Patents by Inventor William E. Allen

William E. Allen has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).

  • Publication number: 20260070063
    Abstract: Provided herein are devices, methods, and systems for in situ gene sequencing of a target nucleic acid in a cell in an intact tissue. Methods of screening a candidate agent to determine whether the candidate agent modulates gene expression of a nucleic acid in a cell in an intact tissue are also provided herein.
    Type: Application
    Filed: November 14, 2025
    Publication date: March 12, 2026
    Inventors: Karl A. Deisseroth, William E. Allen, Brian Hsueh, Li Ye
  • Publication number: 20250313891
    Abstract: Provided herein are devices, methods, and systems for in situ gene sequencing of a target nucleic acid in a cell in an intact tissue. Methods of screening a candidate agent to determine whether the candidate agent modulates gene expression of a nucleic acid in a cell in an intact tissue are also provided herein.
    Type: Application
    Filed: June 5, 2025
    Publication date: October 9, 2025
    Inventors: Xiao WANG, William E. ALLEN, Karl A. DEISSEROTH
  • Patent number: 12359253
    Abstract: Provided herein are devices, methods, and systems for in situ gene sequencing of a target nucleic acid in a cell in an intact tissue. Methods of screening a candidate agent to determine whether the candidate agent modulates gene expression of a nucleic acid in a cell in an intact tissue are also provided herein.
    Type: Grant
    Filed: April 4, 2019
    Date of Patent: July 15, 2025
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Xiao Wang, William E. Allen, Karl A. Deisseroth
  • Publication number: 20250113752
    Abstract: A control system for an agricultural tillage implement includes a controller configured to receive a first pressure sensor signal indicative of a first fluid pressure within a rolling basket cylinder and a second pressure sensor signal indicative of a second fluid pressure within a wheel frame actuator. The rolling basket cylinder is configured to couple to a main frame and to a rolling basket frame, and the wheel frame actuator is configured to control a position of a wheel frame relative to a hitch assembly. The controller is also configured to decrease a target fluid pressure in response to the second fluid pressure being below a minimum wheel frame actuator pressure threshold, and the controller is configured to control a tilt force applied to the main frame to maintain the first fluid pressure within a range of the target fluid pressure.
    Type: Application
    Filed: October 4, 2024
    Publication date: April 10, 2025
    Inventors: Michael W. Glennon, Derek Sicheneder, William E. Allen, Federico Eduardo Palacios
  • Publication number: 20250113755
    Abstract: A control system for an agricultural tillage implement includes a controller configured to receive a first signal indicative of a target depth of a rear row of disc blades and a second signal indicative of a redirection amount and a redirection direction. The controller is configured to determine a target pitch angle adjustment based on the amount and direction, and the controller is configured to control a tilt actuator to control a tilt force applied to a main frame, a wheel actuator to control a position of a wheel relative to a hitch frame, and a rolling basket cylinder to control a position of a rolling basket relative to the main frame based on the target pitch angle adjustment, the target depth of the rear row of disc blades and one or more inverse kinematic relationships to establish a target penetration depth of a front row of disc blades.
    Type: Application
    Filed: October 4, 2024
    Publication date: April 10, 2025
    Inventors: Michael W. Glennon, Derek Sicheneder, Heath A. Toennies, William E. Allen
  • Patent number: 12207578
    Abstract: A finishing tool control system for an agricultural implement may include a controller communicatively coupled to a first and a second sensor. The controller is configured to control a height of a finishing tool above a soil surface. Further, the first sensor is configured to output a signal indicative of a height of a main frame of the agricultural implement above the soil surface. In response to determining that a height increase of the main frame exceeds a threshold height adjustment, the controller increases the height of the finishing tool. The second sensor is configured to output a signal indicative of the height of the finishing tool of the finishing assembly above the soil surface. Moreover, in response to determining that a height of the finishing assembly above the soil surface is less than a threshold value, the controller increases the height of the finishing tool.
    Type: Grant
    Filed: August 17, 2022
    Date of Patent: January 28, 2025
    Inventors: Derek Sicheneder, William E. Allen, Kea Voa Chin
  • Publication number: 20240057497
    Abstract: A finishing tool control system for an agricultural implement may include a controller communicatively coupled to a first and a second sensor. The controller is configured to control a height of a finishing tool above a soil surface. Further, the first sensor is configured to output a signal indicative of a height of a main frame of the agricultural implement above the soil surface. In response to determining that a height increase of the main frame exceeds a threshold height adjustment, the controller increases the height of the finishing tool. The second sensor is configured to output a signal indicative of the height of the finishing tool of the finishing assembly above the soil surface. Moreover, in response to determining that a height of the finishing assembly above the soil surface is less than a threshold value, the controller increases the height of the finishing tool.
