公开(公告)号：US20250066766A1

公开(公告)日：2025-02-27

申请号：US18932442

申请日：2024-10-30

Applicant: President and Fellows of Harvard College

Inventor： Xiaowei Zhuang ,  Kok-Hao Chen ,  Alistair Boettiger ,  Jeffrey R. Moffitt ,  Siyuan Wang

IPC: C12N15/10 ,  C07H21/02 ,  C07H21/04 ,  C12Q1/6806 ,  C12Q1/6816 ,  C12Q1/6837 ,  C12Q1/6841 ,  C12Q1/6869 ,  G06N7/01 ,  G16B25/00 ,  G16B25/20 ,  G16B30/00 ,  G16B40/00 ,  G16B40/10 ,  G16C20/10

Abstract: The present invention generally relates to systems and methods for imaging or determining nucleic acids, for instance, within cells. In some embodiments, the transcriptome of a cell may be determined. Certain embodiments are directed to determining nucleic acids, such as mRNA, within cells at relatively high resolutions. In some embodiments, a plurality of nucleic acid probes may be applied to a sample, and their binding within the sample determined, e.g., using fluorescence, to determine locations of the nucleic acid probes within the sample. In some embodiments, codewords may be based on the binding of the plurality of nucleic acid probes, and in some cases, the codewords may define an error-correcting code to reduce or prevent misidentification of the nucleic acids. In certain cases, a relatively large number of different targets may be identified using a relatively small number of labels, e.g., by using various combinatorial approaches.

公开(公告)号：US20250066764A1

公开(公告)日：2025-02-27

申请号：US18932298

申请日：2024-10-30

Applicant: President and Fellows of Harvard College

Inventor： Xiaowei Zhuang ,  Kok-Hao Chen ,  Alistair Boettiger ,  Jeffrey R. Moffitt ,  Siyuan Wang

IPC: C12N15/10 ,  C07H21/02 ,  C07H21/04 ,  C12Q1/6806 ,  C12Q1/6816 ,  C12Q1/6837 ,  C12Q1/6841 ,  C12Q1/6869 ,  G06N7/01 ,  G16B25/00 ,  G16B25/20 ,  G16B30/00 ,  G16B40/00 ,  G16B40/10 ,  G16C20/10

Abstract: The present invention generally relates to systems and methods for imaging or determining nucleic acids, for instance, within cells. In some embodiments, the transcriptome of a cell may be determined. Certain embodiments are directed to determining nucleic acids, such as mRNA, within cells at relatively high resolutions. In some embodiments, a plurality of nucleic acid probes may be applied to a sample, and their binding within the sample determined, e.g., using fluorescence, to determine locations of the nucleic acid probes within the sample. In some embodiments, codewords may be based on the binding of the plurality of nucleic acid probes, and in some cases, the codewords may define an error-correcting code to reduce or prevent misidentification of the nucleic acids. In certain cases, a relatively large number of different targets may be identified using a relatively small number of labels, e.g., by using various combinatorial approaches.

公开(公告)号：US12234516B2

公开(公告)日：2025-02-25

申请号：US17206895

申请日：2021-03-19

Applicant: The Board of Regents of the University of Texas System

Inventor： Min Soo Kim ,  James Brugarolas ,  Tae Hyun Hwang ,  Yang Xie

IPC: C12Q1/6886 ,  A61P35/00 ,  C12N15/52 ,  C40B40/08 ,  G01N33/50 ,  G16B25/00 ,  G16B25/10 ,  G16B25/20 ,  G16B30/00 ,  G16H50/20 ,  G16H50/30

Abstract: Described herein are methods and systems for identifying and/or treating subjects having cancer who are more likely to respond to treatment with an inhibitor of the transcription factor HIF-2α.

公开(公告)号：US20250061964A1

公开(公告)日：2025-02-20

申请号：US18935640

申请日：2024-11-03

Applicant: CHINA AGRICULTURAL UNIVERSITY

Inventor： Xiangdong DING ,  Huatao LIU ,  Hehe DU ,  Zipeng ZHANG ,  Qin ZHANG ,  Chuduan WANG

