公开(公告)号：US11739314B2

公开(公告)日：2023-08-29

申请号：US16901863

申请日：2020-06-15

Applicant: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY

Inventor： Joshua LaBaer

IPC: C12N15/10 ,  G01N33/68

CPC classification number: C12N15/1062 ,  G01N33/6845 ,  G01N33/6854 ,  G01N2458/10

Abstract: Methods and compositions for multiplexed protein-protein interaction profiling (e.g., immunoprofiling), based on nucleic acid tagging of polypeptides (e.g., by RNA display) are described. In some embodiments the described compositions and methods utilize a library of prey polypeptide targets linked to prey RNAs encoding them, and a population of bait polypeptides, e.g., a mixture of antibodies, that bind to one or more of the prey polypeptide targets and are used to isolate and identify the bound prey polypeptide targets by amplification of their associated prey RNAs and sequencing of the corresponding cDNAs. In other embodiments the prey polypeptide targets are linked to DNA Bar Codes, which serve as unique identifiers of the tagged polypeptide.

公开(公告)号：US20230079737A1

公开(公告)日：2023-03-16

申请号：US17940883

申请日：2022-09-08

Applicant: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY ,  THE U.S.A., AS REPRESENTED BY THE SECRETARY, DEPARTMENT OF HEALTH AND HUMAN SERVICES

Inventor： Joshua LaBaer ,  Jie Wang ,  Ji Qiu ,  Garrick Wallstrom ,  Karen Anderson ,  Jin Park ,  Jonine Figueroa

IPC: G01N33/574 ,  G01N33/564 ,  C07K16/30 ,  C12Q1/6886

Abstract: Cancer patients make antibodies to tumor-derived proteins that are potential biomarkers for early detection. Twenty-eight antigens have been identified as potential biomarkers for the early detection of basal-like breast cancer (Tables 1, 2). Also, a 13-AAb classifier has been developed that differentiate patients with BLBC from healthy controls with 33% sensitivity at 98% specificity (Table 3).

公开(公告)号：US20200308573A1

公开(公告)日：2020-10-01

申请号：US16901863

申请日：2020-06-15

Applicant: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY

Inventor： Joshua LaBaer

IPC: C12N15/10 ,  G01N33/68

Abstract: Methods and compositions for multiplexed protein-protein interaction profiling (e.g., immunoprofiling), based on nucleic acid tagging of polypeptides (e.g., by RNA display)are described. In some embodiments the described compositions and methods utilize a library of prey polypeptide targets linked to prey RNAs encoding them, and a population of bait polypeptides, e.g., a mixture of antibodies, that bind to one or more of the prey polypeptide targets and are used to isolate and identify the bound prey polypeptide targets by amplification of their associated prey RNAs and sequencing of the corresponding cDNAs. In other embodiments the prey polypeptide targets are linked to DNA Bar Codes, which serve as unique identifiers of the tagged polypeptide.

公开(公告)号：US20200182874A1

公开(公告)日：2020-06-11

申请号：US16743906

申请日：2020-01-15

Applicant: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY ,  NATIONAL CANCER INSTITUTE

Inventor： Joshua LaBaer ,  Jie Wang ,  Ji Qui ,  Garrick Wallstrom ,  Karen Anderson ,  Jin Park ,  Jonine Figueroa

IPC: G01N33/574 ,  C12Q1/6886 ,  C07K16/30 ,  G01N33/564

Abstract: Cancer patients make antibodies to tumor-derived proteins that are potential biomarkers for early detection. Twenty-eight antigens have been identified as potential biomarkers for the early detection of basal-like breast cancer (Tables 1, 2). Also, a 13-AAb classifier has been developed that differentiate patients with BLBC from healthy controls with 33% sensitivity at 98% specificity (Table 3).

公开(公告)号：US20190127778A1

公开(公告)日：2019-05-02

申请号：US16172379

申请日：2018-10-26

Applicant: Arizona Board of Regents on Behalf of Arizona State University ,  Mayo Foundation for Medical Education and Research

Inventor： Joshua LaBaer ,  Vel Murugan ,  Merica Vorachitti ,  Rahul Pannala ,  Douglas Faigel

IPC: C12Q1/6806 ,  C12Q1/6851

Abstract: Provided herein are qPCR-based methods for quantitatively detecting and differentiating between live and dead pathogenic bacteria such as carbapenem-resistant Enterobacteriaceae (CRE). Also provided herein are simple, fast, and reliable genomic DNA extraction methods with improved efficiency.

公开(公告)号：US20180224448A1

公开(公告)日：2018-08-09

申请号：US15892981

申请日：2018-02-09

Applicant: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY ,  MAYO FOUNDATION FOR MEDICAL EDUCATION AND RESEARCH

Inventor： Haoyu Wang ,  Ji Qiu ,  Joshua LaBaer ,  Jonathan Leighton ,  Shabana Pasha

IPC: G01N33/564 ,  G01N33/50 ,  G01N33/52 ,  G01N33/543 ,  C12N15/10 ,  C07K16/18

CPC classification number: G01N33/564 ,  C07K16/18 ,  C07K16/30 ,  C07K16/3069 ,  C07K16/40 ,  C07K2317/30 ,  C12N15/1065 ,  C12N2310/3519 ,  G01N33/5023 ,  G01N33/521 ,  G01N33/54353 ,  G01N33/5436 ,  G01N33/54393 ,  G01N2800/065

Abstract: Identification of autoantibodies associated with Crohn's disease useful in diagnosis and management using an innovative protein array technology, namely nucleic acid programmable protein arrays (NAPPA) and applications relating thereto. Overall, reactivity of IgG autoantibodies was stronger than that of IgA autoantibodies; however, IgA autoantibodies showed greater differential reactivity between cases and controls. Four IgA autoantibodies against SNRPB, PRPH, PTTG1 and SNAI1 were newly identified with sensitivities above 15% at 95% specificity, among which anti-SNRPB-IgA had the highest sensitivity of 24.0%. Autoantibodies associated with specific disease subtypes were also found.

