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1.WO/2022/008496ASSOCIATION MAPPING METHOD
WO 13.01.2022
Int.Class G16B 20/00
GPHYSICS
16INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
20ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
Appl.No PCT/EP2021/068625 Applicant JOHN INNES CENTRE Inventor WULFF, Brande
The invention is directed to a method for identifying one or more genes associated with a selected phenotype in an organism. The method includes the steps of providing sequence information derived from a database of genetic samples from a population of the organism, wherein the genetic samples comprise nucleic acids, and wherein the sequence information is comprised of a plurality of contigs, identifying sub-sequences of a fixed length k (k-mers) associated with the selected phenotype within the sequence information, ordering one or more k-mers using a reference genome assembly, and mapping the k-mers onto one or more of the ordered contigs to identify one or more genes associated with the selected phenotype.
2.WO/2022/009142METHODS OF DETERMINING CANCER THERAPY
WO 13.01.2022
Int.Class G16B 20/00
GPHYSICS
16INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
20ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
Appl.No PCT/IB2021/056136 Applicant YISSUM RESEARCH DEVELOPMENT COMPANY OF THE HEBREW UNIVERSITY OF JERUSALEM LTD. Inventor KRAVCHENKO-BALASHA, Nataly
Methods of determining a therapy for a solid cancer comprising thermodynamic-based analysis of single-cell proteomic data from tumor-derived cells are provided. Methods for determining a combination therapy comprising thermodynamic-based analysis of single cell proteomic data from tumor-derived cells that have received a first therapy are also provided. Methods of treating a subject suffering from triple-negative breast cancer, comprising administering radiotherapy, anti-Her2 therapy and anti-cMet therapy are also provided.
3.WO/2022/006676MACHINE LEARNING PREDICTION OF BIOLOGICAL EFFECT IN MULTICELLULAR ANIMALS FROM MICROORGANISM TRANSCRIPTIONAL FINGERPRINT PATTERNS IN NON-INHIBITORY CHEMICAL CHALLENGE
WO 13.01.2022
Int.Class G16B 40/20
GPHYSICS
16INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
40ICT specially adapted for biostatistics; ICT specially adapted for bioinformatics-related machine learning or data mining, e.g. knowledge discovery or pattern finding
20Supervised data analysis
Appl.No PCT/CA2021/050939 Applicant MCMASTER UNIVERSITY Inventor BROWN, Eric
A machine learning model for predicting biological effect of a subject chemical is built by feeding a training dataset to a machine learning engine. The training dataset comprises known transcription fingerprint patterns in at least one microorganism species in response to challenge by known chemicals of respective known biological effects in at least one multicellular animal. The known biological effects include effects that are non-inhibitory in the microorganism species, and the dataset may comprise, for each of the known chemicals, a series of time-dependent individual transcription fingerprints in the at least one microorganism species. The model determines the predicted biological effect based on a transcription fingerprint pattern for the subject chemical in the microorganism species in response to challenge by the subject chemical; gene expression reflected in the transcription fingerprint patterns is predictive of the expected biological effect.
4.WO/2022/008311GENOMIC INFORMATION COMPRESSION BY CONFIGURABLE MACHINE LEARNING-BASED ARITHMETIC CODING
WO 13.01.2022
Int.Class G16B 50/50
GPHYSICS
16INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
50ICT programming tools or database systems specially adapted for bioinformatics
50Compression of genetic data
Appl.No PCT/EP2021/067960 Applicant KONINKLIJKE PHILIPS N.V. Inventor CHANDAK, Shubham
A method and a system for decoding MPEG-G encoded data of genomic information, including: receiving MPEG-G encoded data; extracting encoding parameters; selecting an arithmetic decoding type based upon the extracted encoding parameters; selecting a predictor type specifying the method to obtain probabilities of symbols which were used for arithmetically encoding the data, based upon the extracted encoding parameters; selecting arithmetic coding contexts based upon the extracted encoding parameters; and decoding the encoded data using the selected predictor and the selected arithmetic coding contexts.
5.WO/2022/009092MEDIA, METHODS, AND SYSTEMS FOR PROTEIN DESIGN AND OPTIMIZATION
WO 13.01.2022
Int.Class G16B 15/20
GPHYSICS
16INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
15ICT specially adapted for analysing two-dimensional or three-dimensional molecular structures, e.g. structural or functional relations or structure alignment
20Protein or domain folding
Appl.No PCT/IB2021/056049 Applicant BASF SE Inventor LI, Tong
Exemplary embodiments relate to a protein engineering pipeline configured to optimize or improve proteins for specified functions. The problem space of such a task can grow quickly based on the sequence of the protein being optimized and the functions for which the protein is being designed. The solutions described herein allow the problem space to be efficiently searched by applying a combination of a protein design pipeline and an evaluation procedure performed on a quantum computer. As a result, single or multiple amino acid substitutions at a site of interest may be predicted in order to generate optimized protein variants.
