Patents by Inventor Baris Yagci

Baris Yagci 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).

  • Patent number: 11959835
    Abstract: A system for optical interrogation of tissue samples, the system including: a microtome configured to section one or more tissue sections from a tissue block, the one or more tissue sections including one or more tissue samples; a transfer medium configured to gather the one or more tissue sections and to transfer the one or more tissue sections to one or more slides; and an optical interrogation system including an illumination system configured to illuminate the one or more tissue sections and an imaging system configured to perform an imaging analysis on the one or more tissue sections illuminated with the illumination system.
    Type: Grant
    Filed: October 22, 2021
    Date of Patent: April 16, 2024
    Assignee: Clarapath, Inc.
    Inventors: Partha P. Mitra, Charles R. Cantor, Baris Yagci, Steven Smith
  • Patent number: 11927598
    Abstract: An analyzer system for in vitro diagnostics includes a sample handler module having a robot arm that delivers samples from drawers into carriers on a linear synchronous motor automation track. Samples are delivered via the automation track to individual track sections associated with individual analyzer modules. Analyzer modules aspirate sample portions directly from the sample carriers and perform analysis thereon.
    Type: Grant
    Filed: June 15, 2022
    Date of Patent: March 12, 2024
    Assignee: Siemens Healthcare Diagnostics Inc.
    Inventors: David Stein, Roy Barr, Mark Edwards, Colin Mellars, Thomas J. Bao, Charles V. Cammarata, Benjamin S. Pollack, Baris Yagci, Beri Cohen
  • Patent number: 11906398
    Abstract: There is provided an automated system for preparing tissue samples that comprises one or more microtomes, a hydration system, and a processor, the processor being programmed to initiate facing, by one or more microtomes, of a first tissue block comprising a first tissue sample embedded in an embedding material, and cause the first tissue block to be hydrated by the hydration system for a first predetermined time, and initiate facing, by one or more microtomes, of a second tissue block while the first tissue block is being hydrated, the second tissue block comprising a second tissue sample embedded in an embedding material, and cause the second tissue block to be hydrated by the hydration system for a second predetermined time, and to initiate the one or more microtomes to begin sectioning of the first tissue block while the second tissue block is being hydrated.
    Type: Grant
    Filed: July 18, 2022
    Date of Patent: February 20, 2024
    Assignee: Clarapath, Inc.
    Inventors: Baris Yagci, Eric Feinstein, Partha P. Mitra, Janak Sewkarran, Cong Zhang, Robert Shusko
  • Patent number: 11898948
    Abstract: The present disclosure relates to systems and methods for tracking and printing within a histology system. In some embodiments, a system is provided that includes an information reader configured to read identifying data associated with a tissue block, a microtome configured to cut one or more tissue sections from the tissue block, one or more slides for receiving the one or more tissue sections, and a printer configured to receive the identifying data and print, after the one or more tissue sections are cut from the tissue block, one or more labels for the one or more slides, the one or more labels comprising information associating the one more tissue sections on the one or more slides with the tissue block.
    Type: Grant
    Filed: February 22, 2021
    Date of Patent: February 13, 2024
    Assignee: Clarapath, Inc.
    Inventors: Partha P. Mitra, Janak Sewkarran, Baris Yagci, Jerry R. Pinto
  • Patent number: 11874208
    Abstract: A method and apparatus for automatically transferring sections from a sample block to a tape and for transferring select sections to a slide. A tissue storage system for storing cut sections on the tape and digital storage system for storing photos and other information during the transfer of the sections can also be provided, thereby creating a tissue repository and data repository for future use.
    Type: Grant
    Filed: October 19, 2021
    Date of Patent: January 16, 2024
    Assignee: Clarapath, Inc.