IPC: G16B20/20 ,  C12N15/10 ,  C12Q1/6806 ,  C12Q1/6874 ,  C12Q1/6876 ,  G16B25/20 ,  G16B30/10

Abstract: This invention relates to the field of genetic molecular breeding, specifically to a pig 50K liquid-phase chip based on multiple single nucleotide-polymorphism and its application. The probe design of the chip in this invention takes into account the distribution of captured SNP loci across the genome, the polymorphism of the loci, the quality of mSNP markers, and other issues, effectively avoiding problems such as uneven marker density and poor polymorphism. It also considers the quality of mSNP markers and the issue of linkage disequilibrium among mSNP markers. While adhering to the basic principles of liquid-phase chip design, genomic regions with moderate linkage disequilibrium between markers were selected, generating more SNP markers with high genotyping quality and moderate linkage disequilibrium within the probe region with the target loci. The mSNP liquid-phase chip of this invention expands the detectable number of SNPs to 1.5-2 times that of the target loci, addressing the issue of the relatively small number of high-quality mSNP markers in traditional liquid-phase chips without increasing costs.

公开(公告)号：US20250000071A1

公开(公告)日：2025-01-02

申请号：US18792148

申请日：2024-08-01

Applicant: Generation Bio Co. ,  University of Massachusetts

Inventor： Robert M. Kotin ,  Evin Hildebrandt

IPC: A01K67/0278 ,  C07K16/28 ,  C12N9/22 ,  C12N15/861 ,  G16B25/20

Abstract: The technology described herein relates to methods, compositions and in silico screening approaches for identifying and validating genomic safe harbors (GSHs) in mammalian genomes, including human genomes. Another aspects relates to recombinant nucleic acid vectors, including non-viral and viral vectors comprising a portion of the GSH loci, or gRNA sequences specific to a GSH loci, and methods for use of the vectors for insertion of a gene of interest into a GSH loci.

公开(公告)号：US20240412820A1

公开(公告)日：2024-12-12

申请号：US18733794

申请日：2024-06-04

Applicant: BlueDot LLC ,  TRIAD NATIONAL SECURITY, LLC

Inventor： Momchilo VUYISICH ,  Jason GANS ,  Patrick CHAIN ,  Andrew HATCH

IPC: G16B35/10 ,  C12Q1/6811 ,  G16B20/00 ,  G16B25/20

Abstract: Provided herein are compositions and methods for analyzing nucleic acids in a sample. Compositions include simple barcode sets having reduced DNA sequencing instrument-specific error rates. Methods include methods to deconvolute sequence reads from different samples.

公开(公告)号：US20240336980A1

公开(公告)日：2024-10-10

申请号：US18747178

申请日：2024-06-18

Applicant: Natera, Inc.

Inventor： Joshua Babiarz ,  Tudor Pompiliu Constantin ,  Lane A. Eubank ,  George Gemelos ,  Matthew Micah Hill ,  Huseyin Eser Kirkizlar ,  Matthew Rabinowitz ,  Onur Sakarya ,  Styrmir Sigurjonsson ,  Bernhard Zimmermann

IPC: C12Q1/6886 ,  C12Q1/6869 ,  G06N7/01 ,  G06N20/00 ,  G16B15/00 ,  G16B20/00 ,  G16B20/10 ,  G16B20/20 ,  G16B25/00 ,  G16B25/20 ,  G16B40/00 ,  G16B40/20 ,  G16H10/40 ,  G16H50/20 ,  G16Z99/00

CPC classification number: C12Q1/6886 ,  C12Q1/6869 ,  G06N7/01 ,  G06N20/00 ,  G16B15/00 ,  G16B20/00 ,  G16B20/10 ,  G16B20/20 ,  G16B25/00 ,  G16B40/00 ,  G16B40/20 ,  G16H10/40 ,  G16H50/20 ,  G16Z99/00 ,  C12Q2539/10 ,  C12Q2600/156 ,  C12Q2600/158 ,  C12Q2600/16 ,  C12Q2600/172 ,  G16B25/20

Abstract: The invention provides methods, systems, and computer readable medium for detecting ploidy of chromosome segments or entire chromosomes, for detecting single nucleotide variants and for detecting both ploidy of chromosome segments and single nucleotide variants. In some aspects, the invention provides methods, systems, and computer readable medium for detecting cancer or a chromosomal abnormality in a gestating fetus.

公开(公告)号：US20240309464A1

公开(公告)日：2024-09-19

申请号：US18678577

申请日：2024-05-30

Applicant: Natera, Inc.

