公开(公告)号：US20240321392A1

公开(公告)日：2024-09-26

申请号：US18740319

申请日：2024-06-11

申请人： Nantomics LLC

发明人： Andrew Nguyen ,  John Zachary Sanborn ,  Stephen Charles Benz

IPC分类号： G16B20/30 ,  A61K39/00 ,  C12Q1/70 ,  G16B35/00 ,  G16C20/60 ,  G16H10/40 ,  G16H20/10 ,  G16H20/40 ,  G16H70/60

CPC分类号： G16B20/30 ,  A61K39/0011 ,  C12Q1/708 ,  G16B35/00 ,  G16C20/60 ,  G16H10/40 ,  G16H20/10 ,  G16H20/40 ,  G16H70/60 ,  A61K39/00 ,  C12Q2600/106 ,  C12Q2600/156

摘要： Contemplated antiviral/cancer treatments comprise analysis of neoepitopes from viral DNA that has integrated into the host genome, and design of immunotherapeutic agents against such neoepitopes.

公开(公告)号：US20240321391A1

公开(公告)日：2024-09-26

申请号：US18734587

申请日：2024-06-05

申请人： Cyclica Inc.

发明人： Stephen Scott MACKINNON ,  Leonard David MORAYNISS ,  Jason MITAKIDIS ,  Fuad G GWADRY

IPC分类号： G16B20/30 ,  G16B5/00 ,  G16B15/00 ,  G16B15/30 ,  G16B20/00 ,  G16B35/00 ,  G16B35/20 ,  G16B50/00 ,  G16B50/10 ,  G16B50/30 ,  G16B99/00 ,  G16C20/60

CPC分类号： G16B20/30 ,  G16B5/00 ,  G16B15/00 ,  G16B15/30 ,  G16B20/00 ,  G16B35/00 ,  G16B35/20 ,  G16B50/00 ,  G16B50/10 ,  G16B50/30 ,  G16B99/00 ,  G16C20/60

摘要： The invention involves a method for identifying a target protein. The invention involves receiving a request to identify a target protein based on a ligand; identifying, using the ligand, a first protein, where the ligand binds with the first protein to fonn a ligand-protein complex; generating, a first binding site profile for the first protein, where the first binding site profile describes molecular properties of the first protein; obtaining, from a controlled server, structure data describing molecular properties of surfaces for a multitude of proteins, where the multitude of proteins comprises the target protein; identifying, using the first binding site profile and the structure data, the target protein; and presenting the target protein to a user.

公开(公告)号：US20240312566A1

公开(公告)日：2024-09-19

申请号：US18433344

申请日：2024-02-05

申请人： Immunocore Limited ,  Adaptimmune Limited

发明人： Brian John CAMERON ,  Annelise Brigitte VUIDEPOT ,  Bent Karsten JAKOBSEN

IPC分类号： G16B35/20 ,  G01N33/50 ,  G01N33/68 ,  G16B35/00 ,  G16C20/60

CPC分类号： G16B35/20 ,  G01N33/505 ,  G01N33/6866 ,  G01N33/6878 ,  G16B35/00 ,  G16C20/60 ,  G01N2333/57 ,  G01N2333/70539 ,  G01N2500/04

摘要： The invention provides a method for predicting whether a binding peptide, which binds to a target peptide presented by a Major Histocompatibility Complex (MHC) and is for administration to a subject, has the potential to cross react with another peptide in the subject in vivo. The method comprises the steps of identifying at least one binding motif in the target peptide to which the binding peptide binds; and searching for peptides that are present in the subject that comprise the at least one binding motif and that are not the target peptide. The presence of one or more such peptides indicates that the binding peptide has the potential to cross react in vivo.

公开(公告)号：US12087404B2

公开(公告)日：2024-09-10

申请号：US17892701

申请日：2022-08-22

申请人： Peptilogics, Inc.

发明人： Francis Lee ,  Jonathan D. Steckbeck ,  Hannes Holste

IPC分类号： G16B40/00 ,  G06F3/14 ,  G06F9/451 ,  G06F16/242 ,  G06F16/248 ,  G06F16/29 ,  G06N20/00 ,  G16B5/00 ,  G16B10/00 ,  G16B30/00 ,  G16B35/00 ,  G16B45/00 ,  G16C20/70 ,  G16H10/20 ,  G16H50/20 ,  G16H50/70 ,  G16H70/40 ,  G06Q30/0201 ,  G06Q50/04 ,  G06Q50/18 ,  G16H40/20