    Inventors: Partha P. Mitra, Baris Yagci, Cong Zhang
  • Patent number: 11821826
    Abstract: The present disclosure relates to systems and methods for facing a tissue block. In some embodiments, a method is provided for facing a tissue block that includes imaging a tissue block to generate imaging data of the tissue block, the tissue block comprising a tissue sample embedded in an embedding material, estimating, based on the imaging data, a depth profile of the tissue block, wherein the depth profile comprises a thickness of the embedding material to be removed to expose the tissue sample to a pre-determined criteria, and removing the thickness of the embedding material to expose the tissue to the pre-determined criteria.
    Type: Grant
    Filed: June 29, 2022
    Date of Patent: November 21, 2023
    Assignee: Clarapath, Inc.
    Inventors: Partha P. Mitra, Charles Cantor, Baris Yagci, David Kleinfeld, Cong Zhang, Steven Smith
  • Patent number: 11754558
    Abstract: Systems and methods for use in an in vitro diagnostics setting incorporating magnetic shielding to reduce exposure of any of samples, reactants, devices or people from exposure or prolonged exposure to magnetic or electromagnetic fields generated with the system.
    Type: Grant
    Filed: March 9, 2022
    Date of Patent: September 12, 2023
    Inventors: Kung-Le Chang, Manuel Lavin, Baris Yagci
  • Patent number: 11721433
    Abstract: Systems and methods for use in an in vitro diagnostics setting incorporating existing or additional sensors in an automation system to assess the health and maintenance status of the automation system are disclosed. Such systems include any of a variety of sensors, such as Hall Effect sensors, temperature probes/thermocouples, ohm meters, volt meters, etc., which are in communication with a local or preferably remote monitoring station that can alert a user or maintenance personnel of needed service.
    Type: Grant
    Filed: July 19, 2017
    Date of Patent: August 8, 2023
    Assignee: Siemens Healthcare Diagnostics Inc.
    Inventors: Shannon Frone, Baris Yagci
  • Publication number: 20230228651
    Abstract: A sectioning system includes a chuck assembly configured to receive a tissue block, a cutting assembly configured to remove a tissue section from the tissue block, at least one sensor configured to sense data regarding dynamics of one or more components of at least one of the chuck assembly or the cutting assembly, and a control system. The control system is configured to receive data from the at least one sensor, determine whether the data from the at least one sensor shows normal behavior of the one or more components of at least one of the chuck assembly or the cutting assembly, and output a signal if it is determined the data from the at least one sensor does not show normal behavior of the one or more components.
    Type: Application
    Filed: December 20, 2022
    Publication date: July 20, 2023
    Applicant: Clarapath, Inc.
    Inventors: Baris Yagci, Steven Smith, Partha P. Mitra
  • Publication number: 20230221222
    Abstract: A microtomy system includes a tissue chuck configured to accept a tissue block and a microtome blade configured to remove one or more tissue sections from the tissue block, the microtome blade being axially offset from the tissue chuck along a horizontal axis, where the microtome blade and the tissue chuck are axially displaceable relative to one another along the horizontal axis. The system also includes a control system configured to receive information indicative of a relative axial location of the microtome blade to the tissue chuck along the horizontal axis, and to use a control loop to control the relative axial location of the microtome blade to the tissue chuck such that the one or more tissue sections have a desired thickness.
    Type: Application
    Filed: November 22, 2022
    Publication date: July 13, 2023
    Applicant: Clarapath, Inc.
    Inventors: Partha P. Mitra, Aaron Ames, Baris Yagci, Robert Shusko, Robert Chen
  • Publication number: 20230126618
    Abstract: The present disclosure also relates to systems and methods for quality control in histology systems. In some embodiments, a method is provided that includes receiving a tissue block comprising a tissue sample embedded in an embedding material, imaging the tissue block to create a first imaging data of the tissue sample in a tissue section on the tissue block, removing the tissue section from the tissue block, the tissue section comprising a part of the tissue sample, imaging the tissue section to create a second imaging data of the tissue sample in the tissue section, and comparing the first imaging data to the second imaging data to confirm correspondence in the tissue sample in the first imaging data and the second imaging data based on one or more quality control parameters.
