Patents by Inventor Amit Choudhary

Amit Choudhary 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: 20250109177
    Abstract: Aspects of the disclosure relate to compositions and methods for targeted protein degradation. In some embodiments, the disclosure relates to methods of evolving protein degrons to interact with certain small molecule inducers (e.g., VS-777, PT-179, or PK-1016). In some embodiments, the disclosure relates to compositions (e.g., peptides, nucleic acids encoding the protein degrons, etc.) used for targeted protein degradation. In some embodiments, the disclosure relates to methods of degrading a target polypeptide in a cell.
    Type: Application
    Filed: December 12, 2024
    Publication date: April 3, 2025
    Applicants: The Broad Institute, Inc., President and Fellows of Harvard College, The Brigham and Women's Hospital, Inc.
    Inventors: David R. Liu, Amit Choudhary, Jaron August McClure Mercer, Stephan DeCarlo, Praveen Tiwari, Praveen Kokkonda, Veronika Shoba, Arghya Deb, Sreekanth Vedagopuram
  • Publication number: 20250066325
    Abstract: This invention is related to molecules and methods of use of said molecules or compounds comprising said molecules. A molecule may be a pomalidomide or a thalidomide analogue. A method of inducing degradation of a target protein comprising one or more zinc finger polypeptides in a cell may comprise exposing a cell transfected with the target protein with a molecule as described herein, a pharmaceutically acceptable salt thereof, or any combination thereof. A method of inducing degradation of a target protein comprising one or more FK506 binding protein (FKBP) domains or degradation of a target amine in a cell may comprise exposing a cell transfected with the target protein or comprising the target amine with a composition comprising a molecule as described herein, a pharmaceutically acceptable salt thereof, or any combination of compositions comprising molecules as described herein and pharmaceutically acceptable salts thereof. A method may improve on-target effects and reduce off-target effects.
    Type: Application
    Filed: November 4, 2022
    Publication date: February 27, 2025
    Inventors: Amit Choudhary, Tuan Nguyen, Sreekanth Vedagopuram, Veronika Shoba, Arghya Deb, Praveen Tiwari, Praveen Kokkonda, Jaron Mercer
  • Patent number: 12227742
    Abstract: The present inventions generally relate to site-specific delivery of nucleic acid modifiers and includes novel DNA-binding proteins and effectors that can be rapidly programmed to make site-specific DNA modifications. The present inventions also provide a synthetic all-in-one genome editor (SAGE) systems comprising designer DNA sequence readers and a set of small molecules that induce double-strand breaks, enhance cellular permeability, inhibit NHEJ and activate HDR, as well as methods of using and delivering such systems.
    Type: Grant
    Filed: October 23, 2018
    Date of Patent: February 18, 2025
    Assignees: The Broad Institute, Inc., The Brigham and Women's Hospital, Inc.
    Inventors: Amit Choudhary, Donghyun Lim, Kurt Cox, Soumyashree Ashok Gangopadhyay
  • Patent number: 12208140
    Abstract: The disclosure includes zinc prodrugs for targeted delivery of therapeutic, diagnostic or imaging agents to ?-cells and methods of use therefor. The disclosure also includes targeted delivery of small molecules to ?-cells that stabilize and activate CRISPR effector proteins comprising at least one destabilization domain, to enable CRISPR-based genome editing and transcriptional activation or repression in ?-cells.
    Type: Grant
    Filed: April 20, 2018
    Date of Patent: January 28, 2025
    Assignees: The Broad Institute, Inc., The Brigham and Women's Hospital, Inc.
    Inventors: Amit Choudhary, Debasish Manna, Miseon Lee, Bridget Wagner, Basudeb Maji
  • Patent number: 11983746
    Abstract: Systems, apparatuses, and methods for providing a more effective customer service support system. In some embodiments, the systems, apparatuses, and methods include a user interface (UI) and process flow for implementing a conversation-based customer service support system. The user interface and associated processing enable a user/customer to quickly and accurately select an intent, goal, or purpose of their customer service request. In some embodiments, this is achieved by a set of user interface displays or screens and an underlying logic that provide a user with multiple ways of selecting, identifying, or describing the intent, goal, or purpose of their request for service or assistance.
    Type: Grant
    Filed: January 20, 2021
    Date of Patent: May 14, 2024
    Assignee: Helpshift, Inc.
