AU2017388532A1 - Methods, apparatuses, and systems for analyzing microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and diagnostics and biostate management based thereon - Google Patents

Methods, apparatuses, and systems for analyzing microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and diagnostics and biostate management based thereon Download PDF

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Publication number
AU2017388532A1
AU2017388532A1 AU2017388532A AU2017388532A AU2017388532A1 AU 2017388532 A1 AU2017388532 A1 AU 2017388532A1 AU 2017388532 A AU2017388532 A AU 2017388532A AU 2017388532 A AU2017388532 A AU 2017388532A AU 2017388532 A1 AU2017388532 A1 AU 2017388532A1
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sample
microorganism
unique
strains
state
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Abandoned
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AU2017388532A
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Inventor
Mallory EMBREE
Cameron Joseph MARTINO
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Native Microbials Inc
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Native Microbials Inc
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Assigned to NATIVE MICROBIALS, INC. reassignment NATIVE MICROBIALS, INC. Amend patent request/document other than specification (104) Assignors: ASCUS BIOSCIENCES, INC.
Abandoned legal-status Critical Current

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    • G—PHYSICS
    • G01—MEASURING; TESTING
    • G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
    • G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
    • G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
    • G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
    • G01N33/53—Immunoassay; Biospecific binding assay; Materials therefor
    • G01N33/569—Immunoassay; Biospecific binding assay; Materials therefor for microorganisms, e.g. protozoa, bacteria, viruses
    • G01N33/56911—Bacteria
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/02—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving viable microorganisms
    • C12Q1/04—Determining presence or kind of microorganism; Use of selective media for testing antibiotics or bacteriocides; Compositions containing a chemical indicator therefor
    • C12Q1/06—Quantitative determination
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B20/00—ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks
    • G16B5/20—Probabilistic models
    • C—CHEMISTRY; METALLURGY
    • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
    • C12Q—MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS; COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES
    • C12Q1/00—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions
    • C12Q1/68—Measuring or testing processes involving enzymes, nucleic acids or microorganisms; Compositions therefor; Processes of preparing such compositions involving nucleic acids
    • C12Q1/6876—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes
    • C12Q1/6888—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms
    • C12Q1/689—Nucleic acid products used in the analysis of nucleic acids, e.g. primers or probes for detection or identification of organisms for bacteria
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B10/00—ICT specially adapted for evolutionary bioinformatics, e.g. phylogenetic tree construction or analysis
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/10—Sequence alignment; Homology search
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B30/00—ICT specially adapted for sequence analysis involving nucleotides or amino acids
    • G16B30/20—Sequence assembly
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B40/00—ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
    • G—PHYSICS
    • G16—INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
    • G16B—BIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY [ICT] SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
    • G16B5/00—ICT specially adapted for modelling or simulations in systems biology, e.g. gene-regulatory networks, protein interaction networks or metabolic networks

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  • Health & Medical Sciences (AREA)
  • Life Sciences & Earth Sciences (AREA)
  • Engineering & Computer Science (AREA)
  • Physics & Mathematics (AREA)
  • Chemical & Material Sciences (AREA)
  • Molecular Biology (AREA)
  • Bioinformatics & Cheminformatics (AREA)
  • Immunology (AREA)
  • Biotechnology (AREA)
  • General Health & Medical Sciences (AREA)
  • Biophysics (AREA)
  • Urology & Nephrology (AREA)
  • Analytical Chemistry (AREA)
  • Hematology (AREA)
  • Biomedical Technology (AREA)
  • Proteomics, Peptides & Aminoacids (AREA)
  • Organic Chemistry (AREA)
  • Theoretical Computer Science (AREA)
  • Spectroscopy & Molecular Physics (AREA)
  • Biochemistry (AREA)
  • Medical Informatics (AREA)
  • Evolutionary Biology (AREA)
  • Microbiology (AREA)
  • Bioinformatics & Computational Biology (AREA)
  • Physiology (AREA)
  • Zoology (AREA)
  • Cell Biology (AREA)
  • Medicinal Chemistry (AREA)
  • Virology (AREA)
  • General Physics & Mathematics (AREA)
  • Pathology (AREA)
  • Probability & Statistics with Applications (AREA)
  • Food Science & Technology (AREA)
  • Genetics & Genomics (AREA)
  • Wood Science & Technology (AREA)
  • Tropical Medicine & Parasitology (AREA)
  • General Engineering & Computer Science (AREA)
  • Toxicology (AREA)
  • Measuring Or Testing Involving Enzymes Or Micro-Organisms (AREA)
  • Medicines Containing Material From Animals Or Micro-Organisms (AREA)
AU2017388532A 2016-12-28 2017-12-28 Methods, apparatuses, and systems for analyzing microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and diagnostics and biostate management based thereon Abandoned AU2017388532A1 (en)

Applications Claiming Priority (5)

Application Number Priority Date Filing Date Title
US201662439804P 2016-12-28 2016-12-28
US62/439,804 2016-12-28
US201762560174P 2017-09-18 2017-09-18
US62/560,174 2017-09-18
PCT/US2017/068753 WO2018126033A1 (en) 2016-12-28 2017-12-28 Methods, apparatuses, and systems for analyzing microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and diagnostics and biostate management based thereon

Publications (1)

Publication Number Publication Date
AU2017388532A1 true AU2017388532A1 (en) 2019-07-25

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AU2017388532A Abandoned AU2017388532A1 (en) 2016-12-28 2017-12-28 Methods, apparatuses, and systems for analyzing microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and diagnostics and biostate management based thereon

Country Status (8)