    Type: Application
    Filed: December 23, 2022
    Publication date: April 27, 2023
    Applicant: Clarapath, Inc.
    Inventors: Partha P. Mitra, Charles Cantor, Baris Yagci, David Kleinfeld, Cong Zhang
  • Patent number: 11609162
    Abstract: The present disclosure also relates to systems and methods for quality control in histology systems. In some embodiments, a method is provided that includes receiving a tissue block comprising a tissue sample embedded in an embedding material, imaging the tissue block to create a first imaging data of the tissue sample in a tissue section on the tissue block, removing the tissue section from the tissue block, the tissue section comprising a part of the tissue sample, imaging the tissue section to create a second imaging data of the tissue sample in the tissue section, and comparing the first imaging data to the second imaging data to confirm correspondence in the tissue sample in the first imaging data and the second imaging data based on one or more quality control parameters.
    Type: Grant
    Filed: October 20, 2021
    Date of Patent: March 21, 2023
    Assignee: Clarapath, Inc.
    Inventors: Partha P. Mitra, Charles Cantor, Baris Yagci, David Kleinfeld, Cong Zhang
  • Publication number: 20230046748
    Abstract: There is provided an automated system for preparing tissue samples that comprises one or more microtomes, a hydration system, and a processor, the processor being programmed to initiate facing, by one or more microtomes, of a first tissue block comprising a first tissue sample embedded in an embedding material, and cause the first tissue block to be hydrated by the hydration system for a first predetermined time, and initiate facing, by one or more microtomes, of a second tissue block while the first tissue block is being hydrated, the second tissue block comprising a second tissue sample embedded in an embedding material, and cause the second tissue block to be hydrated by the hydration system for a second predetermined time, and to initiate the one or more microtomes to begin sectioning of the first tissue block while the second tissue block is being hydrated.
    Type: Application
    Filed: July 18, 2022
    Publication date: February 16, 2023
    Applicant: Clarapath, Inc.
    Inventors: Baris Yagci, Eric Feinstein, Partha P. Mitra, Janak Sewkarran, Cong Zhang, Robert Shusko
  • Publication number: 20220404241
    Abstract: An integrated pathology system includes a tissue embedding module configured to embed a tissue sample into an embedding material to prepare a tissue block, a sectioning and slide creating module configured to remove one or more tissue sections from the tissue block and place the one or more tissue sections onto one or more slides, a staining module configured to stain the one or more tissue sections on the slides, and a cover-slipper module configured to place a cover onto the one or more stained tissue sections. The system further includes one or more transfer devices configured to integrate the modules and a processor in communication with the modules for controlling one or more processes performed by the modules and the one or more transfer devices for controlling the integration of the modules.
    Type: Application
    Filed: June 21, 2022
    Publication date: December 22, 2022
    Applicant: Clarapath, Inc.
    Inventors: Baris Yagci, Partha P. Mitra, Charles Cantor, Eric Feinstein
  • Patent number: 11530851
    Abstract: One embodiment provides a method of controlling a payload temperature in in vitro diagnostics including: moving, using a track system, a plurality of carriers, along one or more paths between a plurality of testing stations, wherein the carrier is configured to hold one or more payloads, and limiting, using a temperature controlling device, temperature change of the one or more payloads, wherein each carrier is configured to hold one or more payloads and move the one or more payloads to one of the plurality of testing stations. Other aspects are described and claimed herein.
    Type: Grant
    Filed: July 19, 2017
    Date of Patent: December 20, 2022
    Assignee: Siemens Healthcare Diagnostics Inc.
