METHODS FOR CONTEXT BASED COMPRESSION OF GENOMIC DATA FOR IMMUNO-ONCOLOGY BIOMARKERS

    公开(公告)号:US20240428885A1

    公开(公告)日:2024-12-26

    申请号:US18748533

    申请日:2024-06-20

    Abstract: The method includes compressing numbers of reads data for targeted genes of a gene expression assay performed on a test sample. The targeted genes are organized into categories. Each category represents a functional context associated with the targeted genes in that category. The numbers of reads corresponding to targeted genes each category is compressed to form a compressed value for the category. The compressed value is compared to a baseline value for the category to determine an enrichment or a loss of a signature corresponding to the functional context of the category. The method may include analyzing information from multiple assays performed on the test sample, assigning a score value to each assay result and predicting a response to immune-oncology treatment based on the assigned scores.

    Methods for context based compression of genomic data for immuno-oncology biomarkers

    公开(公告)号:US11610648B2

    公开(公告)日:2023-03-21

    申请号:US16851472

    申请日:2020-04-17

    Abstract: The method includes compressing numbers of reads data for targeted genes of a gene expression assay performed on a test sample. The targeted genes are organized into categories. Each category represents a functional context associated with the targeted genes in that category. The numbers of reads corresponding to targeted genes each category is compressed to form a compressed value for the category. The compressed value is compared to a baseline value for the category to determine an enrichment or a loss of a signature corresponding to the functional context of the category. The method may include analyzing information from multiple assays performed on the test sample, assigning a score value to each assay result and predicting a response to immune-oncology treatment based on the assigned scores.

    COMPOSITIONS AND METHODS FOR IMMUNE REPERTOIRE MONITORING

    公开(公告)号:US20230416810A1

    公开(公告)日:2023-12-28

    申请号:US18317484

    申请日:2023-05-15

    CPC classification number: C12Q1/6844 C12Q1/6883 C12Q2600/16

    Abstract: The present disclosure provides methods, compositions, kits, and systems useful in the determination and evaluation of the immune repertoire. In one aspect, target-specific primer panels provide for the effective amplification of sequences of B cell receptor heavy and light chains in a single assay, with improved sequencing accuracy and resolution over the repertoire. Variable regions associated with the immune cell receptor are resolved to effectively portray clonal diversity of a biological sample and/or differences associated with the immune cell repertoire of a biological sample.

    METHODS FOR CONTEXT BASED COMPRESSION OF GENOMIC DATA FOR 
IMMUNO-ONCOLOGY BIOMARKERS

    公开(公告)号:US20230282306A1

    公开(公告)日:2023-09-07

    申请号:US18170797

    申请日:2023-02-17

    CPC classification number: G16B20/20 G06F16/24575 G06F16/248 G06N3/126

    Abstract: The method includes compressing numbers of reads data for targeted genes of a gene expression assay performed on a test sample. The targeted genes are organized into categories. Each category represents a functional context associated with the targeted genes in that category. The numbers of reads corresponding to targeted genes each category is compressed to form a compressed value for the category. The compressed value is compared to a baseline value for the category to determine an enrichment or a loss of a signature corresponding to the functional context of the category. The method may include analyzing information from multiple assays performed on the test sample, assigning a score value to each assay result and predicting a response to immune-oncology treatment based on the assigned scores.

    Immune Repertoire Monitoring
    9.
    发明申请

    公开(公告)号:US20240392386A1

    公开(公告)日:2024-11-28

    申请号:US18762451

    申请日:2024-07-02

    Inventor: Timothy Looney

    Abstract: The present disclosure provides methods, compositions, kits, and systems useful in the determination and evaluation of the immune repertoire. In one aspect, methods provide for determining convergence of T cell receptor and/or B cell receptor repertoires in samples prior to a treatment and predicting a subject's response to the treatment based on the measured convergence frequency. In another aspect, methods provide for an immune receptor haplotype group and predicting a subject's potential or predisposition to be protected from or vulnerable to an adverse event following a treatment.

    Immune repertoire monitoring
    10.
    发明授权

    公开(公告)号:US12065705B2

    公开(公告)日:2024-08-20

    申请号:US15733628

    申请日:2019-03-22

    Inventor: Timothy Looney

    Abstract: The present disclosure provides methods, compositions, kits, and systems useful in the determination and evaluation of the immune repertoire. In one aspect, methods provide for determining convergence of T cell receptor and/or B cell receptor repertoires in samples prior to a treatment and predicting a subjects response to the treatment based on the measured convergence frequency. In another aspect, methods provide for an immune receptor haplotype group and predicting a subjects potential or predisposition to be protected from or vulnerable to an adverse event following a treatment.

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