    Type: Application
    Filed: August 17, 2022
    Publication date: February 22, 2024
    Inventors: Derek Sicheneder, William E. Allen, Kea Voa Chin
  • Publication number: 20230213415
    Abstract: The present disclosure provides methods of preparing a biological specimen for imaging analysis, comprising fixing and clearing the biological specimen and subsequently analyzing the cleared biological specimen using microscopy. Also included are methods of quantifying cells, for example, active populations of cells in response to a stimulant. The present disclosure also provides devices for practicing the described methods. A flow-assisted clearing device provides rapid clearing of hydrogel-embedded biological specimens without the need of specialized equipment such as electrophoresis or perfusion devices.
    Type: Application
    Filed: February 22, 2023
    Publication date: July 6, 2023
    Inventors: Karl A. Deisseroth, William E. Allen, Brian Hsueh, Li Ye
  • Patent number: 11624685
    Abstract: The present disclosure provides methods of preparing a biological specimen for imaging analysis, comprising fixing and clearing the biological specimen and subsequently analyzing the cleared biological specimen using microscopy. Also included are methods of quantifying cells, for example, active populations of cells in response to a stimulant. The present disclosure also provides devices for practicing the described methods. A flow-assisted clearing device provides rapid clearing of hydrogel-embedded biological specimens without the need of specialized equipment such as electrophoresis or perfusion devices.
    Type: Grant
    Filed: October 22, 2019
    Date of Patent: April 11, 2023
    Assignee: The Board of Trustees of the Leland Sanford Junior Univeristy
    Inventors: Karl A. Deisseroth, William E. Allen, Brian Hsueh, Li Ye
  • Publication number: 20230109070
    Abstract: Provided herein are devices, methods, and systems for in situ gene sequencing of a target nucleic acid in a cell in an intact tissue. Methods of screening a candidate agent to determine whether the candidate agent modulates gene expression of a nucleic acid in a cell in an intact tissue are also provided herein.
    Type: Application
    Filed: October 15, 2020
    Publication date: April 6, 2023
    Inventors: Ethan B. Richman, William E. Allen, Karl A. Deisseroth
  • Publication number: 20210164039
    Abstract: Provided herein are devices, methods, and systems for in situ gene sequencing of a target nucleic acid in a cell in an intact tissue. Methods of screening a candidate agent to determine whether the candidate agent modulates gene expression of a nucleic acid in a cell in an intact tissue are also provided herein.
    Type: Application
    Filed: April 4, 2019
    Publication date: June 3, 2021
    Inventors: Xiao WANG, William E. ALLEN, Karl A. DEISSEROTH
  • Publication number: 20200096425
    Abstract: The present disclosure provides methods of preparing a biological specimen for imaging analysis, comprising fixing and clearing the biological specimen and subsequently analyzing the cleared biological specimen using microscopy. Also included are methods of quantifying cells, for example, active populations of cells in response to a stimulant. The present disclosure also provides devices for practicing the described methods. A flow-assisted clearing device provides rapid clearing of hydrogel-embedded biological specimens without the need of specialized equipment such as electrophoresis or perfusion devices.
    Type: Application
    Filed: October 22, 2019
    Publication date: March 26, 2020
    Inventors: Karl A. Deisseroth, William E. Allen, Brian Hsueh, Li Ye
  • Patent number: 10568516
    Abstract: A method for measuring the activity of one or more excitable cells, such as neurons, in a target tissue is provided. The present method may include measuring the activity of individual, selected excitable cells by projecting one or more three dimensional (3D) multi-focal laser light patterns into a target tissue containing excitable cells adapted to emit cellular electrical activity—sensitive fluorescence, to generate a multiplexed 2D diffraction pattern of fluorescence emitted by the neurons, and resolving the multiplexed 2D diffraction pattern. Also provided herein is a system configured to perform the present method, the system including a microscope configured to project one or more 3D multi-focal laser light patterns into a target tissue using a spatial light modulator and a mirror galvanometer, and a microlens array and an image detector to record individual and multiplexed 2D diffraction patterns of light emitted from the target tissue.
    Type: Grant
    Filed: June 13, 2016
    Date of Patent: February 25, 2020
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Samuel Yang, Karl A. Deisseroth, William E. Allen, Isaac V. Kauvar, Aaron S. Andalman
  • Patent number: 10495554
    Abstract: The present disclosure provides methods of preparing a biological specimen for imaging analysis, comprising fixing and clearing the biological specimen and subsequently analyzing the cleared biological specimen using microscopy. Also included are methods of quantifying cells, for example, active populations of cells in response to a stimulant. The present disclosure also provides devices for practicing the described methods. A flow-assisted clearing device provides rapid clearing of hydrogel-embedded biological specimens without the need of specialized equipment such as electrophoresis or perfusion devices.
