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1.发明公开公开(公告)号：US20240361301A1
公开(公告)日：2024-10-31
申请号：US18687654
申请日：2022-09-09
Applicant: Flagship Pioneering Innovations VI, LLC
Inventor： Morag Helen STEWART , Angeliki CHALKIADAKI , Yuge JI , Fabian Alexander WOLF , Nicholas McCartney PLUGIS , Poorya HOSSEINI , Inna LIPCHINA , Sophie Andrea TRITSCHLER
CPC classification number: G01N33/5088 , A61K45/06 , C12N5/0679 , G01N33/5023 , C12N2503/04 , C12N2533/90
Abstract: The present disclosure relates, inter alia, to perturbagens and methods for directing a change in the cell state of an intestinal stem cell and/or a basal cell. It also relates to methods for increasing a quantity of goblet progenitors, goblet cells, Paneth cells, and/or enteroendocrine cells or immediate progenitors thereof and/or the ratios thereof, and methods for decreasing the function and quantity of goblet cells or immediate progenitors thereof. Further, the present disclosure relates to methods for treating diseases or disorders characterized by, at least, abnormal function, abnormal ratios and/or abnormal numbers of goblet progenitors, goblet cells, Paneth cells, and/or enteroendocrine cells, or immediate progenitors thereof.
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公开(公告)号：US20220399084A1
公开(公告)日：2022-12-15
申请号：US17841536
申请日：2022-06-15
Applicant: Flagship Pioneering Innovations VI, LLC
Inventor： Fabian Alexander WOLF , Umut ESER , Nicholas McCartney PLUGIS
IPC: G16C20/30
Abstract: Methods of associating a test compound with a compound property. One or more datasets including: for each of a plurality of cell lines and each of a plurality of compounds: for each respective exposure condition: a corresponding response signature for the respective compound in the respective cell line under the respective exposure condition is obtained. A correlation is determined for each unique combination of exposure conditions for a respective pair of compounds based on the corresponding response signature. A weight is determined for each respective pair of compounds based on the determined correlations. A plurality of compound clusters is formed, where each cluster represents compounds that satisfy one or more weight criteria with respect to a particular compound. A compound property of the test compound is determined from properties of one or more compounds in a one or more compound clusters that contain the test compound.
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公开(公告)号：US20240424022A1
公开(公告)日：2024-12-26
申请号：US18687668
申请日：2022-09-01
Applicant: Flagship Pioneering Innovations VI, LLC
Inventor： Fabian Alexander WOLF , John BRADLEY , Xiaoji SUN , Nicholas McCartney PLUGIS
Abstract: The present disclosure relates, inter alia, to perturbagens and methods, including ex vivo methods, for directing a change in the cell state of T cells, e.g., naïve T cells, effector T cells and exhausted T cells. The present disclosure also relates to methods for mitigating or preventing T cell exhaustion, including contacting cells with a perturbagen ex vivo. Further, the present disclosure relates to methods for treating diseases or disorders characterized by, e.g., production of exhausted T cells, production of abnormal number of exhausted T cells, or production of high number of T cells.
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公开(公告)号：US20230077584A1
公开(公告)日：2023-03-16
申请号：US17941632
申请日：2022-09-09
Applicant: Flagship Pioneering Innovations VI, LLC
Inventor： Morag Helen STEWART , Angeliki CHALKIADAKI , Fabian Alexander WOLF , Sophie Andrea TRITSCHLER , Nicholas McCartney PLUGIS
Abstract: The present disclosure relates, inter alia, to perturbagens and methods for directing a change in the cell state of an intestinal stem cell. It also relates to methods for increasing a quantity of enteroendocrine cells, goblet progenitors, goblet cells, and/or Paneth cells or immediate progenitors thereof and/or the ratios thereof. Further, the present disclosure relates to methods for treating diseases or disorders characterized by, at least, abnormal function, abnormal ratios and/or abnormal numbers of enteroendocrine cells, goblet progenitors, goblet cells, and/or Paneth cells, or immediate progenitors thereof.
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公开(公告)号：US20230083717A1
公开(公告)日：2023-03-16
申请号：US17901378
申请日：2022-09-01
Applicant: Flagship Pioneering Innovations VI, LLC
Inventor： Fabian Alexander WOLF , Angeliki CHALKIADAKI , Morag Helen STEWART , Nicholas McCartney PLUGIS
Abstract: The present technology relates, inter alia, to perturbagens and methods for directing a change in the cell state of a progenitor cell. It also relates to methods for increasing a quantity of beige adipocytes, beige preadipocytes, and/or immediate progenitors thereof and/or the ratios thereof. Further, the present technology relates to methods for treating diseases or disorders characterized by, at least, abnormal numbers, ratios or bodily distributions of beige adipocytes, beige preadipocytes, white adipocytes, white preadipocytes, or immediate progenitors thereof, with respect to each other.
