公开(公告)号：US11538551B2

公开(公告)日：2022-12-27

申请号：US16249803

申请日：2019-01-16

申请人： Ancestry.com DNA, LLC

发明人： Eunjung Han ,  Ross E. Curtis ,  Peter Carbonetto

IPC分类号： G01N33/48 ,  G01N33/50 ,  G16B10/00 ,  G16B30/00 ,  G16B35/00 ,  G16B40/00 ,  G16C20/60 ,  G16B20/00 ,  G16B20/40 ,  G16B40/20 ,  G16B20/20 ,  C12Q1/6888

摘要： Described are techniques for determining population structure from identity-by-descent (IBD) of individuals. The techniques may be used to predict that an individual belongs to zero, one or more of a number of communities identified within an IBD network. Additional data may be used to annotate the communities with birth location, surname, and ethnicity information. In turn, these data may be used to provide to an individual a prediction of membership to zero, one or more communities, accompanied by a summary of the information annotated to those communities.

公开(公告)号：US20220380753A1

公开(公告)日：2022-12-01

申请号：US17333272

申请日：2021-05-28

申请人： X Development LLC

发明人： Ivan Grubisic ,  Ray Nagatani ,  Lance Co Ting Keh ,  Andrew Weitz ,  Kenneth Jung ,  Ryan Poplin

IPC分类号： C12N15/10 ,  G16B35/00 ,  G16B15/30

摘要： The present disclosure relates to in vitro experiments and in silico computation and machine-learning based techniques to iteratively improve a process for identifying binders that can bind any given molecular target. Particularly, aspects of the present disclosure are directed to obtaining sequence data for aptamers that bind to a target, where the sequence data has a first signal to noise ratio, generating, by a search process, a first set of aptamer sequences derived from the sequence data, obtaining subsequent sequence data for subsequent aptamers that bind to the target, where the subsequent aptamers includes aptamers synthesized from the first set of aptamer sequences, and the subsequent sequence data has a second signal to noise ratio greater than the first signal to noise ratio, generating, by a linear machine-learning model, a second set of aptamer sequences derived from the subsequent sequence data, and outputting the second set of aptamer sequences.

公开(公告)号：US11473137B2

公开(公告)日：2022-10-18

申请号：US16006704

申请日：2018-06-12

申请人： GRAIL, Inc.

发明人： Xiao Yang ,  Hyunsung John Kim ,  Wenying Pan ,  Matthew H. Larson ,  Eric Michael Scott ,  Pranav Parmjit Singh ,  Mohini Jangi Desai

IPC分类号： G01N33/48 ,  C12Q1/6874 ,  G16H50/20 ,  G16H50/30 ,  G16B30/00 ,  G16B5/00 ,  G16B10/00 ,  G16B20/00 ,  G16B15/00 ,  G16B25/00 ,  G16B35/00 ,  G16B40/00 ,  G16B45/00 ,  G16B50/00 ,  G16B30/20 ,  G16B30/10 ,  G16B35/10 ,  G16B35/20

摘要： Cell free nucleic acids from a test sample obtained from an individual are analyzed to identify possible fusion events. Cell free nucleic acids are sequenced and processed to generate fragments. Fragments are decomposed into kmers and the kmers are either analyzed de novo or compared to targeted nucleic acid sequences that are known to be associated with fusion gene pairs of interest. Thus, kmers that may have originated from a fusion event can be identified. These kmers are consolidated to generate gene ranges from various genes that match sequences in the fragment. A candidate fusion event can be called given the spanning of one or more gene ranges across the fragment.

公开(公告)号：US11450407B1

公开(公告)日：2022-09-20

申请号：US17384104

申请日：2021-07-23

申请人： Pythia Labs, Inc.

发明人： Joshua Laniado ,  Julien Jorda ,  Matthias Maria Alessandro Malago ,  Thibault Marie Duplay ,  Mohamed El Hibouri ,  Lisa Juliette Madeleine Barel

IPC分类号： G16B15/20 ,  G16B35/00 ,  G16B15/30

摘要： Described herein are systems and methods for designing and testing custom biologic molecules in silico which are useful, for example, for the treatment, prevention, and diagnosis of disease. In particular, in certain embodiments, the biomolecule engineering technologies described herein employ artificial intelligence (AI) software modules to accurately predict performance of candidate biomolecules and/or portions thereof with respect to particular design criteria. In certain embodiments, the AI-powered modules described herein determine performance scores with respect to design criteria such as binding to a particular target. AI-computed performance scores may, for example, be used as objective functions for computer implemented optimization routines that efficiently search a landscape of potential protein backbone orientations and binding interface amino-acid sequences. By virtue of their modular design, AI-powered scoring modules can be used separately, or in combination, such as in a pipeline approach where different structural features of a custom biologic are optimized in succession.

