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公开(公告)号：US10255990B2
公开(公告)日：2019-04-09
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 , C12N15/10 , C12Q1/6869 , G16B30/00 , 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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2.发明申请公开(公告)号：US20180342322A1
公开(公告)日：2018-11-29
申请号：US16039276
申请日：2018-07-18
Applicant: uBiome, Inc.
Inventor： Zachary Apte , Jessica Richman , Daniel Almonacid , Rodrigo Ortiz , Catalina Valdivia , Inti Pedroso , Paz Tapia
Abstract: Embodiments of a method and/or system for characterizing one or more appendix-related conditions can include determining a microorganism dataset associated with a set of subjects; and/or performing a characterization process associated with the one or more appendix-related conditions, based on the microorganism dataset, where performing the characterization process can additionally or alternatively include performing an appendix-related characterization process for the one or more appendix-related conditions, and/or determining one or more therapies.
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公开(公告)号：US20180087051A1
公开(公告)日：2018-03-29
申请号：US15717807
申请日：2017-09-27
Applicant: uBiome, Inc.
Inventor： Zachary Apte , Jessica Richman , Daniel Almonacid , Audrey Goddard , Rodrigo Ortiz , Sara Bird , Eduardo Morales
IPC: C12N15/10
CPC classification number: C12N15/1082 , C12N15/1089 , Y02A90/26 , C12Q2521/501 , C12Q2525/191 , C12Q2531/113 , C12Q2535/122
Abstract: 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.
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公开(公告)号：US10366793B2
公开(公告)日：2019-07-30
申请号：US15845190
申请日：2017-12-18
Applicant: uBiome, Inc.
Inventor： Zachary Apte , Jessica Richman , Daniel Almonacid , Catalina Valdivia , Rodrigo Ortiz , Inti Pedroso , Victoria Dumas , Paz Tapia , Eduardo Morales
Abstract: Embodiments of a method and/or system for characterizing a microorganism-related condition (e.g., human behavior condition, disease-related condition, etc.) 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 microorganism-related conditions for the set of users; and performing a microorganism-related characterization (e.g., human behavior characterization, disease-related characterization, etc.) process for the one or more microorganism-related conditions, based on the supplementary dataset and/or microbiome features extracted from the microbiome dataset.
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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
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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Patent Agency Ranking
6.发明申请公开(公告)号：US20180114592A1
公开(公告)日：2018-04-26
申请号：US15844360
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: G06F19/28
CPC classification number: G16H10/40 , G16B20/40 , G16B30/10 , G16B40/20 , G16B40/30 , G16B50/00 , G16H20/60 , G16H50/20 , Y02A90/26
Abstract: Embodiments of a method and/or system for characterizing an allergy-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 allergy-related conditions for the set of users; and performing an allergy-related characterization process for the one or more allergy-related conditions, based on the supplementary dataset and/or microbiome features extracted from the microbiome dataset.
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7.发明申请公开(公告)号：US20180286520A1
公开(公告)日：2018-10-04
申请号：US15997654
申请日：2018-06-04
Applicant: uBiome, Inc.
Inventor： Zachary Apte , Jessica Richman , Daniel Almonacid , Inti Pedroso , Catalina Valdivia , Rodrigo Ortiz , Paz Tapia
Abstract: Embodiments of a method and/or system for characterizing one or more sleep-related conditions can include determining a microorganism dataset associated with a set of subjects; and/or performing a characterization process associated with the one or more sleep-related conditions, based on the microorganism dataset, where performing the characterization process can additionally or alternatively include performing a sleep-related characterization process for the one or more sleep-related conditions, and/or determining one or more therapies S140.
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公开(公告)号：US20180102187A1
公开(公告)日：2018-04-12
申请号：US15819190
申请日：2017-11-21
Applicant: uBiome, Inc.
Inventor： Zachary Apte , Jessica Richman , Daniel Almonacid , Rodrigo Ortiz , Catalina Valdivia , Victoria Dumas , Paz Tapia
IPC: G06F19/28
CPC classification number: G16H10/40 , C12Q1/6883 , C12Q1/689 , C12Q2600/118 , G06F19/30 , G06F19/3418 , G16B20/00 , G16B20/40 , G16B40/20 , G16B40/30 , G16B50/00 , G16B50/30 , G16H15/00 , G16H20/10 , G16H50/20 , Y02A90/26
Abstract: Embodiments of a method and/or system for characterizing a headache-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 headache-related conditions for the set of users; and performing a characterization process for the one or more headache-related conditions, based on the supplementary dataset and microbiome features extracted from the microbiome dataset.
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公开(公告)号：US20170308669A1
公开(公告)日：2017-10-26
申请号：US15649497
申请日：2017-07-13
Applicant: uBiome, Inc.
Inventor： Zachary Apte , Jessica Richman , Daniel Almonacid , Inti Pedroso , Juan Ugalde , Rodrigo Ortiz
CPC classification number: G06F19/3418 , C12Q1/6883 , C12Q1/689 , C12Q2600/106 , C12Q2600/118 , C12Q2600/156 , G06F19/30 , G16B20/00 , G16B30/10 , G16B40/20 , G16B50/00 , G16B50/20 , G16B50/30 , G16H10/40 , G16H20/10 , G16H20/40 , G16H40/63 , G16H40/67 , G16H50/20 , G16H50/50
Abstract: Embodiments of a method and system for microbial pharmacogenomics can include: a sample handling system operable to collect containers including biological samples from a set of users, the handling system including a sequencing system operable to determine microorganism sequences from the biological samples; a microbiome characterization system operable to: determine microbiome pharmacogenomics data based on the microorganism sequences, collect supplementary data associated with the antibiotics-associated condition for the set of users, and transform the supplementary data and features extracted from the microbiome pharmacogenomics data into a characterization model associated with the antibiotics-associated condition; and a treatment system operable to promote a treatment to the user for the antibiotics-associated condition based on characterizing user biological material with the characterization model in relation to the antibiotics-associated condition.
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公开(公告)号：US10388407B2
公开(公告)日：2019-08-20
申请号：US15819190
申请日：2017-11-21
Applicant: uBiome, Inc.
Inventor： Zachary Apte , Jessica Richman , Daniel Almonacid , Rodrigo Ortiz , Catalina Valdivia , Inti Pedroso , Paz Tapia
IPC: G01N33/48 , G16H10/40 , G16H15/00 , G16B50/00 , C12Q1/6883 , C12Q1/689 , G06F19/00 , G16B99/00 , G06G7/58
Abstract: Embodiments of a method and/or system for characterizing a headache-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 headache-related conditions for the set of users; and performing a characterization process for the one or more headache-related conditions, based on the supplementary dataset and microbiome features extracted from the microbiome dataset.
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