6.WO/2022/010997NEURAL NETWORK ANALYSIS OF LFA TEST STRIPS
WO 13.01.2022
Int.Class G16B 20/00
GPHYSICS
16INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
20ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
Appl.No PCT/US2021/040665 Applicant EXA HEALTH, INC. Inventor KUMAR, Mayank
Example methods and systems train an end-to-end neural network machine to analyze images of lateral flow assay test strips by learning non-linear interactions among lighting variations, test strip reflections, bi-directional reflectance distribution functions, angles of imaging, response curves of smartphone cameras, or any suitable combination thereof. Such example methods and systems improve the limit of detection, the limit of quantification, and the coefficient of variation in the precision of quantitative test results, under ambient light settings.
7.20220010304METHODS FOR MEASURING AND IMPROVING CRISPR REAGENT FUNCTION
US 13.01.2022
Int.Class C12N 15/11
CCHEMISTRY; METALLURGY
12BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
NMICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
15Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
09Recombinant DNA-technology
11DNA or RNA fragments; Modified forms thereof
Appl.No 17357046 Applicant KSQ Therapeutics, Inc. Inventor Gregory V. Kryukov

The invention describes a novel system for identifying optimized gRNAs for use in CRISPR/Cas9 genome editing platforms. The invention allows for the determination of specific gene alterations rendered by a particular gRNA, thereby permitting the generation of optimized gRNA libraries.

8.WO/2022/007970FLUORESCENT CROSS-LINKED RNASE H MUTANT CONJUGATE, MIRNA COMBINATION AND APPLICATION THEREOF
WO 13.01.2022
Int.Class G01N 33/533
GPHYSICS
01MEASURING; TESTING
NINVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
33Investigating or analysing materials by specific methods not covered by groups G01N1/-G01N31/131
48Biological material, e.g. blood, urine; Haemocytometers
50Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
53Immunoassay; Biospecific binding assay; Materials therefor
531Production of immunochemical test materials
532Production of labelled immunochemicals
533with fluorescent label
Appl.No PCT/CN2021/105838 Applicant SHANGHAI MIRAN BIOTECH CO., LTD. Inventor WANG, Yiran
A fluorescent cross-linked RNase H mutant conjugate, a miRNA combination and an application thereof. The fluorescent cross-linked RNase H mutant conjugate (i) is as represented by RNase Hv-(Lx-SH-F)n or (ii) comprises an RNase Hv-Lx-ligand and receptor-F, wherein the ligand can bind to the receptor; RNase Hv is an RNase H mutant, which can bind to RNA or RNA-DNA hybrid strands, but cannot cleave RNA; L is a linker, and x is 1-10; SH is an amino acid containing a sulfhydryl group; F is a luminescent functional group, and n is 1-7. The fluorescent cross-linked RNase H mutant conjugate can directly recognize DNA/RNA hybrid strands and can be converted to generate detectable signals without PCR amplification, and can be applied to sensitively and quickly detect RNA.
9.WO/2022/007436METHOD FOR EVALUATING TRACEABILITY EFFECTIVENESS AND INTERCHANGEABILITY OF PROTEINS IN IMMUNOASSAY
WO 13.01.2022
Int.Class G16B 20/00
GPHYSICS
16INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR SPECIFIC APPLICATION FIELDS
BBIOINFORMATICS, i.e. INFORMATION AND COMMUNICATION TECHNOLOGY SPECIALLY ADAPTED FOR GENETIC OR PROTEIN-RELATED DATA PROCESSING IN COMPUTATIONAL MOLECULAR BIOLOGY
20ICT specially adapted for functional genomics or proteomics, e.g. genotype-phenotype associations
Appl.No PCT/CN2021/082977 Applicant NATIONAL INSTITUTE OF METROLOGY, CHINA Inventor WU, Liqing
A method for evaluating traceability effectiveness and interchangeability of proteins in immunoassay. The method comprises the steps of: (1) quantifying proteins by using a physicochemical analysis method; (2) quantifying the proteins by using a label-free protein quantification method based on surface plasmon resonance; and (3) performing a statistical test on a measurement result of the physicochemical analysis method and a measurement result of the label-free protein quantification method. The present invention mainly aims to solve the problems of a lack of traceability effectiveness evaluation methods in current protein immunoassays and it being impossible to evaluate whether "measured" in protein interchangeability evaluation methods is consistent. Provided is a method capable of evaluating whether "measured" in terms of proteins is consistent between a physicochemical analysis method and an immunoassay method and between different protein immunoassay methods, such that the method is used for evaluating the traceability effectiveness of protein immunoassay results and evaluating the interchangeability of protein standard substances.
10.WO/2022/010736HIGH THROUGHPUT SCREENING FOR MONOCLONAL ANTIBODY PAIRS
WO 13.01.2022
Int.Class C07K 16/28
CCHEMISTRY; METALLURGY
07ORGANIC CHEMISTRY
KPEPTIDES
16Immunoglobulins, e.g. monoclonal or polyclonal antibodies
18against material from animals or humans
28against receptors, cell surface antigens or cell surface determinants
Appl.No PCT/US2021/040106 Applicant E25BIO, INC. Inventor HERRERA, Bobby, Brooke
The subject matter disclosed herein relates to high throughput screening for monoclonal antibodies pairs that can be translated into rapid immunochromatography tests to specifically detect the viral protein antigens and distinguish between the closely related viruses and serotypes without cross-reaction.