    Type: Grant
    Filed: May 25, 2017
    Date of Patent: December 3, 2019
    Assignee: The Board of Trustees of the Leland Stanford Junior University
    Inventors: Karl A. Deisseroth, William E. Allen, Brian Hsueh, Li Ye
  • Publication number: 20180177401
    Abstract: A method for measuring the activity of one or more excitable cells, such as neurons, in a target tissue is provided. The present method may include measuring the activity of individual, selected excitable cells by projecting one or more three dimensional (3D) multi-focal laser light patterns into a target tissue containing excitable cells adapted to emit cellular electrical activity—sensitive fluorescence, to generate a multiplexed 2D diffraction pattern of fluorescence emitted by the neurons, and resolving the multiplexed 2D diffraction pattern. Also provided herein is a system configured to perform the present method, the system including a microscope configured to project one or more 3D multi-focal laser light patterns into a target tissue using a spatial light modulator and a mirror galvanometer, and a microlens array and an image detector to record individual and multiplexed 2D diffraction patterns of light emitted from the target tissue.
    Type: Application
    Filed: June 13, 2016
    Publication date: June 28, 2018
    Inventors: Samuel Yang, Karl A. Deisseroth, William E. Allen, Isaac V. Kauvar, Aaron S. Andalman
  • Publication number: 20180045622
    Abstract: The present disclosure provides methods of preparing a biological specimen for imaging analysis, comprising fixing and clearing the biological specimen and subsequently analyzing the cleared biological specimen using microscopy. Also included are methods of quantifying cells, for example, active populations of cells in response to a stimulant. The present disclosure also provides devices for practicing the described methods. A flow-assisted clearing device provides rapid clearing of hydrogel-embedded biological specimens without the need of specialized equipment such as electrophoresis or perfusion devices.
    Type: Application
    Filed: May 25, 2017
    Publication date: February 15, 2018
    Inventors: Karl A. Deisseroth, William E. Allen, Brian Hsueh, Li Ye
  • Patent number: 9242648
    Abstract: A system and method for enabling a machine to drive through its parking brake when in first gear include detecting that the machine transmission is in its lowest gear in a selected direction, that the machine parking brake is activated, such that the machine is stationary, and that the throttle setting of the machine exceeds a predetermined throttle threshold value. In this state, one or more auxiliary loads of the machine are dropped to provide additional torque to the ground engaging elements of the machine, such that there is sufficient torque to drive the machine through the parking brake.
    Type: Grant
    Filed: September 5, 2014
    Date of Patent: January 26, 2016
    Assignee: Caterpillar Inc.
    Inventors: William E. Allen, Bryan T. Siegel, Norval Thomson
  • Patent number: 8322233
    Abstract: A hydraulic fluid sampler and a method for obtaining a hydraulic fluid sample includes a sample container holder configured to support a sample container mounted thereto in an inverted position and a non-inverted position. In the inverted position, the sample container holder is configured to flush the sample container with hydraulic fluid so as to flush away any contaminates that may be present. In the non-inverted position, the sample container holder is configured to fill the sample container with hydraulic fluid.
    Type: Grant
    Filed: February 25, 2009
    Date of Patent: December 4, 2012
    Assignee: MTS Systems Corporation
    Inventors: James M. Hennen, William E. Allen
  • Publication number: 20100212439
    Abstract: A hydraulic fluid sampler and a method for obtaining a hydraulic fluid sample includes a sample container holder configured to support a sample container mounted thereto in an inverted position and a non-inverted position. In the inverted position, the sample container holder is configured to flush the sample container with hydraulic fluid so as to flush away any contaminates that may be present. In the non-inverted position, the sample container holder is configured to fill the sample container with hydraulic fluid.
    Type: Application
    Filed: February 25, 2009
    Publication date: August 26, 2010
    Applicant: MTS Systems Corporation
    Inventors: James M. Hennen, William E. Allen
  • Patent number: 7274699
    Abstract: A method is provided for determining a global mask value for filtering incoming messages in a CAN environment having a predetermined number of match registers, where the global mask value has one or more bits. A set of incoming messages to be identified is established. Each of the one or more bits in the global mask value is set to a first digital value. The following steps are repeated until the set of incoming messages to be identified fits within a predetermined number of match registers: adding a don't_care bit to the global mask value and determining a best position for the added don't_care bit. The don't_care bit is represented by a second digital value in the best position.
    Type: Grant
    Filed: September 20, 2002
    Date of Patent: September 25, 2007
    Assignee: Caterpillar Inc
    Inventor: William E. Allen