    Inventors: Amit Choudhary, Swaroop Chitlur Haridas, Christian Leipski, Yashkumar Gandhi, Shyam Hirachand Shinde
  • Patent number: 11965159
    Abstract: Compositions and methods for conditionally regulating activities of CRISPR-Cas systems. In some embodiments, the methods comprise providing an inactive guide RNA comprising a regulatory domain bound by a lock nucleic acid different from the guide RNA; and displacing the lock nuclei acid from the regulatory domain by a trigger nucleic acid, thereby activating the guide RNA, wherein the activated guide RNA forms a complex with a Cas enzyme.
    Type: Grant
    Filed: January 29, 2020
    Date of Patent: April 23, 2024
    Assignees: The Broad Institute, Inc., The Brigham and Women's Hospital, Inc., The Regents of the University of California
    Inventors: Amit Choudhary, Kurt Cox, Hari Subramanian, Elisa Franco
  • Publication number: 20240115557
    Abstract: The need to control the activity and fidelity of CRISPR-associated nucleases has resulted in the demand for inhibitory anti-CRISPR molecules. Current small-molecule inhibitor discovery platforms are not generalizable to multiple nuclease classes, only target the initial step in the catalytic activity, and require high concentration of nuclease, resulting in inhibitors with suboptimal attributes, including poor potency. Herein, Applicants report a high-throughput discovery pipeline consisting of a FRET-based assay that is generalizable to contemporary and emerging nucleases, operates at low nuclease concentration, and targets all catalytic steps. Applicants applied this pipeline to identify BRD7586, a cell-permeable small-molecule inhibitor of SpCas9, that is 2-fold more potent than current inhibitors. Furthermore, unlike the reported inhibitors, BRD7586 enhanced SpCas9 specificity and its activity was independent of the genomic loci, DNA repair pathway, or mode of nuclease delivery.
    Type: Application
    Filed: July 28, 2023
    Publication date: April 11, 2024
    Inventors: Amit Choudhary, Donghyun Lim, Qingxuan Zhou, Kurt Cox, Benjamin Law, Miseon Lee, Praveen Kokkonda, Sreekanth Vedagopuram
  • Publication number: 20240024490
    Abstract: The present disclosure relates to bifunctional chemical conjugation molecules, which find utility as modifiers of target substrates. The present disclosure includes multifunctional compounds comprising an enzyme binding moiety, a chemical linker moiety, and a target binding moiety, which may further include an electrophilic reactive group. Molecules according to the present invention find use making substrate modifications such as post-translational modifications to proteins that are not the natural substrate of the enzyme. Diseases or disorders may be treated or prevented with molecules of the present disclosure.
    Type: Application
    Filed: April 8, 2022
    Publication date: January 25, 2024
    Inventors: Amit Choudhary, Veronika Shoba, Arghya Deb, Tuan Nguyen, Sophia Lai, Dhanushka Munkanatta Godage, Praveen Tiwari, Ashley Modell, Sachini Siriwardena
  • Patent number: 11787795
    Abstract: Compositions and methods are provided for the inhibition of the function of RNA guided endonucleases, including the identification and use of such inhibitors.
    Type: Grant
    Filed: October 31, 2017
    Date of Patent: October 17, 2023
    Assignees: PRESIDENT AND FELLOWS OF HARVARD COLLEGE, THE BRIGHAM AND WOMEN'S HOSPITAL, INC., THE REGENTS OF THE UNIVERSITY OF CALIFORNIA
    Inventors: Amit Choudhary, Peng Wu, Basudeb Maji, Elisa Franco, Hari K. K. Subramanian
  • Patent number: 11760984
    Abstract: The embodiments disclosed herein utilize fluorescence polarization based preliminary screen to identify a putative set of Cas inhibitors from an initial set of candidate inhibitors. The primary screening assay is followed by secondary screening assay to validate the putative set of inhibitors selected by the preliminary screen. In some embodiments, the present disclosure includes compositions and methods are provided for the inhibition of the function of RNA guided endonucleases, including the identification and use of such inhibitors.
