spherical aberration that is equal to or below a naturally occurring amount of spherical aberration.

Abstract: Certain embodiments provide a method for crystallizing a GPCR. The method may employ a fusion protein comprising, from N-terminus to C-terminus: a) a first portion of a family C G-protein coupled receptor (GPCR), wherein the first portion comprises the TM1, TM2 and TM3, regions of the GPCR; b) a stable, folded protein insertion; and c) a second portion of the GPCR, wherein the second portion comprises the TM4, TM5 TM6 and TM7 regions of the GPCR.

Abstract: A body garment including sensors distributed throughout the garment, each sensor senses body state information from a local surface area of a body; and sensor nodes in proximity to the plurality of sensors, each sensor node including a processor to receive sensing body state information from at least one of the plurality of sensors. Each processor is configured to receive body state information locally from sensors, to utilize the information to determine a local surface shape of the surface of a portion of the body part; and to exchange local surface shape information with neighboring sensor nodes. At least one processor of utilizes the local surface shape information received from the sensor nodes to generate one overall model of a surface shape of the entire surface of the body part covered by the garment.

Abstract: An apparatus and method for generating a prescription form is disclosed. The method includes displaying a first menu containing a plurality of therapy menu items. The method also includes displaying a second menu containing at least one qualifier menu item. The method further includes displaying a third menu containing at least one drug menu item. The method includes, upon selection of a therapy menu item, a qualifier menu item, and a drug menu item, selecting a protocol including one or more patient specific pump parameters corresponding to the therapy menu item, the qualifier menu item, and the drug menu item. The method also includes displaying a prescription form including at least one of the one or more patient specific pump parameters.

Abstract: Described and illustrated herein is an exemplary method of operating an analyte measurement device having a display, user interface, processor, memory, and user interface buttons. Such method can be achieved by measuring an analyte with the analyte measurement device, displaying a value representative of the analyte, querying a user to select a predetermined flag to associate the predetermined flag with the value, and pressing only one of the user interface buttons once to store the predetermined flag with the value in the memory of the analyte measurement device. In one embodiment, the testing device is a glucose meter and the analyte being tested is glucose.

Abstract: A sample analyzer comprising: a measurement section for measuring a sample of an animal; a memory for storing a measurement data by the measurement section; an analysis section for analyzing the measurement data stored on the memory in accordance with a first analysis condition corresponding to a previous setting of a species of an animal; and a selection receiver for receiving a selection of a species of an animal, which is different from the species of the previous setting, after analyzing the measurement data by the analysis section; wherein the analysis section analyzes the measurement data stored on the memory in accordance with a second analysis condition corresponding to the selection of a species of an animal when the selection receiver receives the selection of a species of an animal, is disclosed. A sample analyzing method is also disclosed.

Abstract: In a vascular data generation apparatus, a processor generates first vascular data based on anatomical statistics data about vessels of an organ. This first vascular data has a tree structure representing a vascular network in the organ. The processor further generates second vascular data representing a plurality of vessels that connect a plurality of nodes in a geometric model of the organ with the vascular network represented by the first vascular data.

Abstract: The present invention relates to crystals of a type IB P-type ATPase having the space group P1 and methods for purification and growing said crystals. The invention also presents methods for identifying an inhibitor of a type IB P-type ATPase for example by determining binding interactions between an inhibitor and a set of binding interaction sites in said type IB P-type ATPase.

Abstract: The present disclosure provides methods for determining the ploidy status of a chromosome in a gestating fetus from genotypic data measured from a sample of DNA from the mother of the fetus and from the fetus, and from genotypic data from the mother and optionally also from the father. The ploidy state is determined by using a joint distribution model to create a set of expected allele distributions for different possible fetal ploidy states given the parental genotypic data, and comparing the expected allelic distributions to the pattern of measured allelic distributions measured in the mixed sample, and choosing the ploidy state whose expected allelic distribution pattern most closely matches the observed allelic distribution pattern. In an embodiment, the mixed sample of DNA may be preferentially enriched at a plurality of polymorphic loci in a way that minimizes the allelic bias.

Abstract: This system is a system for analyzing blood flow of a target vascular site by means of simulation, having a fluid analysis unit, by a computer, for determining state quantities of blood flow at each position of a lumen of the target vascular site by means of computation by imposing computational conditions including boundary conditions relating to the blood flow to three-dimensional shape data of the target vascular site; a three-dimensional shape modification unit for modifying the three dimensional shape data by simulating a surgical treatment method and for outputting the three-dimensional shape data after the modification; and a comparison display unit for displaying computed results of before and after the modification of the three-dimensional shape for comparing the results, by causing the fluid analysis unit to re-compute the state quantities based on the three-dimensional shape data after the modification.

Abstract: A method of simulating the activity of the human nervous system includes providing a networked server for access by a user of a general purpose computer, with a database having predetermined data on human nervous system activity being in communication with the networked server. User information is input into the general purpose computer which is correlated with data in the networked database to determine what part of the human nervous system is impacted by the user information input. The general purpose computer displays a simulated image of a portion of the human nervous system and animates the impacted part of the human nervous system determined in the correlation.

Abstract: The present invention relates to the identification of a TLR2 binding epitope wherein binding of a binding member to the epitope serves to inhibit TLR2 activation and/or signalling. Polypeptide fragments of TLR2 and three-dimensional structures comprising one or more amino acid residues His318, Pro320, Gln321 or Arg321, Tyr323, Lys347, Phe349, Leu371, Glu375, Tyr376 and His398 of TLR2 which define the identified epitope are provided for use in generating binding members. Also provided are binding members which bind to the identified epitope and methods of using same for the treatment and/or prevention of conditions associated with TLR2 activation and/or signalling.

Abstract: An embodiment of an apparatus includes a simulator, a generator, and a determiner. The simulator is configured to simulate a system and to propagate at least one state of the simulated system through time in response to a value of a parameter. The generator is configured to generate a representation of a region of a first plot having dimensions that respectively correspond at least to the parameter and to a characteristic of a state of the simulated system, and a representation of a region of a second plot having dimensions that respectively correspond at least to the parameter and to another characteristic of a state of the simulated system. And the determiner is configured to determine a next value of the parameter in response to the representations of the regions of the first and second plots.

Abstract: A method comprising analyzing multiple component data between or among categories of individuals to develop therapeutic lead compounds through analysis of biochemical networks linking the genome, transcriptome, proteome, metabolome, gut microbiome and environmental factors.

Abstract: Hybrid alpha-amylases are provided that share a conserved 3D structure in whole or in part with a wild-type Termamyl-like ?-amylase, e.g., a Bacillus amylase. In the hybrid, an N-terminal portion of a Termamyl-like ?-amylase is replaced with sequences from an archae ?-amylase. The sequence similarity between the two amylase sequences may be less than 60%. Conserving the wild-type 3D structure in the hybrid facilitates obtaining enzymatically active amylases. In one embodiment, one or both amylase sequences contribute residues to the B domain, resulting in particularly advantageous properties. For instance, replacement of the Ca2+ binding site in the B domain of the Termamyl-like ?-amylase with a B domain sequence of an archae ?-amylase that does not bind Ca2+ can produce a hybrid that is fully active in the absence of Ca2+.

Abstract: The disclosure relates to a programmable cancer cell model that may be customized to simulate the effect of gene mutations, for example mutations identified from a particular cancer patient's tissue sample. The simulation may be used to assess the likelihood of a candidate treatment resulting in stable remission for the patient. The model makes use of a fuzzy cognitive map (FCM) simulator that employs a matrix to represent healthy cell signaling relationships and an input disease vector representing one or more genetic mutations. The disease state vector is multiplied by the matrix to produce a stable diseased cell state vector after multiple iterations. A candidate treatment may then be proposed, based upon the diseased cell state vector. After multiple iterations with a treatment vector, the efficacy of the proposed treatment on the patient's particular cancer can be assessed, reducing reliance on the traditional trial and error approach.

Abstract: A 3D virtual model of an intra oral cavity in which at least a part of a finish line of a preparation is obscured is manipulated in virtual space by means of a computer or the like to create, recreate or reconstruct finish line data and other geometrical corresponding to the obscured part. Trimmed virtual models, and trimmed physical models, can then be created utilizing data thus created. The virtual models and/or the physical models may be used in the design and manufacture of copings or of prostheses.

Abstract: Methods and system to provide glycemic control and therapy management based on monitored glucose data, and current and/or target Hb1AC levels are provided.

Abstract: A method, program product, and apparatus are provided to correlate operation of a first system and a second system. A first set of metrics are generated for a first set of data produced during operation of the first system. A second set of metrics are generated that correspond to each of metrics in the first set of metrics from a second set of data produced during operation of the second system. A correlation score is computed for the first and second systems based on differences between the first set of metrics and the second set of metrics. The first set of metrics, the second set of metrics, and the correlation score are presented on the display to indicate a similarity of operation of the first and second systems.

Abstract: A health-monitoring device assesses the health of a user based on levels of two analytes in a biological fluid. A first analyte that is utilized to assess a user's health is a fat metabolism analyte, such as ketones, free fatty acids and glycerol, which is indicative of fat metabolism. A second analyte that is utilized is a glucose metabolism analyte, such as glucose. The levels of the two analytes may be used to assess insulin sensitivity, to detect both recent hypoglycemia and the cause of high glucose levels, and/or to guide therapeutic intervention. The dual analyte model may calculate a discrepancy between an actual insulin activity level and a theoretical insulin activity level. The dual analyte model of the present invention may be used to identify individuals at risk for metabolic syndrome, insulin resistance and non-insulin dependent diabetes, and allows monitoring of the progression of those disease states, as well as progress made by therapeutic interventions.

Abstract: A health-monitoring device assesses the health of a user based on levels of two analytes in a biological fluid. A first analyte that is utilized to assess a user's health is a fat metabolism analyte, such as ketones, free fatty acids and glycerol, which is indicative of fat metabolism. A second analyte that is utilized is a glucose metabolism analyte, such as glucose. The levels of the two analytes may be used to assess insulin sensitivity, to detect both recent hypoglycemia and the cause of high glucose levels, and/or to guide therapeutic intervention. The dual analyte model may calculate a discrepancy between an actual insulin activity level and a theoretical insulin activity level. The dual analyte model of the present invention may be used to identify individuals at risk for metabolic syndrome, insulin resistance and non-insulin dependent diabetes, and allows monitoring of the progression of those disease states, as well as progress made by therapeutic interventions.

Abstract: Systems and methods are disclosed for evaluating cardiovascular treatment options for a patient. One method includes creating a three-dimensional model representing a portion of the patient's heart based on patient-specific data regarding a geometry of the patient's heart or vasculature; and for a plurality of treatment options for the patient's heart or vasculature, modifying at least one of the three-dimensional model and a reduced order model based on the three-dimensional model. The method also includes determining, for each of the plurality of treatment options, a value of a blood flow characteristic, by solving at least one of the modified three-dimensional model and the modified reduced order model; and identifying one of the plurality of treatment options that solves a function of at least one of: the determined blood flow characteristics of the patient's heart or vasculature, and one or more costs of each of the plurality of treatment options.

Abstract: Various methods, techniques or modules are provided to allow for the automated analysis of the 3-D representation of the upper front torso (i) to recognize 3-D anatomical features, (ii) to orient the subject with reference to their anatomy or a display, (iii) to determine dimensional analysis including direct point-to-point lines, 3-D surface lines, and volume values, (iv) to simulate the outcome with the addition of breast implants including breast and nipple positioning, (v) to assist in the selection of the breast implants, and/or (vi) to assist in the planning of breast surgery. The automated analysis is based on the analysis of changes in a 3-D contour map of the upper torso, orientation analysis of 3-D features and planes, color analysis of 3-D features, and/or dimensional analysis of 3-D features and positions of the upper torso.

Abstract: Systems and methods are disclosed for evaluating cardiovascular treatment options for a patient. One method includes creating a three-dimensional model representing a portion of the patient's heart based on patient-specific data regarding a geometry of the patient's heart or vasculature; and for a plurality of treatment options for the patient's heart or vasculature, modifying at least one of the three-dimensional model and a reduced order model based on the three-dimensional model. The method also includes determining, for each of the plurality of treatment options, a value of a blood flow characteristic, by solving at least one of the modified three-dimensional model and the modified reduced order model; and identifying one of the plurality of treatment options that solves a function of at least one of: the determined blood flow characteristics of the patient's heart or vasculature, and one or more costs of each of the plurality of treatment options.

