公开(公告)号：US10787714B2

公开(公告)日：2020-09-29

申请号：US15679821

申请日：2017-08-17

申请人： PSOMAGEN, INC.

发明人： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman

IPC分类号： G01N33/48 ,  C12Q1/689 ,  G16H50/50 ,  G16B30/00 ,  G16B40/00 ,  G16B50/00 ,  G06F19/00 ,  G06G7/58

摘要： A method for at least one of characterizing, diagnosing, and treating a condition associated with microbiome functional features in at least a subject, the method comprising: receiving an aggregate set of biological samples from a population of subjects; generating at least one of a microbiome composition dataset and a microbiome functional diversity dataset for the population of subjects; generating a characterization of the condition based upon features extracted from at least one of the microbiome composition dataset and the microbiome functional diversity dataset; based upon the characterization, generating a therapy model configured to correct the condition; and at an output device associated with the subject, promoting a therapy to the subject based upon the characterization and the therapy model.

公开(公告)号：US10786194B2

公开(公告)日：2020-09-29

申请号：US15679903

申请日：2017-08-17

申请人： PSOMAGEN, INC.

发明人： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman

IPC分类号： G01N33/48 ,  A61B5/00 ,  C12Q1/689 ,  G16B40/00 ,  G16B50/00 ,  G06F19/00 ,  G16H50/70 ,  G16H50/20 ,  G16H50/50 ,  G16H20/00 ,  G16H40/63 ,  G06G7/58

摘要： A method for at least one of characterizing, diagnosing, and treating a condition associated with microbiome taxonomic features in at least a subject, the method comprising: receiving an aggregate set of biological samples from a population of subjects; generating at least one of a microbiome composition dataset and a microbiome functional diversity dataset for the population of subjects; generating a characterization of the condition based upon features extracted from at least one of the microbiome composition dataset and the microbiome functional diversity dataset; based upon the characterization, generating a therapy model configured to correct the condition; and at an output device associated with the subject, promoting a therapy to the subject based upon the characterization and the therapy model.

公开(公告)号：US10777320B2

公开(公告)日：2020-09-15

申请号：US15098236

申请日：2016-04-13

申请人： PSOMAGEN, INC.

发明人： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman ,  Siavosh Rezvan Behbahani

IPC分类号： G01N33/48 ,  G16H50/20 ,  G06F19/00 ,  G16B50/00 ,  G16H50/70 ,  C12Q1/04 ,  C12Q1/24 ,  G01N33/569 ,  G16B40/00 ,  G16H50/50 ,  G16H10/40 ,  G16H20/70 ,  G06G7/58 ,  C12Q1/00

摘要： A method for at least one of characterizing, diagnosing, and treating a mental health associated condition in at least a subject, the method comprising: receiving an aggregate set of biological samples from a population of subjects; generating at least one of a microbiome composition dataset and a microbiome functional diversity dataset for the population of subjects; generating a characterization of the mental health associated condition based upon features extracted from at least one of the microbiome composition dataset and the microbiome functional diversity dataset; based upon the characterization, generating a therapy model configured to correct the mental health associated condition; and at an output device associated with the subject, promoting a therapy to the subject based upon the characterization and the therapy model.

公开(公告)号：US20200286623A1

公开(公告)日：2020-09-10

申请号：US16645077

申请日：2018-09-14

申请人： PSOMAGEN, INC.

发明人： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Patricio Lagos ,  Ricardo Castro ,  Paz Tapia

IPC分类号： G16H50/30 ,  C12Q1/689 ,  G16B20/00 ,  G16H50/20

摘要： Embodiments of a method and/or system, such as for characterizing at least one microorganism-related condition, can include: determining a set of associations (e.g., positive associations such as positive correlations, negative associations such as negative correlations, non-associations such as no correlation or minimal correlation, etc.) between a set of microorganism taxa and at least one microorganism-related condition; determining a set of reference features (e.g., reference abundance ranges, etc.) for the set of microorganism taxa; and determining one or more significance index metrics based on the set of associations and the set of reference features.

公开(公告)号：US11987841B2

公开(公告)日：2024-05-21

申请号：US16649234

申请日：2018-10-09

申请人： PSOMAGEN, INC.

发明人： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Eduardo Morales ,  Luis Leon ,  Sara W. Bird ,  Juan Ugalde

IPC分类号： C12Q1/6869 ,  C12Q1/6806

CPC分类号： C12Q1/6869 ,  C12Q1/6806 ,  C12Q2525/161 ,  C12Q2535/122 ,  C12Q2537/159 ,  C12Q2537/165 ,  C12Q1/6869 ,  C12Q2525/161 ,  C12Q2535/122 ,  C12Q2537/159 ,  C12Q2537/165 ,  C12Q2563/179 ,  C12Q1/6806 ,  C12Q2525/161 ,  C12Q2535/122 ,  C12Q2537/159 ,  C12Q2537/165 ,  C12Q2563/179

摘要： Embodiments of a method and/or system (e.g., for improved single molecule sequencing, etc.) can include preparing a set of unique molecular identifier (UMI)-based molecules associated with a set of target nucleic acid sequences; facilitating generation of (e.g., generating, etc.) a set of tagged nucleic acid molecules based on the set of UMI-based molecules and a set of nucleic acid molecules corresponding to (e.g., including, etc.) the set of target nucleic acid sequences; and/or facilitating (e.g., performing, etc.) single molecule sequencing with the set of tagged nucleic acid molecules.

