公开(公告)号：US20240344123A1

公开(公告)日：2024-10-17

申请号：US18739017

申请日：2024-06-10

Applicant: Peptilogics, Inc.

Inventor： Francis Lee ,  Jonathan D. Steckbeck ,  Hannes Holste

IPC: C12Q1/6869 ,  G06F18/21 ,  G06F18/214 ,  G06N20/20 ,  G16B30/00 ,  G16B35/10 ,  G16B40/00

CPC classification number: C12Q1/6869 ,  G06F18/214 ,  G06F18/217 ,  G06N20/20 ,  G16B30/00 ,  G16B35/10 ,  G16B40/00

Abstract: In one aspect, a computer-implemented automated platform configured to use an artificial intelligence (AI) engine is disclosed and includes a reaction chamber configured to synthesize a sequence, detectors configured to monitor the synthesis of the sequence in the reaction chamber, and a computing device communicatively coupled to the detectors. The computing device receives measurements from the one or more detectors, wherein the measurements comprise a spectral profile at at least one coupling of at least one amino acid in the sequence, trains, using training data comprising the measurements, machine learning models to determine a synthesizing recipe that enables the sequence to be synthesized, wherein the synthesizing recipe comprises parameters used to synthesize the sequence, and controls, using the synthesizing recipe, the synthesis of the sequence in the reaction chamber.

公开(公告)号：US11898198B2

公开(公告)日：2024-02-13

申请号：US17890208

申请日：2022-08-17

Applicant: Illumina, Inc.

Inventor： Chen Zhao ,  Kevin Wu ,  Han-Yu Chuang ,  Jennifer Lococo ,  Alex So ,  Dwight Baker ,  Tatjana Singer

IPC: C12P19/34 ,  C12Q1/6855 ,  G16B20/20 ,  G16B35/10 ,  G16B30/10 ,  G16B25/20 ,  G16B40/00 ,  G16B20/00 ,  G16B30/00 ,  C12Q1/686 ,  C12Q1/6869 ,  C12Q1/6876

CPC classification number: C12Q1/6855 ,  C12Q1/686 ,  C12Q1/6869 ,  C12Q1/6876 ,  G16B20/00 ,  G16B20/20 ,  G16B25/20 ,  G16B30/00 ,  G16B30/10 ,  G16B35/10 ,  G16B40/00 ,  C12Q2525/191 ,  C12Q2525/197 ,  C12Q2600/16 ,  C12Q2600/166 ,  C12Q1/6869 ,  C12Q2525/191 ,  C12Q2535/122 ,  C12Q1/6869 ,  C12Q2525/191 ,  C12Q2535/122 ,  C12Q2563/179

Abstract: The disclosed embodiments concern methods, systems and computer program products for determining sequences of interest using unique molecular indexes (UMIs) that are uniquely associable with individual polynucleotide fragments, including sequences with low allele frequencies or long sequence length. In some implementations, the UMIs include variable-length nonrandom UMIs (vNRUMIs). Methods and systems for making and using sequencing adapters comprising vNRUMIs are also provided.

公开(公告)号：US20230317209A1

公开(公告)日：2023-10-05

申请号：US17844338

申请日：2022-06-20

Applicant: Shenzhen Haolthy Biotechnology Co., Ltd.

Inventor： Hao WANG

IPC: G16B35/20 ,  G16B20/00 ,  G16B50/30 ,  G16B15/00 ,  G16B40/00 ,  G16B35/10 ,  G01N33/68

CPC classification number: G16B35/20 ,  G16B20/00 ,  G16B50/30 ,  G16B15/00 ,  G16B40/00 ,  G16B35/10 ,  G01N33/6848

Abstract: A method for screening a split site and an application thereof are provided. The method includes: S1, writing a program using a computer language, and predicting an amino acid sequence formed by connecting adjacent peptide fragments after an intein is embedded into each two adjacent amino acid residues in an initial amino acid sequence and then excised through a self-splicing reaction to construct a protein database; and S2, performing molecular clone after inserting an intein sequence into a gene segment and then translating to obtain a peptide fragment, detecting whether that peptide fragment contain a labeled amino acid sequence by mass spectrometry, and comparing the peptide fragment with the protein database to confirm the split site. A final detection is realized by the mass spectrometry instead of high-throughput screening, and extended to searches for the split site of any active protein.

