Patents by Inventor Evan Daugharthy

Evan Daugharthy 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).

  • COMPOSITIONS AND METHODS FOR ANALYTE DETECTION
    Publication number: 20230212657
    Abstract: The present disclosure provides methods, systems and compositions for detecting nucleic acid sequences in a biological sample having a three-dimensional matrix.
    Type: Application
    Filed: July 27, 2022
    Publication date: July 6, 2023
    Inventors: Evan Daugharthy, Richard Terry, Conor Camplisson, David Barclay, Tyler Miselis, Hong Chen, Shoshoni Droz
  • METHODS AND SYSTEMS FOR SAMPLE PROCESSING OR ANALYSIS
    Publication number: 20220298559
    Abstract: The present disclosure provides methods and systems for detecting nucleic acid sequences in a biological sample having a three-dimensional matrix. The present disclosure also provides methods and systems for processing a biological sample for use in nucleic acid sequence detection.
    Type: Application
    Filed: November 1, 2021
    Publication date: September 22, 2022
    Inventors: Evan Daugharthy, Richard Terry
  • METHODS AND SYSTEMS FOR SPATIAL MAPPING OF GENETIC VARIANTS
    Publication number: 20220049303
    Abstract: The present disclosure provides methods and systems for determining the location and identity of variant sequences. The present disclosure also provides methods of treating diseases and of using spatial information of variant sequences in a biological sample to guide treatment selection in a corresponding subject.
    Type: Application
    Filed: August 16, 2021
    Publication date: February 17, 2022
    Inventors: Michele A. Busby, Evan Daugharthy, Richard Terry
  • MULTICOMPONENT NUCLEIC ACID PROBES FOR SAMPLE ANALYSIS
    Publication number: 20220049302
    Abstract: The present disclosure provides methods, systems, compositions, and kits for analyzing target molecules, including using probes comprising a plurality of components for analyzing target molecules in situ in a sample.
    Type: Application
    Filed: August 16, 2021
    Publication date: February 17, 2022
    Inventors: Evan DAUGHARTHY, Richard TERRY, Soo Hee LEE, Michele A. BUSBY, Shoshoni DROZ, Ryan GILMORE
  • COMPOSITIONS, METHODS AND SYSTEMS FOR SAMPLE PROCESSING
    Publication number: 20220016624
    Abstract: The present disclosure provides compositions and methods for making and using a support (e.g., a sample slide) for sample analysis. The present disclosure also provides compositions, methods, and systems for processing a sample on the support for use in nucleic acid sequence detection.
    Type: Application
    Filed: February 25, 2021
    Publication date: January 20, 2022
    Inventors: Evan Daugharthy, Richard Terry, Hong Chen, Ben Pruitt, Gene Daidone, Vikki Asman, Adrian Tanner, Eric Evje
  • Methods and systems for sample processing or analysis
    Patent number: 11193163
    Abstract: The present disclosure provides methods and systems for detecting nucleic acid sequences in a biological sample having a three-dimensional matrix. The present disclosure also provides methods and systems for processing a biological sample for use in nucleic acid sequence detection.
    Type: Grant
    Filed: November 6, 2019
    Date of Patent: December 7, 2021
    Assignee: ReadCoor, LLC
    Inventors: Evan Daugharthy, Richard Terry
  • METHODS AND SYSTEMS FOR SEQUENCING
    Publication number: 20210340621
    Abstract: Provided herein are compositions, methods, and systems for amplifying and identifying nucleic acids within a biological sample. The compositions, methods, and systems are generally compatible with volumetric imaging techniques and samples comprising nucleic acids contained within a three-dimensional matrix.
    Type: Application
    Filed: April 20, 2021
    Publication date: November 4, 2021
    Inventors: Evan Daugharthy, Richard Terry
  • METHODS AND SYSTEMS FOR THERAPEUTIC AGENT ANALYSIS
    Publication number: 20210310052
    Abstract: The present disclosure provides methods and systems for analyzing agents (e.g., therapeutic agents) in a biological sample having a three-dimensional matrix.
    Type: Application
    Filed: March 2, 2021
    Publication date: October 7, 2021
    Inventors: Evan Daugharthy, Richard Terry
  • THREE-DIMENSIONAL SPATIAL MOLECULAR INDEXING
    Publication number: 20210292834
    Abstract: The present disclosure provides methods and systems for generating indices in a synthetic three-dimensional (3D) matrix within a biological sample (e.g., a cell or a tissue sample). The present disclosure also provides methods and systems for using indices in the synthetic 3D matrix to index target molecules and for sequencing the target molecules in vitro.
