公开(公告)号：US20240158857A1

公开(公告)日：2024-05-16

申请号：US18419406

申请日：2024-01-22

申请人： Aqtual, Inc.

发明人： Diana Abdueva

IPC分类号： C12Q1/6883 ,  C12Q1/6869

CPC分类号： C12Q1/6883 ,  C12Q1/6869 ,  C12Q2600/158

摘要： The present disclosure provides methods and systems for various uses of cell-free nucleic acid (cfNA). Functional typing of cfNA fragmentation patterns may be utilized in the non-invasive detection, diagnosis, and monitoring of disease. One embodiment may determine a stage of cancer in a subject, the progression of cancer in a subject, or the responsiveness to treatment of a cancer in a subject. Another embodiment disclosed herein may include sequencing-free diagnostic methods.

公开(公告)号：US20240158845A1

公开(公告)日：2024-05-16

申请号：US18413603

申请日：2024-01-16

申请人： Singular Genomics Systems, Inc.

发明人： Daan WITTERS ,  Eli N. GLEZER ,  Allen LIPSON

IPC分类号： C12Q1/6869 ,  C12Q1/6834

CPC分类号： C12Q1/6869 ,  C12Q1/6834

摘要： Disclosed herein, inter alia, are substrates, kits, and efficient methods of preparing and sequencing two or more regions of a double-stranded polynucleotide.

公开(公告)号：US20240158640A1

公开(公告)日：2024-05-16

申请号：US18423259

申请日：2024-01-25

申请人： Pacific Biosciences of California, Inc.

发明人： Lubomir SEBO ,  Honey OSUNA ,  Stephen YUE ,  Yuri LAPIN

IPC分类号： C09B69/10 ,  C07D495/04 ,  C07H19/10 ,  C07H19/207 ,  C12Q1/6869 ,  G01N21/64

CPC分类号： C09B69/105 ,  C07D495/04 ,  C07H19/10 ,  C07H19/207 ,  C12Q1/6869 ,  G01N21/6428 ,  G01N2021/6439

摘要： Labeled nucleotide analogs comprising at least one avidin protein, at least one dye-labeled compound, and at least one nucleotide compound are provided. The analogs are useful in various fluorescence-based analytical methods, including the analysis of highly multiplexed optical reactions in large numbers at high densities, such as single molecule real time nucleic acid sequencing reactions. The analogs are detectable with high sensitivity at desirable wavelengths. They contain structural components that modulate the interactions of the analogs with DNA polymerase, thus decreasing photodamage and improving the kinetic and other properties of the analogs in sequencing reactions. Also provided are nucleotide and dye-labeled compounds of the subject analogs, as well as intermediates useful in the preparation of the compounds and analogs. Compositions comprising the compounds, methods of synthesis of the intermediates, compounds, and analogs, and mutant DNA polymerases are also provided.

公开(公告)号：US11984198B2

公开(公告)日：2024-05-14

申请号：US18152118

申请日：2023-01-09

申请人： SHARECARE AI, INC.

发明人： Geert Trooskens ,  Wim Maria R. Van Criekinge

IPC分类号： G16B30/00 ,  C12Q1/6827 ,  C12Q1/6869 ,  G06F16/22 ,  G06F17/18 ,  G16B5/00 ,  G16B10/00 ,  G16B20/00 ,  G16B20/20 ,  G16B20/40 ,  G16B40/00 ,  G16B40/10 ,  G16B40/30 ,  G16B45/00 ,  G16B50/00 ,  H04L9/32

CPC分类号： G16B30/00 ,  C12Q1/6827 ,  C12Q1/6869 ,  G06F16/2255 ,  G06F17/18 ,  G16B5/00 ,  G16B10/00 ,  G16B20/20 ,  G16B20/40 ,  G16B40/00 ,  G16B40/10 ,  G16B45/00 ,  G16B50/00

摘要： First and second sequenced outputs are accessed. The sequenced outputs contain variants occurring at different carriers and at different carrier positions. Hashes are generated over a selected pattern length of positions for those carrier positions that are shared between the sequenced outputs to produce window hashes for base patterns in first and second sequences. Each sequence is based on the shared carrier positions and the respective sequenced output. The window hashes are non-unique. Window hashes that occur less than a ceiling number times are selected. The selected window hashes are compared between the sequences on a starting position basis such that selected window hashes for base patterns having same start positions in the sequenced outputs are compared. Common window hashes are identified between the sequences based on the comparing. A similarity measure is determined between the sequences based on the common window hashes.

公开(公告)号：US20240150828A1

公开(公告)日：2024-05-09

申请号：US18534929

申请日：2023-12-11

申请人： Verinata Health, Inc.

发明人： Richard P. Rava ,  Manjula Chinnappa ,  David A. Comstock ,  Gabrielle Heilek ,  Brian Kent Rhees

IPC分类号： C12Q1/6869 ,  C12Q1/6806 ,  C12Q1/6809 ,  G16B20/10 ,  G16B30/10 ,  G16H10/40

CPC分类号： C12Q1/6869 ,  C12Q1/6806 ,  C12Q1/6809 ,  G16B20/10 ,  G16B30/10 ,  G16H10/40 ,  C12Q1/6883

摘要： The invention provides methods for determining aneuploidy and/or fetal fraction in maternal samples comprising fotal and matemal cfDNA by massively parallel sequencing. The method comprises a novel protocol for prepering sequencing libraries that unexpectedly improves the quality of library DNA while expediting the process of analysis of samples for prenatal diagnoses.

公开(公告)号：US20240150825A1

公开(公告)日：2024-05-09

申请号：US18280588

申请日：2022-03-08

申请人： Claret Bioscience, LLC

发明人： Charles VASKE

IPC分类号： C12Q1/6869 ,  G16B30/00

CPC分类号： C12Q1/6869 ,  G16B30/00

摘要： The technology relates in part to methods and compositions for analyzing nucleic acid. In some aspects, the technology relates to methods and compositions for preparing a nucleic acid library from single-stranded nucleic acid fragments. In some aspects, the technology relates to methods and compositions for analyzing a nucleic acid fragment length profile in a sample.

公开(公告)号：US20240150824A1

公开(公告)日：2024-05-09

申请号：US18041348

申请日：2021-08-09

申请人： Roche Sequencing Solutions, Inc.

发明人： