Abstract: Examples described herein provide a computer-implemented method for training a neural network using forward signal propagation learning. The method includes receiving, at a first layer of the neural network, an input value and a label associated with the input value. The method further includes calculating, for the first layer of the neural network, a first loss value based at least in part on outputs of the first layer for the input value and for the label. The method further includes updating, based at least in part on the first loss value, the first layer of the neural network based at least in part on the outputs of the first layer for the input value and for the label.

Abstract: A method to select a protein target for therapeutic application includes accessing genomic information and protein-protein interaction (PPI) data, computing a thermodynamic measure for each protein node within the network of protein nodes, generating an energy landscape data corresponding to the network of protein nodes and the thermodynamic measure, generating a PPI subnetwork by applying a topological filtration to the energy landscape data of the PPI data, computing a first Betti number for the PPI subnetwork, sequentially removing a protein node(s) from the PPI subnetwork while replacing the previously removed nodes(s), computing a new Betti number for the PPI subnetwork with the protein node(s) removed, computing a change between the Betti numbers, and determining, based on the change between the Beti numbers, a most significant protein target within the PPI network.

Abstract: A method to select a protein target for therapeutic application includes accessing genomic information and protein-protein interaction (PPI) data, computing a thermodynamic measure for each protein node within the network of protein nodes, generating an energy landscape data corresponding to the network of protein nodes and the thermodynamic measure, generating a PPI subnetwork by applying a topological filtration to the energy landscape data of the PPI data, computing a first Betti number for the PPI subnetwork, sequentially removing a protein node(s) from the PPI subnetwork while replacing the previously removed node(s), computing a new Betti number for the PPI subnetwork with the protein node(s) removed, computing a change between the Betti numbers, and determining, based on the change between the Beti numbers, a most significant protein target within the PPI subnetwork.

Abstract: A method for selecting a molecular target for therapeutic application involves accessing omic information and protein-protein interaction (PPI) data including a network of protein nodes. The method further involves computing a Gibbs free energy for each protein node within the network of protein nodes using the omic information and the PPI data, interpreting information for one or more products of gene fusion from the omic information as one or more gene fusion protein probabilities, and converting the one or more gene fusion protein probabilities into one or more gene fusion protein networks based on a Fermi distribution. The method also involves taking a union of the network of protein nodes with the one or more gene fusion protein networks and generating an energy landscape corresponding to the union of the network of protein nodes with the one or more gene fusion protein networks, and the Gibbs free energy.

Abstract: Ultrasonic standing waves are generated to trap and separate oil droplets, cellular material and/or gases from a fluid. The methods and apparatuses operate at ultrasonic resonance and are low power, e.g., in the range of 1-5 W. One or more acoustic transducers operating in the 100 kHz to 5 MHz range may be used. The methods and apparatuses may be implemented using relatively large flow chamber and flow rates, e.g., in a range of from about 200 mL/min to greater than about 15 L/min.

Abstract: Provided herein are systems and methods for separation of particulate from water using ultrasonically generated acoustic standing waves.

Abstract: A method for therapeutic application involves accessing information associated with a patient and a reference biological network database, generating, using the information associated with the patient and the reference biological network database, a disease model, identifying, from the disease model, a molecular target, identifying, from the molecular target, a drug for the patient, generating, based on the drug for the patient, a treatment plan for the patient, and repetitively generating, based on repetitively inputting a patient outcome from the treatment plan into a feedback loop mechanism, a different treatment plan for the patient based on either the molecular target or a different molecular target.

Abstract: A method to select a protein target for therapeutic application includes accessing genomic information and protein-protein interaction (PPI) data, computing a thermodynamic measure for each protein node within the network of protein nodes, generating an energy landscape data corresponding to the network of protein nodes and the thermodynamic measure, generating a PPI subnetwork by applying a topological filtration to the energy landscape data of the PPI data, computing a first Betti number for the PPI subnetwork, sequentially removing a protein node(s) from the PPI subnetwork while replacing the previously removed node(s), computing a new Betti number for the PPI subnetwork with the protein node(s) removed, computing a change between the Betti numbers, and determining, based on the change between the Beti numbers, a most significant protein target within the PPI subnetwork.