    Type: Application
    Filed: April 8, 2021
    Publication date: September 23, 2021
    Inventors: Evan Daugharthy, Richard Terry
  • SURFACE CAPTURE OF TARGETS
    Publication number: 20210230692
    Abstract: Provided herein are methods and systems for transfer target molecules to a surface, such as a planar surface. The transferred target molecules can be used for downstream applications, such as sequence identification.
    Type: Application
    Filed: April 9, 2021
    Publication date: July 29, 2021
    Inventors: Evan Daugharthy, Richard Terry
  • METHODS AND SYSTEMS FOR SAMPLE PROCESSING OR ANALYSIS
    Publication number: 20200071751
    Abstract: The present disclosure provides methods and systems for detecting nucleic acid sequences in a biological sample having a three-dimensional matrix. The present disclosure also provides methods and systems for processing a biological sample for use in nucleic acid sequence detection.
    Type: Application
    Filed: November 6, 2019
    Publication date: March 5, 2020
    Inventors: Evan Daugharthy, Richard Terry
  • Augmenting in situ nucleic acid sequencing of expanded biological samples with in vitro sequence information
    Patent number: 10526649
    Abstract: The invention provides in situ nucleic acid sequencing to be conducted in biological specimens that have been physically expanded. The invention leverages the techniques for expansion microscopy (ExM) to provide new methods for in situ sequencing of nucleic acids in a process referred to herein as “expansion sequencing” (ExSEQ).
    Type: Grant
    Filed: October 20, 2017
    Date of Patent: January 7, 2020
    Assignees: Massachusetts Institute of Technology, President and Fellows of Harvard College
    Inventors: Fei Chen, Shahar Alon, Andrew Payne, Asmamaw Wassie, Daniel Goodwin, Edward Stuart Boyden, Evan Daugharthy, Jonathan Scheiman
  • Nanoscale imaging of proteins and nucleic acids via expansion microscopy
    Patent number: 10364457
    Abstract: The invention enables in situ genomic and transcriptomic assessment of nucleic acids to be conducted in biological specimens that have been physically expanded. The invention leverages the techniques for expansion microscopy (ExM) to provide new methods for in situ genomic and transcriptomic assessment of nucleic in a new process referred to herein as “expansion fluorescent in situ hybridization” (ExFISH).
    Type: Grant
    Filed: August 5, 2016
    Date of Patent: July 30, 2019
    Assignee: Massachusetts Institute of Technology
    Inventors: Asmamaw Wassie, Fei Chen, Edward Stuart Boyden, Shahar Alon, George Church, Evan Daugharthy
  • In situ nucleic acid sequencing of expanded biological samples
    Patent number: 10059990
    Abstract: The invention provides in situ nucleic acid sequencing to be conducted in biological specimens that have been physically expanded. The invention leverages the techniques for expansion microscopy (ExM) to provide new methods for in situ sequencing of nucleic acids as well as new methods for fluorescent in situ sequencing (FISSEQ) in a new process referred to herein as “expansion sequencing” (ExSEQ).
    Type: Grant
    Filed: April 14, 2016
    Date of Patent: August 28, 2018
    Assignee: Massachusetts Institute of Technology
    Inventors: Edward Stuart Boyden, Fei Chen, Shahar Alon, George Church, Paul Warren Tillberg, Adam Marblestone, Evan Daugharthy
  • IN SITU NUCLEIC ACID SEQUENCING OF EXPANDED BIOLOGICAL SAMPLES
    Publication number: 20160304952
    Abstract: The invention provides in situ nucleic acid sequencing to be conducted in biological specimens that have been physically expanded. The invention leverages the techniques for expansion microscopy (ExM) to provide new methods for in situ sequencing of nucleic acids as well as new methods for fluorescent in situ sequencing (FISSEQ) in a new process referred to herein as “expansion sequencing” (ExSEQ).
    Type: Application
    Filed: April 14, 2016
    Publication date: October 20, 2016
    Inventors: Edward Stuart Boyden, Fei Chen, Shahar Alon, George Church, Paul Warren Tillberg, Adam Marblestone, Evan Daugharthy