Country Link
EP (1) EP3562956A4 (es)
JP (1) JP2020507308A (es)
CN (1) CN110392738A (es)
AU (1) AU2017388532A1 (es)
CA (1) CA3048247A1 (es)
IL (1) IL267646A (es)
MX (1) MX2019007764A (es)
WO (1) WO2018126033A1 (es)

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* Cited by examiner, † Cited by third party
Publication number Priority date Publication date Assignee Title
WO2018126026A1 (en) 2016-12-28 2018-07-05 Ascus Biosciences, Inc. Methods, apparatuses, and systems for analyzing complete microorganism strains in complex heterogeneous communities, determining functional relationships and interactions thereof, and identifying and synthesizing bioreactive modificators based thereon
US10851399B2 (en) 2015-06-25 2020-12-01 Native Microbials, Inc. Methods, apparatuses, and systems for microorganism strain analysis of complex heterogeneous communities, predicting and identifying functional relationships and interactions thereof, and selecting and synthesizing microbial ensembles based thereon
US9938558B2 (en) 2015-06-25 2018-04-10 Ascus Biosciences, Inc. Methods, apparatuses, and systems for analyzing microorganism strains from complex heterogeneous communities, predicting and identifying functional relationships and interactions thereof, and selecting and synthesizing microbial ensembles based thereon
MX2017016924A (es) 2015-06-25 2018-08-15 Ascus Biosciences Inc Métodos, aparatos y sistemas para analizar cepas de microorganismos de comunidades heterogéneas complejas, predecir e indentificar sus relaciones funcionales e interacciones y seleccionar y sintetizar conjuntos microbianos basados en estos.
CN109757107A (zh) 2016-01-07 2019-05-14 埃斯库斯生物科技股份公司 用于通过施用微生物聚生体来提高乳产量的方法
MX2019007760A (es) 2016-12-28 2020-02-10 Ascus Biosciences Inc Metodos, aparatos y sistemas para analisis de cepa de microorganismo de comunidades heterogeneas complejas con analisis rastreador, determinacion de relaciones funcionales e interacciones de estas, y sintesis de agrupaciones microbianas que incluyen agrupaciones microbianas dosificadas y agrupaciones microbianas inoculativas.
MX2019012680A (es) 2017-04-28 2019-12-11 Ascus Biosciences Inc Metodos para complementar dietas con alto consumo de granos y/o alto valor energetico en rumiantes, mediante la administracion de un bioensamble sintetico de microbios, o cepas purificadas de los mismos.
IL264581A (en) * 2019-01-31 2020-08-31 Segal Eran Predicting blood metabolites
WO2021260159A1 (en) * 2020-06-24 2021-12-30 Université de Lausanne Means and methods for classifying microbes
KR102241357B1 (ko) * 2020-10-20 2021-04-16 주식회사 에이치이엠 머신러닝 모델을 이용하여 대장용종을 진단하는 방법 및 장치
CN112662795B (zh) * 2021-01-26 2023-12-15 苏州系统医学研究所 用于感染性病原体检测的阳性对照品及其制备方法与应用
CN112951333A (zh) * 2021-01-27 2021-06-11 天津大学 以f2噬菌体为模式病毒预测冠状病毒消抗模型评价方法
CN113096737B (zh) * 2021-03-26 2023-10-31 北京源生康泰基因科技有限公司 一种用于对病原体类型进行自动分析的方法及系统
KR102304399B1 (ko) * 2021-03-26 2021-09-24 주식회사 에이치이엠파마 머신러닝 모델을 이용하여 고혈당을 판별하는 방법 및 진단 장치
KR102304402B1 (ko) * 2021-03-26 2021-09-24 주식회사 에이치이엠파마 머신러닝 모델을 이용하여 비만 여부를 판별하는 방법 및 진단 장치
KR20220158950A (ko) * 2021-05-25 2022-12-02 주식회사 에이치이엠파마 머신러닝 모델을 이용하여 소화기 장애 유무를 판별하는 방법 및 진단 장치
KR20220158948A (ko) * 2021-05-25 2022-12-02 주식회사 에이치이엠파마 머신러닝 모델을 이용하여 복부팽만 유무를 판별하는 방법 및 진단 장치
US20230393062A1 (en) * 2022-06-06 2023-12-07 Trace Genomics, Inc. Moisture and organic matter prediction using near infrared light

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DK2370585T3 (en) * 2008-12-02 2016-09-26 Dupont Nutrition Biosci Aps TRIBES AND PRACTICES TO IMPROVE ruminants HEALTH AND / OR -performance
US20130121968A1 (en) * 2011-10-03 2013-05-16 Atossa Genetics, Inc. Methods of combining metagenome and the metatranscriptome in multiplex profiles
CN104171413B (zh) * 2014-08-01 2016-04-13 农业部沼气科学研究所 一种含厌氧菌K.paraultunense KD-1发酵液和羽毛粉的肉型家禽饲料
CN104814278A (zh) * 2015-04-15 2015-08-05 江苏师范大学 一种提高奶牛产奶量的微生态制剂
MX2017016924A (es) * 2015-06-25 2018-08-15 Ascus Biosciences Inc Métodos, aparatos y sistemas para analizar cepas de microorganismos de comunidades heterogéneas complejas, predecir e indentificar sus relaciones funcionales e interacciones y seleccionar y sintetizar conjuntos microbianos basados en estos.

Also Published As

Publication number Publication date
WO2018126033A1 (en) 2018-07-05
EP3562956A1 (en) 2019-11-06
JP2020507308A (ja) 2020-03-12
MX2019007764A (es) 2019-10-15
CN110392738A (zh) 2019-10-29
EP3562956A4 (en) 2020-10-14
CA3048247A1 (en) 2018-07-05
IL267646A (en) 2019-08-29

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