公开(公告)号：US20170045515A1

公开(公告)日：2017-02-16

申请号：US15307112

申请日：2015-03-16

Applicant: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY

Inventor： Karen Anderson ,  Marshall Posner ,  Joshua LaBaer

IPC: G01N33/569 ,  G01N33/574

CPC classification number: G01N33/56983 ,  G01N33/57411 ,  G01N2333/025 ,  G01N2469/20

Abstract: Provided herein are methods for the rapid detection of HPV types, such as HPV 16- and HPV18-specific antibodies, in patient samples that contain antibodies. For example, patients with head and neck cancers have detectable antibodies to multiple early genes derived from HPV. These antibodies also are useful as biomarkers for HPV-associated malignancies and premalignant states, for diagnosis and prognosis, and for methods of assessing treatment and cancer-recurrence prediction.

Abstract translation: 本文提供了用于在含有抗体的患者样品中快速检测HPV类型（例如HPV16-和HPV18-特异性抗体）的方法。 例如，患有头颈部癌症的患者对来自HPV的多个早期基因具有可检测的抗体。 这些抗体还可用作HPV相关恶性肿瘤和恶化前状态的生物标志物，用于诊断和预后，以及评估治疗和癌症复发预测的方法。

公开(公告)号：US12235268B2

公开(公告)日：2025-02-25

申请号：US16097791

申请日：2017-06-14

Applicant: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY ,  BENAROYA RESEARCH INSTITUTE AT VIRGINIA MASON

Inventor： Joshua LaBaer ,  Ji Qiu ,  Kailash Karthikeyan ,  Jane Buckner ,  Gerald Nepom

IPC: G01N33/53 ,  G01N33/564 ,  G01N33/68

Abstract: Compositions and methods for detection of anti-citrullinated protein antibodies (ACPAs) in rheumatoid arthritis (RA) patients. Patient samples known or suspected of containing ACPAs were probed against citrullinated proteins, and antibody responses to 190 citrullinated proteins in 20 RA patients were investigated. Unique antibody reactivity patterns in both clinical anti-cyclic citrullinated peptide assay positive (CCP+) and negative (CCP−) RA patients were observed. At individual antigen levels, six novel antibody/antigen complexes were discovered and validated against specific citrullinated antigens (Myelin Basic Protein (MBP), osteopontin (SPP1), flap endonuclease (FENI), insulin like growth factor binding protein 6 (IGFBP6), insulin like growth factor I (IGF1) and stanniocalcin-2 (STC2)) in RA patients. Identification of immune-dominant epitope(s) for citrullinated MBP was also performed. The identified biomarkers have high specificity, especially MBP.

公开(公告)号：US12180467B2

公开(公告)日：2024-12-31

申请号：US18348201

申请日：2023-07-06

Applicant: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY

Inventor： Joshua LaBaer

IPC: C12N15/10 ,  G01N33/68

Abstract: Methods and compositions for multiplexed protein-protein interaction profiling (e.g., immunoprofiling), based on nucleic acid tagging of polypeptides (e.g., by RNA display) are described. In some embodiments the described compositions and methods utilize a library of prey polypeptide targets linked to prey RNAs encoding them, and a population of bait polypeptides, e.g., a mixture of antibodies, that bind to one or more of the prey polypeptide targets and are used to isolate and identify the bound prey polypeptide targets by amplification of their associated prey RNAs and sequencing of the corresponding cDNAs. In other embodiments the prey polypeptide targets are linked to DNA Bar Codes, which serve as unique identifiers of the tagged polypeptide.

公开(公告)号：US20240402178A1

公开(公告)日：2024-12-05

申请号：US18804843

申请日：2024-08-14

Applicant: ARIZONA BOARD OF REGENTS ON BEHALF OF ARIZONA STATE UNIVERSITY ,  THE USA, AS REPRESENTED BY THE SECRETARY, DEPARTMENT OF HEALTH AND HUMAN SERVICES

Inventor： Joshua LaBaer ,  Jie Wang ,  Ji Qiu ,  Garrick Wallstrom ,  Karen Anderson ,  Jin Park ,  Jonine Figueroa

IPC: G01N33/574 ,  C07K16/30 ,  C12N15/11 ,  C12Q1/6886 ,  G01N33/564

Abstract: Cancer patients make antibodies to tumor-derived proteins that are potential biomarkers for early detection. Twenty-eight antigens have been identified as potential biomarkers for the early detection of basal-like breast cancer (Tables 1, 2). Also, a 13-AAb classifier has been developed that differentiate patients with BLBC from healthy controls with 33% sensitivity at 98% specificity (Table 3).