Abstract: Methods and systems for assessing pulmonary gas exchange and/or alveolar-capillary barrier status include obtaining at least one MRI image and/or image data of 129Xe dissolved in the red blood cells (RBC) in the gas exchange regions of the lungs of a patient. The image is sufficiently sensitive to allow a clinician or image recognition program to assess at least one of pulmonary gas exchange, barrier thickness or barrier function based on the 129Xe MRI RBC image.

Abstract: Provided herein are systems, methods and computer readable media for assessing the health, fitness, operation, or performance of an individual. An example method comprises selecting an individual dynamics/kinetics model from a database and comparing it to tag location data. Another example method comprises selecting a health, fitness, operation and performance (HFOP) model from a database and comparing it to the sensor-derived data.

Abstract: A method for assisting subchondral injection comprising creating a model of bone and soft tissue of a patient. At least one void is modeled in the bone from the model of bone and soft tissue. An injection site is identified from the model of bone and soft tissue and modeling of the at least one void. Data is output for guiding at least in the locating of the injection site and drilling of the bone to reach the void. A patient-specific jig for subchondral injection may be created based on the injection site location.

Abstract: The invention relates to a method for identifying compounds that bind and preferably activate a target opioid receptor in a pH-dependent manner.

Abstract: Disclosed is a novel system and method to develop computational models of membrane conductances through training a multi-layer perceptron to predict a channel's responses (conductances) to different conditions (voltage histories). Initially, at each time step of the dAPC protocol the current generated across the TCL1 cell membrane is determined by the history of voltages calculated in the model compartment. These data collected from dAPC are then used to train a perceptron, whose inputs are select time points in this history, and whose output predicts the channel conductances measured by the dAPC apparatus. The trained perceptron then becomes a model of the channel, comprising a specific set of historical voltage data points from compartment models provided as inputs to a specific combination of hidden units to produce an output that predicts channel conductance given a particular voltage history.

Abstract: Disclosed is a novel system and method to develop computational models of membrane conductances through training a multi-layer perceptron to predict a channel's responses (conductances) to different conditions (voltage histories). Initially, at each time step of the dAPC protocol the current generated across the TCL1 cell membrane is determined by the history of voltages calculated in the model compartment. These data collected from dAPC are then used to train a perceptron, whose inputs are select time points in this history, and whose output predicts the channel conductances measured by the dAPC apparatus. The trained perceptron then becomes a model of the channel, comprising a specific set of historical voltage data points from compartment models provided as inputs to a specific combination of hidden units to produce an output that predicts channel conductance given a particular voltage history.

Abstract: In at least one embodiment, a method for diagnosing vascular disease is provided, the method comprising the steps of obtaining a vessel image showing a vasculature of a vessel, identifying at least two measurements from the vasculature of the vessel, the measurements relating to at least two parameters, calculating a relationship between the at least two parameters from the at least two measurements to generate one or more vasculature data points, and comparing the one or more vasculature data points to data relative to a model vasculature to determine the extent of vascular disease. In an another embodiment, a method for diagnosing vascular disease in a patient's vascular tree is provided, the method comprising the steps of generating a model vascular tree from a minimum energy hypothesis calculation, and comparing the patient's vascular tree with the model vascular tree to determine the extent of vascular disease.

Abstract: Disclosed herein are methods for large-scale, high-throughput identification of protein-protein interactions and the topologies thereof under physiologically relevant conditions. In one aspect, the disclosure provides methods for identifying one or a plurality of interacting peptides within a biological system comprising obtaining a population of proteins cross-linked with a cleavable protein interaction reporter (PIR) cross-linker, cleaving the PIR crosslinker to produce released peptides and cleaved reporter ions, and analyzing the population of released peptides to identify interacting peptides. Also disclosed are methods for identifying candidate drug compounds, as well as methods of data processing and visualization of protein-protein interactions.