    Type: Grant
    Filed: October 31, 2018
    Date of Patent: September 19, 2023
    Inventors: Amit Choudhary, Kurt Cox, Basudeb Maji, Peng Wu, Hari Subramanian, Elisa Franco
  • Publication number: 20230192904
    Abstract: The present disclosure relates to chimeric small molecules, which find utility as modifiers of target substrates according to the formula A-L1-E-B or A-L1-E-L2-B, wherein A is a kinase binding moiety; B is a target binding moiety; L1 and L2 are each a linker; and E is an electrophilic reactive group. Molecules according to the present invention find use making substrate modifications such as post-translational modifications to targets that are not the natural substrate of the kinase; accordingly, diseases or disorders may be treated or prevented with molecules of the present disclosure.
    Type: Application
    Filed: November 18, 2022
    Publication date: June 22, 2023
    Inventors: Amit Choudhary, Vika Anokhina
  • Publication number: 20230137669
    Abstract: A pharmaceutical composition comprising an effective amount of Dacomitinib as epidermal growth factor receptor (EGFR) inhibitor and a prostaglandin-Endoperoxide Synthase 2 (PTGS2) inhibitor, and one or more pharmaceutically acceptable excipients. A pharmaceutical composition comprising an effective amount of Dacomitinib as epidermal growth factor receptor (EGFR) inhibitor and an Adrenoceptor Beta 2 (ADRB2) inhibitor, and one or more pharmaceutically acceptable excipients. A method of treating pancreatic cancer, the method comprising the step of administering a therapeutically effective amount of the pharmaceutical composition to an individual in need thereof, the pharmaceutical composition comprising an effective amount of Dacomitinib as epidermal growth factor receptor (EGFR) inhibitor with a prostaglandin-Endoperoxide Synthase 2 (PTGS2) inhibitor or an Adrenoceptor Beta 2 (ADRB2) inhibitor, and one or more pharmaceutically acceptable excipients.
    Type: Application
    Filed: November 30, 2022
    Publication date: May 4, 2023
    Applicant: Innoplexus AG
    Inventors: OM Sharma, Ishita Mallick, Amit Choudhari, Vivekanand Patil, Juergen Scheele, Werner Seiz, Dinesh Solanke
  • Patent number: 11419872
    Abstract: A phosphoinositide 3-kinase inhibitor for use in the treatment of pancreatic cancer and a method for treatment of pancreatic cancer including administration of an phosphoinositide 3-kinase inhibitor an Src inhibitor to a human subject in need thereof. There is also provided a pharmaceutical composition comprising a phosphoinositide 3-kinase inhibitor and an Src inhibitor.
    Type: Grant
    Filed: July 20, 2020
    Date of Patent: August 23, 2022
    Assignee: Innoplexus AG
    Inventors: Om Sharma, Vijay Singh, Manoj Kumar, Ishita Mallick, Amit Choudhari, Pulkit Anupam Srivastava, Deepak Sharma, Vivekanand Patil, Priyam Singh, Adity Shandilya, Dinesh Solanke
  • Publication number: 20220020465
    Abstract: A method for evaluating potential drug compositions for a target disease. The method includes providing a data input to a discovery engine, using the discovery engine to identify a first set of potential drug compositions for the target disease. The discovery engine is configured to analyze failed clinical assets of drugs for the target disease, wherein the discovery engine filters clinical trials which have failed due to non-drug safety related issues, perform differential gene expression analysis on normalized target-disease-related data, evaluate effect of known drugs used for diseases similar to the target disease, and perform a network-based analysis to identify repurposable drugs. Furthermore, asset prioritization is used to filter the first set of potential drug compositions to determine at least one potential drug composition for the target disease and validating the at least one potential drug composition for the target disease based on biological evidence and differential expression analysis.
    Type: Application
    Filed: July 16, 2021
    Publication date: January 20, 2022
    Applicant: Innoplexus AG
    Inventors: Om Sharma, Ishita Mallick, Amit Choudhari, Vivekanand Patil, Juergen Scheele, Werner Seiz, Dinesh Solanke
  • Publication number: 20220016116
    Abstract: A method for determining combination drug and use in pancreatic cancer treatment, includes retrieving Pancreatic cancer datasets from a plurality of data sources based on selected types of expression profiling. A set of feature genes is determined based on differential gene expression analysis of disease samples and control samples in normalized pancreatic cancer datasets. Pancreatic cancer targets are selected for combination analysis based on druggability and determined set of feature genes. Based on node embedded clustering of the selected pancreatic cancer targets, synergistic target pairs is determined. Candidate pairs of drug combinations are selected from a plurality of pairs of drug combinations based on cumulative ranking score of each pair of drug combination and the synergistic target pairs.