公开(公告)号：US20220270707A1

公开(公告)日：2022-08-25

申请号：US17739029

申请日：2022-05-06

申请人： Salipro Biotech AB

发明人： Jens FRAUENFELD ,  Robin LÖVING

IPC分类号： G16B15/30 ,  G16B35/00 ,  G01N33/68

摘要： The invention is directed to a method for studying or identifying a biologically active agent that binds to a membrane protein, the method comprising: (i) obtaining one or more 2D and/or 3D structures of a saposin lipoprotein particle comprising the membrane protein, (ii) modeling the binding of said biologically active agent to said membrane protein present in said saposin lipoprotein particle using said one or more 2D and/or 3D structures and/or resolving the binding sites and interactions between said biologically active agent and said membrane protein in the 2D and/or 3D structure.

公开(公告)号：US20220199197A1

公开(公告)日：2022-06-23

申请号：US17693744

申请日：2022-03-14

申请人： GUARDANT HEALTH, INC.

发明人： Bahram Ghaffarzadeh KERMANI ,  Helmy ELTOUKHY

IPC分类号： G16B20/20 ,  G16B30/00 ,  G16B35/00 ,  G16B40/00 ,  G16C20/60 ,  G16B40/20

摘要： Systems and methods are disclosed to detect single-nucleotide variations (SNVs) from somatic sources in a cell-free biological sample of a subject by generating training data with class labels; in computer memory, generating a machine learning unit comprising one output for each of adenine (A), cytosine (C), guanine (G), and thymine (T) calls; training the machine learning unit; and applying the machine learning unit to detect the SNVs from somatic sources in the cell-free biological sample of the subject, wherein the cell-free biological sample comprises a mixture of nucleic acid molecules from somatic and germline sources.

公开(公告)号：US20220172799A1

公开(公告)日：2022-06-02

申请号：US17369429

申请日：2021-07-07

申请人： The Regents of the University of California

发明人： Richard E. Green, JR. ,  Liana F. Lareau

IPC分类号： G16B30/20 ,  G16B30/00 ,  G16B35/00 ,  G16C20/60 ,  C12Q1/6869 ,  G16B35/10 ,  G16B30/10

摘要： The disclosure provides methods to assemble genomes of eukaryotic or prokaryotic organisms. The disclosure further provides methods for haplotype phasing and meta-genomics assemblies.

公开(公告)号：US11335437B2

公开(公告)日：2022-05-17

申请号：US15809908

申请日：2017-11-10

申请人： Verinata Health, Inc.

发明人： Erich D. Blume ,  John P. Burke ,  Hui Huang

IPC分类号： G16B30/10 ,  G16B30/00 ,  G16B35/00 ,  G16C20/60 ,  G16B20/10

摘要： Disclosed are methods and tools for rapidly aligning reads to a reference sequence. These methods and tools employ Bloom filters or similar set membership testers to perform the alignment. The reads may be short sequences of nucleic acids or other biological molecules and the reference sequences may be sequences of genomes, chromosomes, etc. The Bloom filters include a collection of hash functions, a bit array, and associated logic for applying reads to the filter. Each filter, and there may be multiple of these used in a particular application, is used to determine whether an applied read is present in a reference sequence. Each Bloom filter is associated with a single reference sequence such as the sequence of a particular chromosome. In one example, chromosomal abundance is determined by aligning reads from a sequencer to multiple chromosomes, each having an associated Bloom filter or other set membership tester.

公开(公告)号：US11299783B2

公开(公告)日：2022-04-12

申请号：US17235776

申请日：2021-04-20

申请人： Personalis, Inc.

发明人： John West ,  Christian Haudenschild ,  Richard Chen

IPC分类号： C12Q1/6874 ,  G16B20/00 ,  C12Q1/6806 ,  C12Q1/6869 ,  G16B35/00 ,  G16C20/60 ,  G16B30/00 ,  G16B99/00

摘要： This disclosure provides systems and methods for sample processing and data analysis. Sample processing may include nucleic acid sample processing and subsequent sequencing. Some or all of a nucleic acid sample may be sequenced to provide sequence information, which may be stored or otherwise maintained in an electronic storage location. The sequence information may be analyzed with the aid of a computer processor, and the analyzed sequence information may be stored in an electronic storage location that may include a pool or collection of sequence information and analyzed sequence information generated from the nucleic acid sample. Methods and systems of the present disclosure can be used, for example, for the analysis of a nucleic acid sample, for producing one or more libraries, and for producing biomedical reports. Methods and systems of the disclosure can aid in the diagnosis, monitoring, treatment, and prevention of one or more diseases and conditions.

公开(公告)号：US11267816B2

公开(公告)日：2022-03-08

申请号：US16376614

申请日：2019-04-05

申请人： Memorial Sloan-Kettering Cancer Center

发明人： Gabriela Chiosis ,  Pengrong Yan ,  Pallav Patel ,  Hardik J. Patel ,  Tony Taldone ,  Chenghua Yang ,  Weilin Sun ,  Stefan O. Ochiana

IPC分类号： C07D473/34 ,  G16B35/00 ,  G16C20/60 ,  G16C20/64 ,  C07D519/00 ,  G01N33/50

摘要： The disclosure relates to novel selective Grp94 inhibitors, compositions comprising an effective amount of such compounds, and methods to treat or prevent a condition, such as cancer, comprising administering to an animal in need thereof an effective amount of such compounds.