公开(公告)号：US20230312658A1

公开(公告)日：2023-10-05

申请号：US18067525

申请日：2022-12-16

Applicant: Centivax, Inc.

Inventor： Jacob E. Glanville

IPC: C07K14/005 ,  A61K39/12 ,  A61K39/21 ,  A61K38/46 ,  G16B30/10 ,  A61K39/00 ,  G16C20/60 ,  C12N7/00 ,  G16B35/00 ,  G16B20/30 ,  G16B30/00 ,  G16B35/10 ,  G16B20/00

CPC classification number: 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

Abstract: 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：US20230245723A1

公开(公告)日：2023-08-03

申请号：US18192331

申请日：2023-03-29

Applicant: Nant Holdings IP, LLC

Inventor： Patrick Soon-Shiong ,  John Zachary Sanborn

IPC: G16B35/10 ,  G16B30/10 ,  G16B20/20 ,  G16B50/30 ,  G16B40/00

CPC classification number: G16B35/10 ,  G16B30/10 ,  G16B20/20 ,  G16B50/30 ,  G16B40/00 ,  C12Q1/6881

Abstract: Contemplated systems and methods use high-accuracy in silico HLA analysis to so establish a transplant match database suitable for transplantation, and particularly stem cell and solid organ transplant.

公开(公告)号：US11673936B2

公开(公告)日：2023-06-13

申请号：US17863603

申请日：2022-07-13

Applicant: Think Therapeutics, Inc.

Inventor： David Kenneth Gifford ,  Brandon Carter

IPC: A61K39/00 ,  A61K38/00 ,  C07K14/74 ,  C07K14/435 ,  A61K38/17 ,  G01N33/569 ,  G16B20/30 ,  G16B5/20 ,  G16B30/00 ,  G16B20/40 ,  G16B35/10 ,  G16B15/20 ,  G16B5/00

CPC classification number: C07K14/70539 ,  A61K39/0011 ,  G01N33/56977 ,  G16B5/00 ,  G16B5/20 ,  G16B15/20 ,  G16B20/30 ,  G16B20/40 ,  G16B30/00 ,  G16B35/10 ,  A61K38/00

Abstract: A system for selecting an immunogenic peptide composition comprising a processor and a memory storing processor-executable instructions that, when executed by the processor, cause the processor to create a first peptide set by selecting a plurality of base peptides, wherein at least one peptide of the plurality of base peptides is associated with a disease, create a second peptide set by adding to the first peptide set a modified peptide, wherein the modified peptide comprises a substitution of at least one residue of a base peptide selected from the plurality of base peptides, and create a third peptide set by selecting a subset of the second peptide set, wherein the selected subset of the second peptide set has a predicted vaccine performance, wherein the predicted vaccine performance has a population coverage above a predetermined threshold, and wherein the subset comprises at least one peptide of the second peptide set.

公开(公告)号：US11650211B2

公开(公告)日：2023-05-16

申请号：US16692544

申请日：2019-11-22

Applicant: Neon Therapeutics, Inc.