    Type: Application
    Filed: July 16, 2021
    Publication date: January 20, 2022
    Applicant: Innoplexus AG
    Inventors: Om Sharma, Ishita Mallick, Amit Choudhari, Vivekanand Patil, Juergen Scheele, Werner Seiz, Dinesh Solanke
  • Publication number: 20220016123
    Abstract: A phosphoinositide 3-kinase inhibitor for use in the treatment of pancreatic cancer and a method for treatment of pancreatic cancer including administration of an phosphoinositide 3-kinase inhibitor an Src inhibitor to a human subject in need thereof. There is also provided a pharmaceutical composition comprising a phosphoinositide 3-kinase inhibitor and an Src inhibitor.
    Type: Application
    Filed: July 20, 2020
    Publication date: January 20, 2022
    Applicant: Innoplexus AG
    Inventors: Om Sharma, Vijay Singh, Manoj Kumar, Ishita Mallick, Amit Choudhari, Pulkit Anupam Srivastava, Deepak Sharma, Vivekanand Patil, Priyam Singh, Adity Shandilya, Dinesh Solanke
  • Publication number: 20220010282
    Abstract: 3D cell cultures and devices for 3D cell culture, and methods of use thereof are provided. In some embodiments, the 3D cell culture comprise pancreatic ? cells and can be generated in multi-well plates, allowing for high throughput assays on the cell culture.
    Type: Application
    Filed: June 16, 2021
    Publication date: January 13, 2022
    Applicants: THE BROAD INSTITUTE, INC., THE BRIGHAM AND WOMEN'S HOSPITAL, INC.
    Inventors: Jeffrey Karp, Amit Choudhary, Kisuk Yang, Miseon Lee, Peter Jones
  • Publication number: 20210224818
    Abstract: Systems, apparatuses, and methods for providing a more effective customer service support system. In some embodiments, the systems, apparatuses, and methods include a user interface (UI) and process flow for implementing a conversation-based customer service support system. The user interface and associated processing enable a user/customer to quickly and accurately select an intent, goal, or purpose of their customer service request. In some embodiments, this is achieved by a set of user interface displays or screens and an underlying logic that provide a user with multiple ways of selecting, identifying, or describing the intent, goal, or purpose of their request for service or assistance.
    Type: Application
    Filed: January 20, 2021
    Publication date: July 22, 2021
    Inventors: Amit Choudhary, Swaroop Chitlur Haridas, Christian Leipski, Yashkumar Gandhi, Shyam Hirachand Shinde
  • Publication number: 20210224306
    Abstract: Systems, apparatuses, and methods for providing a more effective customer service support system. A trained model may be created or generated by a process that includes acquiring a corpus of documents (such as customer generated messages), generating keyphrases from each document in the corpus of documents, generating word embeddings from each document in the corpus of documents, performing a clustering operation on the word embeddings, assigning each document in the corpus to a duster and labeling each duster, and training a machine learning or text classification model using the most relevant documents in a cluster and the label assigned to that cluster. The methods include a processing flow that provides multiple ways for a customer to navigate and select their desired intent or purpose in seeking customer assistance. As part of the processing flow, the trained machine learning model and intent tree data are provided to a customer seeking assistance.
    Type: Application
    Filed: January 20, 2021
    Publication date: July 22, 2021
    Inventors: Amit Choudhary, Swaroop Chitlur Haridas, Christian Leipski, Yashkumar Gandhi, Shyam Hirachand Shinde
  • Publication number: 20210139872
    Abstract: The disclosure includes non-naturally occurring or engineered CRISPR Cas9, each associated with at least one destabilization domain (DD), along with compositions, systems and complexes involving the DD-CRISPR Cas9, nucleic acid molecules and vectors encoding the same, delivery systems involving the same, uses therefor.
    Type: Application
    Filed: October 27, 2020
    Publication date: May 13, 2021
    Applicants: The Broad Institute, Inc., Massachusetts Institute of Technology, President and Fellows of Harvard College
    Inventors: Feng ZHANG, Bernd Zetsche, Amit Choudhary