    Inventors: Shannon Frone, Baris Yagci
  • Publication number: 20220364960
    Abstract: Provided here are systems and methods for microtomy, including a microtome and a transfer tape system. The microtome can be used for sectioning a tissue section from a tissue block. The transfer tape system can include a transfer tape configured to adhere to a front face of the tissue block and collect one or more tissue sections sectioned by the microtome and to transfer the one or more tissue sections to one or more slides; and at least one tension device for controlling tension and an angle of the transfer tape relative the tissue block or the one or more slides. The at least one tension device can be configured to maintain the transfer tape at a predetermined tension or maintain the transfer tape at a predetermined angle relative to the tissue block or the one or more slides.
    Type: Application
    Filed: May 13, 2022
    Publication date: November 17, 2022
    Applicant: Clarapath, Inc.
    Inventors: Weston Smith, Robert Shusko, Partha P. Mitra, Baris Yagci
  • Publication number: 20220349788
    Abstract: The present disclosure relates to systems and methods for facing a tissue block. In some embodiments, a method is provided for facing a tissue block that includes imaging a tissue block to generate imaging data of the tissue block, the tissue block comprising a tissue sample embedded in an embedding material, estimating, based on the imaging data, a depth profile of the tissue block, wherein the depth profile comprises a thickness of the embedding material to be removed to expose the tissue sample to a pre-determined criteria, and removing the thickness of the embedding material to expose the tissue to the pre-determined criteria.
    Type: Application
    Filed: June 29, 2022
    Publication date: November 3, 2022
    Applicant: Clarapath, Inc.
    Inventors: Partha P. Mitra, Charles Cantor, Baris Yagci, David Kleinfeld, Cong Zhang, Steven Smith
  • Patent number: 11467071
    Abstract: The present disclosure relates to systems and methods for facing a tissue block. In some embodiments, a method is provided for facing a tissue block that includes imaging a tissue block to generate imaging data of the tissue block, the tissue block comprising a tissue sample embedded in an embedding material, estimating, based on the imaging data, a depth profile of the tissue block, wherein the depth profile comprises a thickness of the embedding material to be removed to expose the tissue sample to a pre-determined criteria, and removing the thickness of the embedding material to expose the tissue to the pre-determined criteria.
    Type: Grant
    Filed: October 22, 2021
    Date of Patent: October 11, 2022
    Assignee: Clarapath, Inc.
    Inventors: Partha P. Mitra, Charles Cantor, Baris Yagci, David Kleinfeld, Cong Zhang, Steven Smith
  • Publication number: 20220308077
    Abstract: Systems and methods enable fully automated tissue processing using tissue processing components for producing tissue sections from a tissue sample block and to transfer the tissue sections to slides. A control device queries a Laboratory Information Management System (LIMS) with a sample identifier associated with the tissue sample block and receives tissue sample data from the LIMS. The control device generates tissue processing workflow parameters based on the tissue sample data for each tissue processing component to perform an automated tissue processing workflow. The control device automatically controls each tissue processing component according to the tissue processing workflow parameters to process the tissue sample block. The control device generates a block processing update message while the tissue sample block is processed and communicates the block processing update message to the LIMS to enable the LIMS to track the automated tissue processing workflow for the tissue sample block.
    Type: Application
    Filed: March 23, 2022
    Publication date: September 29, 2022
    Applicant: Clarapath, Inc.
    Inventors: Partha P. Mitra, Charles Cantor, Baris Yagci, Jonathan Gardi, Dmitry Khavulya
  • Publication number: 20220308078
    Abstract: An analyzer system for in vitro diagnostics includes a sample handler module having a robot arm that delivers samples from drawers into carriers on a linear synchronous motor automation track. Samples are delivered via the automation track to individual track sections associated with individual analyzer modules. Analyzer modules aspirate sample portions directly from the sample carriers and perform analysis thereon.
    Type: Application
    Filed: June 15, 2022
    Publication date: September 29, 2022
    Applicant: Siemens Healthcare Diagnostics Inc.
    Inventors: David Stein, Roy Barr, Mark Edwards, Colin Mellars, Thomas J. Bao, Charles V. Cammarata, Benjamin S. Pollack, Baris Yagci, Beri Cohen