Inventor： Jennifer Grace Abelin ,  Rob Carl Oslund ,  Nir Hacohen ,  Dominik Barthelme ,  Michael Rooney

IPC: G16B35/10 ,  G16B30/00 ,  A61K35/12 ,  A61K39/00 ,  G16B40/20 ,  G01N33/68 ,  G16B20/30 ,  G16B20/20 ,  G16B40/00 ,  A61K39/39 ,  G16B35/20 ,  C40B40/02 ,  C40B40/10

CPC classification number: G01N33/6878 ,  A61K35/12 ,  A61K39/0011 ,  A61K39/39 ,  G16B20/20 ,  G16B20/30 ,  G16B30/00 ,  G16B35/10 ,  G16B35/20 ,  G16B40/00 ,  G16B40/20 ,  A61K2039/5154 ,  C40B40/02 ,  C40B40/10

Abstract: Compositions and methods for isolating HLA-peptides from cells. A universal platform and methods for profiling the HLA-peptidome, enabling identification of endogenously presented HLA-peptides from cell lines expressing any possible class I or II construct.

公开(公告)号：US20230142283A1

公开(公告)日：2023-05-11

申请号：US17759175

申请日：2021-03-03

Applicant: University of Washington

Inventor： David BAKER ,  Matthew BICK ,  TJ BRUNETTE

IPC: G16B15/20 ,  G16B35/10 ,  C12N15/10 ,  C07K14/47 ,  C07K14/00

CPC classification number: G16B15/20 ,  G16B35/10 ,  C12N15/1068 ,  C07K14/47 ,  C07K14/001 ,  C07K2319/00

Abstract: Disclosed herein are junction polypeptides that can be used, for example, to join together protein building blocks via a rigid fusion to generate a wide range of protein shapes; fusion proteins comprising such junction polypeptides, polymers thereof, and methods for designing such junction polypeptides.

公开(公告)号：US12091443B2

公开(公告)日：2024-09-17

申请号：US18192274

申请日：2023-03-29

Applicant: Think Therapeutics, Inc.

Inventor： David Kenneth Gifford ,  Brandon Carter

IPC: A61K39/00 ,  A61K38/00 ,  A61K38/17 ,  C07K14/435 ,  C07K14/74 ,  G01N33/569 ,  G16B5/00 ,  G16B5/20 ,  G16B15/20 ,  G16B20/30 ,  G16B20/40 ,  G16B30/00 ,  G16B35/10

CPC classification number: C07K14/70539 ,  A61K39/0011 ,  G01N33/56977 ,  G16B5/00 ,  G16B5/20 ,  G16B15/20 ,  G16B20/30 ,  G16B20/40 ,  G16B30/00 ,  G16B35/10 ,  A61K38/00

Abstract: A system for selecting an immunogenic peptide composition comprising a processor and a memory storing processor-executable instructions that, when executed by the processor, cause the processor to create a first peptide set by selecting a plurality of base peptides, wherein at least one peptide of the plurality of base peptides is associated with a disease, create a second peptide set by adding to the first peptide set a modified peptide, wherein the modified peptide comprises a substitution of at least one residue of a base peptide selected from the plurality of base peptides, and create a third peptide set by selecting a subset of the second peptide set, wherein the selected subset of the second peptide set has a predicted vaccine performance, wherein the predicted vaccine performance has a population coverage above a predetermined threshold, and wherein the subset comprises at least one peptide of the second peptide set.

公开(公告)号：US20240212788A1

公开(公告)日：2024-06-27

申请号：US18221761

申请日：2023-07-13

Applicant: LIFEMINE THERAPEUTICS, INC.

Inventor： John Baxter BIGGINS ,  Brian Roger BOWMAN ,  Gregory L. VERDINE

IPC: G16B20/00 ,  G16B35/10

CPC classification number: G16B20/00 ,  G16B35/10

Abstract: Among other things, the present disclosure provides technologies for efficient and effective identification of ETaGs, for example, from fungi genomes. In some embodiments, provided technologies are particularly useful for identifying mammalian targets of biosynthetic products of fungi. In some embodiments, provided technologies are particularly useful for identifying and/or prioritizing human targets for drug development. In some embodiments, provided technologies are particularly useful for developing modulators for human targets based on biosynthetic products of fungi.