Inventor： Joshua BABIARZ ,  Tudor Pompiliu CONSTATIN ,  Lane A. EUBANK ,  George GEMELOS ,  Matthew Micah HILL ,  Huseyin Eser KIRKIZLAR ,  Matthew RABIBOWITZ ,  Onur SAKARYA ,  Styrmir SIGURJONSSON ,  Bernhard ZIMMERMANN

IPC: C12Q1/6886 ,  C12Q1/6869 ,  G06N7/01 ,  G06N20/00 ,  G16B15/00 ,  G16B20/00 ,  G16B20/10 ,  G16B20/20 ,  G16B25/00 ,  G16B25/20 ,  G16B40/00 ,  G16B40/20 ,  G16H10/40 ,  G16H50/20 ,  G16Z99/00

CPC classification number: C12Q1/6886 ,  C12Q1/6869 ,  G06N7/01 ,  G06N20/00 ,  G16B15/00 ,  G16B20/00 ,  G16B20/10 ,  G16B20/20 ,  G16B25/00 ,  G16B40/00 ,  G16B40/20 ,  G16H10/40 ,  G16H50/20 ,  G16Z99/00 ,  C12Q2539/10 ,  C12Q2600/156 ,  C12Q2600/158 ,  C12Q2600/16 ,  C12Q2600/172 ,  G16B25/20

Abstract: The invention provides methods, systems, and computer readable medium for detecting ploidy of chromosome segments or entire chromosomes, for detecting single nucleotide variants and for detecting both ploidy of chromosome segments and single nucleotide variants. In some aspects, the invention provides methods, systems, and computer readable medium for detecting cancer or a chromosomal abnormality in a gestating fetus.

公开(公告)号：US20240285200A1

公开(公告)日：2024-08-29

申请号：US18645106

申请日：2024-04-24

Applicant: THE TRUSTEES OF THE UNIVERSITY OF PENNSYLVANIA

Inventor： Abraham SHAKED ,  Bao-Li CHANG ,  Brendan KEATING ,  Toumy GUETTOUCHE

IPC: A61B5/15 ,  A61B10/00 ,  C12N15/113 ,  C12Q1/6883 ,  G16B25/00 ,  G16B25/10 ,  G16B25/20 ,  G16H50/50

CPC classification number: A61B5/15 ,  A61B10/0038 ,  A61B10/007 ,  C12N15/113 ,  C12Q1/6883 ,  G16B25/00 ,  G16B25/10 ,  G16B25/20 ,  G16H50/50 ,  A61B2010/0061 ,  C12Q2600/158 ,  C12Q2600/178

Abstract: The present invention relates to the discovery that the expression levels of some microRNAs (miRNAs) can use a diagnostic signature to predict transplant outcomes in a transplant recipient. Thus, in various embodiments described herein, the methods of the invention relate to methods of diagnosing a transplant subject for acute rejection such as acute cellular rejection (ACR), methods of predicting a subject's risk of having or developing ACR and methods of assessing in a subject the likelihood of a successful or failure minimization of immunosuppression therapy (IST) dosage from standard ranges.

公开(公告)号：US20240218450A1

公开(公告)日：2024-07-04

申请号：US18338974

申请日：2023-06-21

Applicant: Board of Regents, The University of Texas System ,  Yale University

Inventor： William fraser SYMMANS ,  Bruno SINN ,  Christos HATZIS ,  Chunxiao FU ,  Rosanna LAU

IPC: C12Q1/6886 ,  A61K31/138 ,  A61K31/4196 ,  A61K31/566 ,  A61K45/06 ,  A61P35/04 ,  G16B10/00 ,  G16B25/10 ,  G16B25/20

CPC classification number: C12Q1/6886 ,  A61K31/138 ,  A61K31/4196 ,  A61K31/566 ,  A61K45/06 ,  A61P35/04 ,  G16B10/00 ,  G16B25/10 ,  G16B25/20 ,  C12Q2600/106 ,  C12Q2600/112 ,  C12Q2600/118 ,  C12Q2600/158

Abstract: Provided herein are methods of determining tumoral sensitivity to hormonal (endocrine) therapy based upon an index of estrogen receptor (ER)- and progesterone receptor (PR)-related genes, referred to as the sensitivity to endocrine therapy index (SETER/PR index), and may have additional consideration for the proportion of ER gene (ESR1) RNA transcripts that contain a mutation relative to the value of the SETER/PR index. Further provided are methods of treating breast cancer patients determined to be sensitive to an endocrine therapy by the SETER/PR index.