公开(公告)号：US11783914B2

公开(公告)日：2023-10-10

申请号：US15707907

申请日：2017-09-18

申请人： PSOMAGEN, INC.

发明人： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Laurens Kraal ,  Francisco Ossandon ,  Juan Pablo Cardenas ,  Elisabeth Bik ,  Audrey Goddard

IPC分类号： G01N33/48 ,  G01N33/50 ,  G16B30/10 ,  G16H20/60 ,  G16B30/00 ,  G16B40/00 ,  G16H10/40 ,  G16H50/20 ,  G16B20/00 ,  G16B40/20

CPC分类号： G16B30/10 ,  G16B20/00 ,  G16B30/00 ,  G16B40/00 ,  G16B40/20 ,  G16H10/40 ,  G16H20/60 ,  G16H50/20 ,  Y02A90/10

摘要： Embodiments of a system and method for characterizing a panel of conditions associated with a set of taxa related to microorganisms can include a taxonomic database including reference microbiome features for the set of taxa associated with the panel of conditions; a handling operable to collect a container including biological material from a user, the handling system comprising a sequencer system operable to determine a microorganism sequence dataset; and a panel characterization system operable to: determine user microbiome features for the set of taxa for the user based on the microorganism sequence dataset, generate a comparison between the user microbiome features and the reference microbiome features, and determine a panel characterization for the panel of conditions for the user based on the comparison; and a treatment system operable to promote a therapy for a condition of the panel of conditions based on the panel characterization.

公开(公告)号：US11773455B2

公开(公告)日：2023-10-03

申请号：US16084941

申请日：2016-09-09

申请人： PSOMAGEN, INC.

发明人： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Siavosh Rezvan Behbahani

IPC分类号： C12Q1/689 ,  G16H50/50 ,  G16H50/20 ,  G16B30/00 ,  G16B40/00 ,  G16H20/10 ,  G16B20/00 ,  G16B20/20 ,  G16B30/10 ,  G16B40/20 ,  G16B5/00 ,  G16B50/00 ,  C12Q1/6806 ,  C12Q1/6809 ,  G06F17/15 ,  G06F17/18

CPC分类号： C12Q1/689 ,  C12Q1/6806 ,  C12Q1/6809 ,  G06F17/15 ,  G06F17/18 ,  G16B5/00 ,  G16B20/00 ,  G16B20/20 ,  G16B30/00 ,  G16B30/10 ,  G16B40/00 ,  G16B40/20 ,  G16B50/00 ,  G16H20/10 ,  G16H50/20 ,  G16H50/50 ,  Y02A90/10

摘要： Methods, compositions, and systems are provided for detecting one or more effects of antibiotic usage for an infectious disease or other health condition on the microbiome of an individual, monitoring such effects, and/or determining, displaying, or promoting a therapy for such an effect. Methods, compositions, and systems are also provided for generating and comparing microbiome composition and/or functional diversity datasets. Methods, compositions, and systems are also provided for generating a characterization model for antibiotic usage.

公开(公告)号：US11634703B2

公开(公告)日：2023-04-25

申请号：US16760939

申请日：2019-03-04

申请人： PSOMAGEN, INC.

发明人： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Eduardo Morales ,  Constance Norris ,  Nicolas Ordenes ,  Pamela Nieto

IPC分类号： C12N15/10 ,  G01N35/00

摘要： Embodiments of the system and/or method can include and/or apply a magnetic device for facilitating a magnetic field for isolating the nucleic acid material from a sample, the magnetic device including a support component; and a set of magnetic pins attached to the support component and movable with at least three degrees of freedom when attached to the support component, where the set of magnetic pins provide adaptability to shapes of sample compartments of a sample container.

公开(公告)号：US11572555B2

公开(公告)日：2023-02-07

申请号：US15717807

申请日：2017-09-27

申请人： PSOMAGEN, INC.

发明人： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Audrey Goddard ,  Rodrigo Ortiz ,  Sara Bird ,  Eduardo Morales

IPC分类号： C12N15/10

摘要： Embodiments of a method and system for improved microbiome sequencing can include: generating guide RNA complexes for a set of targets corresponding to a set of taxa associated with the microorganism-related condition; processing the biological sample with the gRNA complexes to generate microorganism nucleic acid fragments comprising a set of end regions associated with the set of targets; ligating the set of end regions with a set of adapters sharing an adapter sequence; and amplifying the set of targets based on the ligated set of end regions and a set of primers sharing a primer sequence associated with the adapter sequence.

公开(公告)号：US20220186316A1

公开(公告)日：2022-06-16

申请号：US17432183

申请日：2020-02-20

申请人： PSOMAGEN INC.

发明人： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Rodrigo Ortiz ,  Eduardo Morales

IPC分类号： C12Q1/6886 ,  C12Q1/689 ,  G16B20/20 ,  G16B30/00 ,  G16B5/00 ,  G16B50/00

摘要： A method for characterizing compatibility of a drug for a user includes collecting a set of samples from a set of individuals comprising a set of first individuals who respond to a therapy for a microbiome-related condition and a set of second individuals who do not respond to the therapy for the microbiome-related condition and determining one or more datasets based on the set of samples. A set of microbiome features is extracted from the one or more microbiome datasets, the microbiome features facilitating differentiation between individuals who respond and individuals who do not respond to the therapy. A companion diagnostics model is determined based on the set of microbiome features. The compatibility of the drug for the user is then determined using the companion diagnostics model.