Abstract: A method of simulating brain activity and neural pathways in a user includes providing a networked server for access by a user of the invention, using a general purpose computer. A database is provided in communication with the networked server. The general purpose computer carries out a step of detecting a movement of the user, the movement then being communicated to the networked server, which associates that movement with a certain set of data in the database relating to predetermined simulated neural activity. The simulated neural activity associated with the user's movement is communicated to the user.

Abstract: The invention concerns the generation of a three dimensional model of the six helix bundle (6HB) complexed with an inhibitor and the use of that model to identify, screen and/or develop inhibitors against viruses that use a class I fusion protein. Such inhibitors of viruses that use a class I fusion protein may be effective for treating, for example, respiratory infections by Respiratory Syncytial Virus (RSV).

Abstract: Method to process a set of tomosynthesis slices, comprising; acquiring images of an object of interest using a detector of a machine also comprising an X-ray emitter; reconstructing a set of tomosynthesis slices of the object using a calculator, in relation to the acquired images; displaying slices on a display monitor with a first display increment; selecting a region of interest in a slice of interest; and using a second display increment that is finer than the first display increment to display on the display monitor regions of interest belonging to slices in the set, the regions of interest corresponding to the selected region of interest.

Abstract: A system and method for converting static/still medical images of a particular patient into dynamic and interactive images interacting with medical tools including medical devices by coupling a model of tissue dynamics and tool characteristics to the patient specific imagery for simulating a medical procedure in an accurate and dynamic manner.

Abstract: Systems and methods for modeling functional magnetic resonance image datasets using a multivariate auto-regressive model which captures temporal dynamics in the data, and creates a reduced representation of the dataset representative of functional connectivity of voxels with respect to brain activity. Raw spatio-temporal data is processed using a multivariate auto-regressive model, wherein coefficients in the model with high weights are retained as indices that best describe the full spatio-temporal data. When there are a relatively small number of temporal samples of the data, sparse regression techniques are used to build the model. The model coefficients are used to perform data processing functions such as indexing, prediction, and classification.

Abstract: A computer-implemented method for simulating blood flow through a heart valve may first involve receiving patient-specific data, including imaging data related to the heart valve, an inflow tract of the heart valve and an outflow tract of the heart valve, and at least one clinically measured flow parameter. Next, the method may involve generating a digital model of the heart valve and the inflow and outflow tracts, based at least partially on the imaging data, discretizing the model, applying boundary conditions to a portion of the digital model that contains the heart valve and the inflow and outflow tracts, and initializing and solving mathematical equations of blood flow through the model to generate computerized flow parameters. Finally, the method may involve comparing the computerized flow parameters with the at least one clinically measured flow parameter.

Abstract: Methods and systems for analyzing genetic variants are disclosed.

Abstract: A non-transitory storage medium stores an assembled genetic sequence comprising aligned sequencing reads. An electronic processing device is configured to perform operations including: identifying a possible variant in the assembled genetic sequence; computing value of at least one read property for reads of the assembled genetic sequence; and calling the possible variant conditional upon the computed values of the at least one read property for sequencing reads of the assembled genetic sequence that include the possible variant satisfying an acceptance criterion. The electronic processing device may be further configured to select at least one region of the assembled genetic sequence for validation based on a non random selection criterion.

Abstract: Provided is a protein-ligand docking prediction method based on quantum mechanical scoring. The method includes evaluating a protein-ligand docking structure by using a molecular mechanical energy-based scoring function and reevaluating the protein-ligand docking structure by using a rescoring function obtained by combining a quantum mechanical factor with the molecular mechanical energy-based scoring function. In accordance with the method using the quantum mechanical scoring, it is possible to more accurately carry out modeling than conventional force field-based methods.

Abstract: The present invention relates to the characterization of human bone microstructure that is applicable to methods of characterizing and predicting fracture initiation, propagation, and arrest. These methods involve the collagen orientation in proximity of osteocyte lacunae, such as the lacunar-ECM interface and perilacunar region, and the role that collagen orientation plays in micro-biomechanics. In particular, collagen orientation at the lacuna-matrix interface optimizes the magnitude of stresses during the elastic phase. Further, the role of collagen-apatite orientation at the interface between matrix and osteocyte lacuna delays micro-crack initiation, propagation, and arrest.

