公开(公告)号：US20170235902A1

公开(公告)日：2017-08-17

申请号：US15374890

申请日：2016-12-09

Applicant: uBiome, Inc.

Inventor： Daniel Almonacid ,  Zachary Apte ,  Jessica Richman

IPC: G06F19/00 ,  G06F19/12 ,  C12Q1/68 ,  G06F19/22

CPC classification number: C12Q1/6869 ,  C12Q1/689 ,  G16B35/00 ,  G16B40/00 ,  G16B50/00 ,  G16C20/60 ,  G16H50/20 ,  G16H50/50 ,  Y02A90/26

Abstract: An embodiment of a system and method for characterizing a Clostridium-associated condition in relation to a user includes: a handling network operable to receive containers including material from a set of users, the handling network including a sequencing system operable to determine microbiome sequences from sequencing the material; a processing system operable to generate a microbiome composition dataset and a microbiome functional diversity dataset based on the microbiome sequences, receive a supplementary dataset associated with the Clostridium-associated condition for the set of users; transform the supplementary dataset and features extracted from the microbiome composition dataset and the microbiome functional diversity dataset into a characterization model for the Clostridium-associated condition; and a therapy system operable to promote a therapy to the user based on characterizing the user in relation to the Clostridium-associated condition using the characterization model.

公开(公告)号：US20160362742A1

公开(公告)日：2016-12-15

申请号：US15183652

申请日：2016-06-15

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman

IPC: C12Q1/68

CPC classification number: C12Q1/6869 ,  C12Q1/6804 ,  G01N33/58 ,  C12Q2525/179 ,  C12Q2565/531

Abstract: A method and system for characterization of antibody-bound targets by sequencing of synthetic oligonucleotides bound to the antibodies, the method including: receiving a sample having a set of antibodies; conjugating each of the set of antibodies with an oligonucleotide, thereby generating a set of oligonucleotide-conjugated antibodies; binding a first subset of the set of oligonucleotide-conjugated antibodies to a set of targets at a capture substrate; determining a sequence for at least one of: 1) each oligonucleotide of the first subset of oligonucleotide-conjugated antibodies that bind to the set of targets and 2) each oligonucleotide of a second subset of the set of oligonucleotide-conjugated antibodies that fail to bind to the set of targets; and generating an analysis of the sample from the sequences determined from at least one of the first and the second subsets of oligonucleotide-conjugated antibodies.

公开(公告)号：US20160362738A1

公开(公告)日：2016-12-15

申请号：US15183643

申请日：2016-06-15

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman

IPC: C12Q1/68

CPC classification number: C12Q1/6869 ,  C12Q1/6804 ,  G01N33/58 ,  C12Q2525/179 ,  C12Q2565/531

Abstract: A method and system for characterization of antibody-bound targets by sequencing of synthetic oligonucleotides bound to the antibodies, the method including: receiving a sample having a set of antibodies; conjugating each of the set of antibodies with an oligonucleotide, thereby generating a set of oligonucleotide-conjugated antibodies; binding a first subset of the set of oligonucleotide-conjugated antibodies to a set of targets at a capture substrate; determining a sequence for at least one of: 1) each oligonucleotide of the first subset of oligonucleotide-conjugated antibodies that bind to the set of targets and 2) each oligonucleotide of a second subset of the set of oligonucleotide-conjugated antibodies that fail to bind to the set of targets; and generating an analysis of the sample from the sequences determined from at least one of the first and the second subsets of oligonucleotide-conjugated antibodies.

Abstract translation: 用于通过测序与抗体结合的合成寡核苷酸表征抗体结合靶标的方法和系统，所述方法包括：接收具有一组抗体的样品; 将所述一组抗体与寡核苷酸共轭，从而产生一组寡核苷酸缀合的抗体; 将所述寡核苷酸缀合的抗体组的第一亚组与捕获底物上的一组靶结合; 确定以下至少一个的序列：1）寡核苷酸结合的抗体的第一子集的每个寡核苷酸结合该组靶标; 2）寡核苷酸缀合的抗体集合的第二子集的每个寡核苷酸不能结合 到一套目标; 以及从由寡核苷酸缀合的抗体的第一和第二子集中的至少一个确定的序列产生样品的分析。