CPC分类号： G16B40/00 ,  G06F3/14 ,  G06F9/451 ,  G06F16/2428 ,  G06F16/248 ,  G06F16/29 ,  G06N20/00 ,  G16B5/00 ,  G16B10/00 ,  G16B30/00 ,  G16B35/00 ,  G16B45/00 ,  G16C20/70 ,  G16H10/20 ,  G16H50/20 ,  G16H50/70 ,  G16H70/40 ,  G06Q30/0201 ,  G06Q50/04 ,  G06Q50/184 ,  G16H40/20

摘要： In one aspect, a method includes generating a design space for a peptide for an application. The generating includes identifying sequences for the peptide, and updating the sequences by determining, for each of the sequences, a respective set of activities pertaining to the application. The updating produces updated sequences each having updated respective activities. The method includes generating, based on the updated sequences, a solution space within the design space. The solution space includes a target subset of the updated sequences. The method includes performing, using a machine learning model to process the solution space, trials to identify a candidate drug compound that represents a sequence having a level of activity that exceeds a threshold level, and determining metrics pertaining to the machine learning model and a second machine learning model that performs the trials.

公开(公告)号：US12084717B2

公开(公告)日：2024-09-10

申请号：US18312710

申请日：2023-05-05

申请人： Personalis, Inc.

发明人： Gabor T. Bartha ,  Gemma Chandratillake ,  Richard Chen ,  Sarah Garcia ,  Hugo Yu Kor Lam ,  Shujun Luo ,  Mark R. Pratt ,  John West

IPC分类号： C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6869 ,  G16B20/00 ,  G16B20/10 ,  G16B20/20 ,  G16B30/00 ,  G16B35/00 ,  G16B35/10 ,  G16B99/00 ,  G16C20/60

CPC分类号： C12Q1/6874 ,  C12Q1/6806 ,  G16B20/00 ,  G16B20/10 ,  G16B20/20 ,  G16B30/00 ,  G16B35/10 ,  G16B99/00 ,  C12Q1/6869 ,  G16B35/00 ,  G16C20/60

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：US12043647B2

公开(公告)日：2024-07-23

申请号：US18067525

申请日：2022-12-16

申请人： Centivax, Inc.

发明人： Jacob E. Glanville

IPC分类号： A61K39/155 ,  A61K35/76 ,  A61K38/46 ,  A61K39/00 ,  A61K39/12 ,  A61K39/21 ,  A61K39/245 ,  C07K14/005 ,  C12N7/00 ,  G16B20/30 ,  G16B30/00 ,  G16B30/10 ,  G16B35/00 ,  G16B35/10 ,  G16C20/60 ,  G16B20/00

CPC分类号： C07K14/005 ,  A61K38/46 ,  A61K39/0011 ,  A61K39/12 ,  A61K39/21 ,  C12N7/00 ,  G16B20/30 ,  G16B30/00 ,  G16B30/10 ,  G16B35/00 ,  G16B35/10 ,  G16C20/60 ,  A61K2039/515 ,  A61K2039/5154 ,  A61K2039/53 ,  A61K2039/575 ,  A61K2039/70 ,  C12N2740/16034 ,  C12N2740/16071 ,  C12N2740/16122 ,  C12N2740/16134 ,  C12N2760/16122 ,  C12N2760/16134 ,  C12Y306/05002 ,  G16B20/00

摘要： The present disclosure provides compositions and methods for the generation of an antibody or immunogenic composition, such as a vaccine, through epitope focusing by variable effective antigen surface concentration. Generally, the composition and methods of the disclosure comprise three steps: a “design process” comprising one or more in silico bioinformatics steps to select and generate a library of potential antigens for use in the immunogenic composition; a “formulation process”, comprising in vitro testing of potential antigens, using various biochemical assays, and further combining two or more antigens to generate one or more immunogenic compositions; and an “administering” step, whereby the immunogenic composition is administered to a host animal, immune cell, subject or patient. Further steps may also be included, such as the isolation and production of antibodies raised by host immune response to the immunogenic composition.

公开(公告)号：US20240203529A1

公开(公告)日：2024-06-20

申请号：US18543611

申请日：2023-12-18

申请人： Peptilogics, Inc.