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Patent Agency Ranking
公开(公告)号：US20220403335A1
公开(公告)日：2022-12-22
申请号：US17841543
申请日：2022-06-15
Applicant: Flagship Pioneering Innovations VI, LLC
Inventor： Fabian Alexander WOLF , Umut ESER , Nicholas McCartney PLUGIS
IPC: C12N5/0789 , A61K35/28
Abstract: Systems and methods for associating a compound with physiological conditions are provided. A fingerprint of a compound chemical structure is obtained and inputted to a model that outputs one or more calculated activation scores. Each activation score represents a cellular constituent module in a set of modules, where each module includes a subset of cellular constituents and a first module in the set of modules is associated with the physiological condition. When the activation score for the first module satisfies a threshold criterion, the compound is identified as associated with the physiological condition. In some aspects, each activation score represents a perturbation signature associated with the physiological condition and the compound is identified when the activation score for a first perturbation signature satisfies a threshold criterion. Systems and methods for training a model that associates compounds with physiological conditions are also provided.
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公开(公告)号：US20220399129A1
公开(公告)日：2022-12-15
申请号：US17841516
申请日：2022-06-15
Applicant: Flagship Pioneering Innovations VI, LLC
Inventor： Fabian Alexander WOLF , Inna LIPCHINA , Xiaoji SUN , Nicholas McCartney PLUGIS
Abstract: Systems and methods for associating cellular constituents with a cellular process of interest are provided. Constituent vectors comprising abundances for a first plurality of cells representing annotated cell states are formed and used to obtain a latent representation of constituent modules having subsets of constituents. A constituent count data structure comprising abundances of the constituents for a second plurality of cells representing covariates of interest is obtained. An activation data structure is formed by combining the latent representation and the constituent count data structure, using constituents as a common dimension. A model is trained using a difference between the predicted and actual absence or presence of each covariate in each cellular constituent module represented in the activation data structure, thus adjusting covariate weights indicating a correlation between covariates and constituent modules across the activation data structure. The covariate weights are used to identify constituent modules associated with covariates of interest.
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公开(公告)号：US20250059511A1
公开(公告)日：2025-02-20
申请号：US18757236
申请日：2024-06-27
Applicant: Flagship Pioneering Innovations VI, LLC
Inventor： Fabian Alexander WOLF , Ragy HADDAD , Nicholas McCartney PLUGIS
IPC: C12N5/0789 , A61K35/12 , A61K35/28 , G16C20/30 , G16C20/70
Abstract: Systems and methods for associating a compound with physiological conditions are provided. A fingerprint of a compound chemical structure is obtained and inputted to a model that outputs one or more calculated activation scores. Each activation score represents a cellular constituent module in a set of modules, where each module includes a subset of cellular constituents and a first module in the set of modules is associated with the physiological condition. When the activation score for the first module satisfies a threshold criterion, the compound is identified as associated with the physiological condition. In some aspects, each activation score represents a perturbation signature associated with the physiological condition and the compound is identified when the activation score for a first perturbation signature satisfies a threshold criterion. Systems and methods for training a model that associates compounds with physiological conditions are also provided.
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公开(公告)号：US20240374592A1
公开(公告)日：2024-11-14
申请号：US18687684
申请日：2022-09-14
Applicant: Flagship Pioneering Innovations VI, LLC
IPC: A61K31/506 , A61K31/166 , A61K31/167 , A61K31/18 , A61K31/341 , A61K31/35 , A61K31/365 , A61K31/4184 , A61K31/496 , A61K31/513 , A61K31/519 , A61K31/535 , G01N33/50
Abstract: The present disclosure relates, inter alia, to perturbagens and methods for directing a change or inhibiting a change in the cell state of a hematopoietic progenitor cell. It also relates to methods for increasing or decreasing a quantity of neutrophils, monocytes or immediate progenitors thereof and/or the ratios thereof. Further, the present disclosure relates to methods for treating diseases or disorders characterized by, at least, abnormal ratios of neutrophils to monocytes and/or abnormal numbers thereof.
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10.发明公开公开(公告)号：US20240242786A1
公开(公告)日：2024-07-18
申请号：US18617486
申请日：2024-03-26
Applicant: Flagship Pioneering Innovations VI, LLC
Inventor： Fabian Alexander WOLF , Umut ESER , Nicholas McCartney PLUGIS
IPC: G16C20/30
CPC classification number: G16C20/30
Abstract: Methods of associating a test compound with a compound property. One or more datasets including: for each of a plurality of cell lines and each of a plurality of compounds: for each respective exposure condition: a corresponding response signature for the respective compound in the respective cell line under the respective exposure condition is obtained. A correlation is determined for each unique combination of exposure conditions for a respective pair of compounds based on the corresponding response signature. A weight is determined for each respective pair of compounds based on the determined correlations. A plurality of compound clusters is formed, where each cluster represents compounds that satisfy one or more weight criteria with respect to a particular compound. A compound property of the test compound is determined from properties of one or more compounds in a one or more compound clusters that contain the test compound.
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