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    Method and system for microbiome-derived diagnostics and therapeutics
    52.
    发明授权
    Method and system for microbiome-derived diagnostics and therapeutics 有权

    公开(公告)号：US10346589B2

    公开(公告)日：2019-07-09

    申请号：US15606943

    申请日：2017-05-26

    Applicant: uBiome, Inc.

    Inventor： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid

    IPC: G01N33/48 ,  G06F19/00 ,  G16B50/00 ,  C12Q1/68 ,  C12Q1/6883 ,  C12Q1/689 ,  G16H50/20 ,  G16H20/10 ,  G16B99/00 ,  G16B5/00 ,  G06G7/58

    Abstract: A method for diagnosing and treating an immune microbial dysfunction in 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 immune microbial dysfunction based upon features extracted from at least one of the microbiome composition dataset and the microbiome functional diversity dataset, wherein the characterization is diagnostic of at least one of Crohn's disease, inflammatory bowel disease (IBD), irritable bowel syndrome (IBS), ulcerative colitis, and celiac disease; based upon the characterization, generating a therapy model configured to correct the immune microbial dysfunction; and at an output device associated with the subject, promoting a therapy to the subject based upon the characterization and the therapy model.

    Method and system for microbiome analysis
    53.
    发明授权
    Method and system for microbiome analysis 有权

    公开(公告)号：US10287639B2

    公开(公告)日：2019-05-14

    申请号：US15606692

    申请日：2017-05-26

    Applicant: uBiome, Inc.

    Inventor： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid

    IPC: G01N33/48 ,  C12Q1/689 ,  C12Q1/6869 ,  C12Q1/6888 ,  G06F19/22 ,  G06G7/58

    Abstract: A method and system for analyzing a microbiome of an individual, comprising: providing a sampling kit to the individual at a location remote from the sample processing network, the sampling kit including a sample container having a lysing component and a sample preservation component and configured to receive a sample from a collection site of the individual; receiving the sample container with the sample from the collection site of the individual; generating a microbiome sequence dataset based upon sequencing nucleic acid content of a microorganism portion of the sample; identifying a set of microorganisms represented in the microorganism portion based upon performance of a mapping operation on portions of the microbiome sequence dataset; generating an analysis based upon a set of features related to the microorganism portion; and transmitting information derived from the analysis to the individual.

    Method and system for characterizing mouth-associated conditions
    56.
    发明授权
    Method and system for characterizing mouth-associated conditions 有权

    公开(公告)号：US10246753B2

    公开(公告)日：2019-04-02

    申请号：US15452529

    申请日：2017-03-07

    Applicant: uBiome, Inc.

    Inventor： Zachary Apte ,  Catalina Valdivia ,  Daniel Almonacid ,  Jessica Richman

    IPC: G01N33/48 ,  C12Q1/689 ,  G01N33/487 ,  G06F19/24 ,  G06F19/00 ,  C40B30/02 ,  G06F19/28 ,  G16H50/20 ,  G06G7/58

    Abstract: Embodiments of a system and method for characterizing a mouth-associated condition in relation to a user can include one or more of: a handling network operable to collect containers including material from a set of users, the handling network including a sequencing system operable to determine microorganism sequences from sequencing the material; a microbiome characterization system operable to determine microbiome composition data and microbiome functional diversity data based on the microorganism sequences, collect supplementary data associated with the mouth-associated condition for the set of users, and transform the supplementary data and features extracted from the microbiome composition data and the microbiome functional diversity data into a characterization model for the mouth-associated condition; and/or a therapy system operable to promote a treatment to the user based on characterizing the user with the characterization model in relation to the mouth-associated condition.

    METHOD AND SYSTEM FOR FRAGMENT ASSEMBLY AND SEQUENCE IDENTIFICATION
    57.
    发明申请
    METHOD AND SYSTEM FOR FRAGMENT ASSEMBLY AND SEQUENCE IDENTIFICATION 审中-公开

    公开(公告)号：US20180137240A1

    公开(公告)日：2018-05-17

    申请号：US15811544

    申请日：2017-11-13

    Applicant: uBiome, Inc.

    Inventor： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Rodrigo Ortiz

    IPC: G06F19/22 ,  G06F19/26 ,  G06F19/20 ,  G06F19/28 ,  C12Q1/68 ,  C12N15/10

    CPC classification number: G06F19/22 ,  C12N15/1065 ,  C12N15/1093 ,  C12Q1/6869 ,  C12Q2600/156 ,  C40B50/06

    Abstract: Embodiments of a method and/or system for improving fragment assembly and/or sequence identification includes: collecting a sample including a set of nucleic acid components associated with a set of microorganisms; generating a set of tagged sequence fragments; amplifying the set of tagged sequence fragments and sequencing the set of tagged sequence fragments; based upon the set of identifier tags, generating a set of branched assemblies of candidate sequence fragments, wherein each of the set of branched assemblies includes a set of ordered nodes and a set of branches distributed across the set of nodes; implementing a threshold criterion to reduce the set of branched assemblies to a set of branch-reduced assemblies; and identifying a set of sequences corresponding to the set of branch-reduced assemblies and/or generating an analysis informative of the set of microorganisms associated with the sample.

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