公开(公告)号：US20160314281A1

公开(公告)日：2016-10-27

申请号：US15203589

申请日：2016-07-06

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman ,  Siavosh Rezvan Behbahani

IPC: G06F19/00

CPC classification number: G06F19/3481 ,  A61K35/741 ,  A61K35/742 ,  A61K35/744 ,  A61K35/745 ,  A61K35/747 ,  A61K45/06 ,  G16B20/00 ,  G16B30/00 ,  G16B50/00 ,  G16H10/40 ,  G16H50/20 ,  G16H50/70 ,  Y02A90/26

Abstract: A method for at least one of characterizing, diagnosing and treating a neurological health issue 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 neurological health issue 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 neurological health issue; 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：US20160232312A1

公开(公告)日：2016-08-11

申请号：US15097862

申请日：2016-04-13

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman ,  Siavosh Rezvan Behbahani

IPC: G06F19/00 ,  G06F19/28 ,  C40B30/02 ,  G06F19/12

CPC classification number: G06F19/345 ,  C40B30/02 ,  G06F19/00 ,  G06F19/24 ,  G06F19/28 ,  G06F19/3418 ,  G16H50/20 ,  Y02A90/26

Abstract: A method for at least one of characterizing, diagnosing and treating a neurological health issue 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 neurological health issue 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 neurological health issue; and at an output device associated with the subject, promoting a therapy to the subject based upon the characterization and the therapy model.

Abstract translation: 一种至少一种在至少一个受试者中表征，诊断和治疗神经性健康问题的方法，所述方法包括：从受试者群体接收一组生物样品; 为受试者群体生成微生物组合数据集和微生物群功能分集数据集中的至少一个; 基于从至少一个微生物组合数据集和微生物组合功能分集数据集提取的特征，产生神经健康问题的表征; 基于表征，产生配置以校正神经系统健康问题的治疗模型; 并且在与受试者相关联的输出装置处，基于表征和治疗模型促进对受试者的治疗。

公开(公告)号：US20160230217A1

公开(公告)日：2016-08-11

申请号：US15098204

申请日：2016-04-13

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman ,  Siavosh Rezvan Behbahani

IPC: C12Q1/68 ,  G06F19/12 ,  G06F19/00 ,  G06F19/22

CPC classification number: C12Q1/689 ,  C12Q2600/106 ,  C12Q2600/112 ,  C12Q2600/158 ,  C12Q2600/16 ,  G06F19/00 ,  G06F19/22 ,  G06F19/24 ,  G06F19/28 ,  G06F19/3418 ,  G16H50/50 ,  Y02A90/26

Abstract: 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.

Abstract translation: 用于表征，诊断和治疗与至少一个受试者中的微生物组学功能特征相关的病症中的至少一种的方法，所述方法包括：从受试者群体接收聚集的一组生物样品; 为受试者群体生成微生物组合数据集和微生物群功能分集数据集中的至少一个; 基于从至少一个微生物组合数据集和微生物组合功能分集数据集中提取的特征产生条件的表征; 基于所述表征，产生被配置为校正所述状况的治疗模型; 并且在与受试者相关联的输出装置处，基于表征和治疗模型促进对受试者的治疗。

公开(公告)号：US20150213193A1

公开(公告)日：2015-07-30

申请号：US14593424

申请日：2015-01-09

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Jessica Richman

IPC: G06F19/22

CPC classification number: C12Q1/689 ,  C12Q1/6869 ,  C12Q1/6888 ,  G06F19/22

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.

公开(公告)号：US20150211055A1

公开(公告)日：2015-07-30

申请号：US14593466

申请日：2015-01-09

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Jessica Richman

IPC: C12Q1/68

CPC classification number: C12Q1/689 ,  C12Q1/6869 ,  C12Q1/6888 ,  G16B30/00

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.

Abstract translation: 一种用于分析个体的微生物组合的方法和系统，包括：在远离所述样品处理网络的位置向所述个体提供采样试剂盒，所述取样试剂盒包括具有裂解组分和样品保存组分的样品容器， 从个人的收集站收到样本; 从个人收集地点收集样品的样品容器; 基于样品的微生物部分的核酸含量测定产生微生物群序列数据集; 基于微生物群序列数据集的部分上的映射操作的性能来鉴定微生物部分中表示的一组微生物; 基于与微生物部分相关的一组特征产生分析; 并将从分析得到的信息发送给个人。