发明人： Francis Lee ,  Jonathan D. Steckbeck ,  Hannes Holste

IPC分类号： G16B40/00 ,  G06F3/14 ,  G06F9/451 ,  G06F16/242 ,  G06F16/248 ,  G06F16/29 ,  G06N20/00 ,  G06Q30/0201 ,  G06Q50/04 ,  G06Q50/18 ,  G16B5/00 ,  G16B10/00 ,  G16B30/00 ,  G16B35/00 ,  G16B45/00 ,  G16C20/70 ,  G16H10/20 ,  G16H40/20 ,  G16H50/20 ,  G16H50/70 ,  G16H70/40

CPC分类号： G16B40/00 ,  G06F3/14 ,  G06F9/451 ,  G06F16/2428 ,  G06F16/248 ,  G06F16/29 ,  G06N20/00 ,  G16B5/00 ,  G16B10/00 ,  G16B30/00 ,  G16B35/00 ,  G16B45/00 ,  G16C20/70 ,  G16H10/20 ,  G16H50/20 ,  G16H50/70 ,  G16H70/40 ,  G06Q30/0201 ,  G06Q50/04 ,  G06Q50/184 ,  G16H40/20

摘要： In one aspect, a method is disclosed for presenting, on a computing device, a graphical user interface (GUI) of a therapeutic tool. The method includes presenting, in a first screen of the GUI, a design space for a protein for an application, where the design space includes a set of sequences, where each sequence contains a respective set of activities pertaining to the application. The method also includes receiving, via a graphical element in the first screen, a selection of one or more query parameters of the design space, and presenting, in a second screen of the GUI, a solution space that includes a subset of the set of sequences, where each sequence contains the respective set of activities, where the subset of the set of sequences is selected based on the one or more query parameters.

公开(公告)号：US11976326B2

公开(公告)日：2024-05-07

申请号：US18178764

申请日：2023-03-06

申请人： Personalis, Inc.

发明人： Gabor T. Bartha ,  Gemma Chandratillake ,  Richard Chen ,  Sarah Garcia ,  Hugo Yu Kor Lam ,  Shujun Luo ,  Mark R. Pratt ,  John West

IPC分类号： C12Q1/6874 ,  C12Q1/6806 ,  C12Q1/6869 ,  G16B20/00 ,  G16B20/10 ,  G16B20/20 ,  G16B30/00 ,  G16B35/00 ,  G16B35/10 ,  G16B99/00 ,  G16C20/60

CPC分类号： C12Q1/6874 ,  C12Q1/6806 ,  G16B20/00 ,  G16B20/10 ,  G16B20/20 ,  G16B30/00 ,  G16B35/10 ,  G16B99/00 ,  C12Q1/6869 ,  G16B35/00 ,  G16C20/60

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：US20240096440A1

公开(公告)日：2024-03-21

申请号：US18367513

申请日：2023-09-13

申请人： Gusto Global, LLC

发明人： Daniel van der Lelie ,  Safiyh Taghavi

IPC分类号： G16B5/00 ,  A61K35/741 ,  A61K35/742 ,  G16B35/00 ,  G16B35/20

CPC分类号： G16B5/00 ,  A61K35/741 ,  A61K35/742 ,  G16B35/00 ,  G16B35/20 ,  G16B99/00

摘要： Methods are provided for the rational design of stable communities of microbes for benefiting the health of a host organism, including human and/or animal health. The methods describe design of microbial consortia based on providing and/or complementing key functionalities lacking or underrepresented in the microbiome of an organism having a disorder or disease as compared to healthy subjects. The consortia are designed to possess metabolic interdependencies for improved engrafting, stability and performance of the consortium. Compositions that include the designed microbial consortia are provided for treatment of disorders/diseases involving chronic inflammation, infection, and the combination of chronic inflammation and infection including inflammatory bowel disease and related disorders. The compositions are also broadly applicable for the treatment of neurological, metabolic and oncology-related conditions.

公开(公告)号：US11847766B2

公开(公告)日：2023-12-19

申请号：US17270413

申请日：2018-08-22

申请人： GENEMIND BIOSCIENCES COMPANY LIMITED

发明人： Linsen Li ,  Weibin Xu ,  Huan Jin ,  Zefei Jiang ,  Zhiliang Zhou ,  Qin Yan

IPC分类号： G06T7/62 ,  G06T5/00 ,  G06T7/136 ,  G06T7/194 ,  G16B35/00 ,  G06T7/00

CPC分类号： G06T5/002 ,  G06T5/003 ,  G06T7/0012 ,  G06T7/136 ,  G06T7/194 ,  G16B35/00

摘要： A method and device for detecting bright spots on an image. The image is acquired from a field of view where a base extension reaction occurs, multiple nucleic acid molecules with optically detectable labels exist in the field of view where the base extension reaction occurs, and at least some of the nucleic acid molecules appear as bright spots on the image. The method includes preprocessing the image to obtain a preprocessed image; determining a critical value to simplify the preprocessed image to obtain a simplified image, determining a first bright spot detection threshold on the basis of the preprocessed image, and identifying candidate bright spots on the image on the basis of the preprocessed image and the simplified image, including determining a pixel matrix that satisfies at least two of conditions as a candidate bright spot.