Abstract: A flow chamber is provided through which is flowed a mixture of a fluid and a particulate. The flow chamber comprises at least one multi-phase water inlet through which multi-phase water enters the flow chamber, a water outlet through which water exits the flow chamber, a solids outlet through which particles having a density at or above a pre-defined threshold exit the flow chamber, and a low density outlet through which particles having a density below the pre-defined threshold exit the flow chamber. Also provided are one or more ultrasonic transducers and one or more reflectors corresponding to each transducer to acoustically filter the fluid and cause particles/fluid to be selectively diverted to one of the outlets. Related apparatus, systems, techniques and articles are also described.

Abstract: Disclosed herein are systems and methods for desalination of salt water based on an engineered acoustic field that causes constructive and destructive interference at precomputed spatial positions. The engineered acoustic field can cause high-pressure and low-pressure regions where desalination membranes are located. The induced pressure from the acoustic field can force pure water through the membranes leaving ionic and dissolved molecular species behind.

Abstract: Acoustophoretic devices and methods for using such devices in various applications are disclosed. The devices include a flow chamber having an inlet; a phononic crystal within an active volume of the flow chamber; and ultrasonic transducer(s) that create an acoustic standing wave in the active volume. This combination results in the creation of high-pressure nodes within the active volume, having a value of at least 50 MPa, which is useful for different applications.

Abstract: A system is provided that includes one or more acoustic microfilters through which is flowed a mixture of a fluid and a particulate to selectively filter particles from the fluid. Also included are one or more phononic crystal units coupled to the acoustic microfilter(s) to further selectively filter particles from the fluid. Related apparatus, systems, techniques and articles are also described.

Abstract: A flow chamber is provided through which is flowed a mixture of a fluid and a particulate. The flow chamber comprises at least one multi-phase water inlet through which multi-phase water enters the flow chamber, a water outlet through which water exits the flow chamber, a solids outlet through which particles having a density at or above a pre-defined threshold exit the flow chamber, and a low density outlet through which particles having a density below the pre-defined threshold exit the flow chamber. Also provided are one or more ultrasonic transducers and one or more reflectors corresponding to each transducer to acoustically filter the fluid and cause particles/fluid to be selectively diverted to one of the outlets. Related apparatus, systems, techniques and articles are also described.

Abstract: Provided herein are systems and methods for separation of particulate from water using ultrasonically generated acoustic standing waves.

Abstract: A flow chamber is provided through which is flowed a mixture of a fluid and a particulate. The flow chamber comprises at least one multi-phase water inlet through which multi-phase water enters the flow chamber, a water outlet through which water exits the flow chamber, a solids outlet through which particles having a density at or above a pre-defined threshold exit the flow chamber, and a low density outlet through which particles having a density below the pre-defined threshold exit the flow chamber. Also provided are one or more ultrasonic transducers and one or more reflectors corresponding to each transducer to acoustically filter the fluid and cause particles/fluid to be selectively diverted to one of the outlets. Related apparatus, systems, techniques and articles are also described.

Abstract: Provided herein are systems and methods for separation of particulate from water using ultrasonically generated acoustic standing waves.

Abstract: Several prototype systems are described for separating oil and water from emulsions. The systems operate at ultrasonic resonance and are thus low power. Each system contains one or more acoustic transducers operating in the 100 kHz to 5 MHz range. Each system contains flow input for the emulsion and two or more flow outputs for the separated oil and water. Existing prototypes operate from 200 mL/min to >15 L/min. Each uses low power in the range of 1-5 W.

Abstract: Disclosed herein are systems and methods for desalination of salt water based on an engineered acoustic field that causes constructive and destructive interference at precomputed spatial positions. The engineered acoustic field can cause high-pressure and low-pressure regions where desalination membranes are located. The induced pressure from the acoustic field can force pure water through the membranes leaving ionic and dissolved molecular species behind.

Abstract: Systems are provided with varying flow chamber configurations which acoustically agglomerate microorganisms such as algae for separation from a host fluid such as water. Related apparatus, systems, techniques and articles are also described.

Abstract: Disclosed herein are systems and methods for desalination of salt water based on an engineered acoustic field that causes constructive and destructive interference at pre-computed spatial positions. The engineered acoustic field can cause high-pressure and low-pressure regions where desalination membranes are located. The induced pressure from the acoustic field can force pure water through the membranes leaving ionic and dissolved molecular species behind.