Abstract: The present invention is related to field of allergic (hypersensitivity) diseases and provides a method for producing modified allergenic polypeptides for use in immunotherapies. In the method of the invention, said allergenic polypeptides are modified so that they are not capable to form transient dimers. The invention also provides modified ?-lactoglobulins for use in immunotherapy of milk allergy.

Abstract: Three-dimensional visualization of biomedical datasets in an immersive visual environment includes creating a finite element mesh patient specific three-dimensional mode. Points from the finite element mesh are removed to produce a refined patient specific three-dimensional model. The three-dimensional model and simulation are interpolated onto a uniform rectilinear grid. The refined patient specific three-dimensional model and the simulation data are transformed to a scale of the IVE. The refined patient specific three-dimensional model and the simulation data are presented within the IVE with a three-dimensional visualization system.

Abstract: Methods for method for increasing genetic gain in a breeding process are provided. Also provided are methods for choosing breeding pairs predicted to produce progeny having desired phenotypes, methods for increasing the likelihood of producing progeny individual having desired phenotypes, methods for generating progeny individual having desired genotypes and/or phenotypes, progeny produced thereby, and cells, seeds, parts, and tissues cultures thereof.

Abstract: A device and method for automating the handling and testing of microbiological specimens are provided. A portable specimen collection vehicle (SCV) is provided which comprises a protective housing, a specimen chamber for receiving a biospecimen sample, a plurality of culturing chambers each for receiving a portion of the biospecimen sample and each containing a different culture medium, a system of fluid ducts connecting the specimen chamber to each of the culturing chambers, and an actuator that facilitates flow of portions of the biospecimen sample from the specimen chamber through the system of fluid ducts and into each of the culturing chambers, wherein biological organisms in the biospecimen begin to grow in one or more of the culturing chambers and cultured portions of the biospecimen sample can be withdrawn selectively from the apparatus.

Abstract: A computer-implemented system and method for facilitating accurate glycemic control by modeling blood glucose using cloud-based circadian profiles is provided. Anti-hyperglycemic medications are categorized based on similar glucose lowering effects. A circadian profile for a diabetic patient is built by storing online at least two recent typical measurements of pre-meal and post-meal blood glucose, a dose of an anti-hyperglycemic medication, and the class of the anti-hyperglycemic medication.

Abstract: Methods for generating a normalized expression signal for microarray data based on a theoretical distribution at the unit level to produce a normalized expression signal for the single microarray that is independent of other microarrays. The method typically includes receiving microarray data representing a plurality of probe pairs for a single microarray, determining, for each probe pair, differences between intensities of perfect match (PM) probes and intensities of mismatched (MM) probes, determining a difference signal, D, based on the determined differences, and scaling the difference signal, D, to produce an expression signal, DS. The method also typically includes normalizing the expression signal based on a theoretical distribution at the unit level to produce a normalized expression signal for the single microarray that is independent of other microarrays.

Abstract: A method of combinatorial optimization includes: (1) defining an objective function to optimize a combination of N input parameters of a complex system, wherein the objective function includes a weighted sum of n different optimization criteria, N?2, and n?2; (2) applying an initial combination of the N input parameters to the complex system to yield an initial output response; (3) executing an optimization procedure to generate an updated combination of the N input parameters, wherein executing the optimization procedure includes calculating an initial value of the objective function based on at least one of (a) the initial combination of the N input parameters and (b) the initial output response; and (4) applying the updated combination of the N input parameters to the complex system to yield an updated output response.

Abstract: The present invention provides an integrated health care surveillance and monitoring system that provides real-time sampling, modeling, analysis, and recommended interventions. The system can be used to monitor infectious and chronic diseases. When faced with outbreak of an infectious disease agent, e.g., influenza virus, the system can identify active cases through pro-active sampling in high risk locations, such as schools or crowded commercial areas. The system can notify appropriate entities, e.g., local, regional and national governments, when an event is detected, thereby allowing for proactive management of a possible outbreak. The system also predicts the best response for deployment of scarce resources.