公开(公告)号：US10329628B2

公开(公告)日：2019-06-25

申请号：US14593466

申请日：2015-01-09

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Jessica Richman

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.

公开(公告)号：US10325685B2

公开(公告)日：2019-06-18

申请号：US15844139

申请日：2017-12-15

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Catalina Valdivia ,  Rodrigo Ortiz ,  Inti Pedroso ,  Victoria Dumas ,  Paz Tapia ,  Eduardo Morales

IPC: G01N33/48 ,  G16H50/20 ,  G16H10/40 ,  G16B50/00 ,  G16H50/70 ,  G16H20/60 ,  G06G7/58

Abstract: Embodiments of a method and/or system for characterizing a diet-related condition for a user can include one or more of: generating a microbiome dataset for each of an aggregate set of biological samples associated with a population of subjects, based on sample processing of the biological samples; processing a supplementary dataset associated with one or more diet-related conditions for the set of users; and performing a diet-related characterization process for the one or more diet-related conditions, based on the supplementary dataset and/or microbiome features extracted from the microbiome dataset.

公开(公告)号：US10325071B2

公开(公告)日：2019-06-18

申请号：US15621363

申请日：2017-06-13

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman

IPC: G01N33/48 ,  G06F19/00 ,  G16B35/00 ,  G16B40/00 ,  G16B50/00 ,  G16C20/60 ,  G16H50/20 ,  G06G7/58

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：US20190136288A1

公开(公告)日：2019-05-09

申请号：US16182482

申请日：2018-11-06

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Patricia Vera ,  Elisabeth M. Bik ,  Amanda Morton ,  Tomas Norambuena ,  Rodrigo Ortiz

IPC: C12Q1/06

Abstract: Embodiments of a method and/or system, such as for improving a microorganism-related characterization process, can include: preparing a set of control samples (e.g., from an individual specimen); determining one or more reference microorganism-related parameters (e.g., cutoff reference ranges of relative abundance for a set of microorganism taxa) based on one or more control samples of the set of control samples; and determining one or more variability parameters for the microorganism-related characterization based on the one or more reference microorganism-related parameters and one or more control sample characterizations for one or more control samples of the set of control samples.

公开(公告)号：US20190100789A1

公开(公告)日：2019-04-04

申请号：US16084941

申请日：2016-09-09

Applicant: uBiome, Inc.

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

IPC: C12Q1/689 ,  G16H50/20 ,  G16H50/50 ,  C12Q1/6806 ,  C12Q1/6809 ,  G06F17/15 ,  G06F17/18

Abstract: 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：US20190080046A1

公开(公告)日：2019-03-14

申请号：US16132195

申请日：2018-09-14

Applicant: uBiome, Inc.

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

IPC: G06F19/18 ,  G06F19/24 ,  G16H50/20 ,  G16H50/30

Abstract: 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：US20190078085A1

公开(公告)日：2019-03-14

申请号：US16125619

申请日：2018-09-07

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Eduardo Morales ,  Rodrigo Ortiz ,  Nicolas Ordenes ,  Juan Jimenez ,  Cristian Bravo ,  Natalia Scioscia ,  Eduardo Olivares ,  Luis Leon ,  Paulo Covarrubias ,  Felipe Sepulveda ,  Felipe Melis

IPC: C12N15/10 ,  C12N15/11 ,  C12Q1/6806 ,  C12Q1/6811 ,  C12Q1/686 ,  C12Q1/6876 ,  C12N15/66 ,  C12Q1/6855 ,  C12Q1/6869

Abstract: Embodiments of a method and/or system, such as for preparation of a normalized library for sequencing such as next-generation sequencing, can include one or more of: generating one or more normalized amplicon libraries; generating one or more normalized microbial community-associated libraries; and/or generating one or more normalized combined sequence libraries associated with amplicon-associated sequencing and microbial community-associated sequencing.

公开(公告)号：US20190050525A1

公开(公告)日：2019-02-14

申请号：US16103830

申请日：2018-08-14

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Valeria Marquez ,  Ingrid Araya ,  Melissa Alegria ,  Mario Saavedra ,  Luis Gomez ,  Janyra Espinoza ,  Javier Gimpel ,  Eduardo Morales ,  Rodrigo Ortiz

IPC: G06F19/16 ,  G06F19/12

Abstract: Embodiments of a method and/or system can include administering, to a patient with one or more conditions associated with at least one of TMA, TMAO, and/or derivatives thereof, a therapeutically effective amount of a compound for affecting inhibiting one or more CutC enzymes and/or CntA enzymes associated with microorganisms from at least one taxon from a set of microorganism taxa.

公开(公告)号：US20190019575A1

公开(公告)日：2019-01-17

申请号：US16124108

申请日：2018-09-06

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Jessica Richman ,  Daniel Almonacid ,  Juan Ugalde ,  Patricia Vera-Wolf ,  Sandro Valenzuela

IPC: G16H20/10 ,  G06F19/28 ,  G16H10/60 ,  C12Q1/689

Abstract: Embodiments of a method and/or system (e.g., for nasal-related characterization) can include determining a microorganism dataset associated with a set of subjects; and/or performing a characterization process based on the microorganism dataset, where performing the characterization process can additionally or alternatively include performing a nasal-related characterization process, and/or determining one or more therapies, such as for one or more nasal-related conditions.

公开(公告)号：US20180137931A1

公开(公告)日：2018-05-17

申请号：US15848824

申请日：2017-12-20

Applicant: uBiome, Inc.

Inventor： Zachary Apte ,  Daniel Almonacid ,  Jessica Richman

IPC: G06F19/24 ,  G06F19/28

CPC classification number: G16H10/40 ,  C12Q1/6883 ,  C12Q2600/112 ,  G01N2800/044 ,  G01N2800/32 ,  G06F19/3418 ,  G16B40/00 ,  G16B50/00 ,  G16H50/20 ,  H01L27/3211 ,  H01L27/322 ,  H01L27/3272 ,  H01L51/0097 ,  H01L51/5234 ,  H01L51/5265 ,  H01L51/5281 ,  H01L51/5284 ,  H01L2251/5338 ,  Y02A90/26

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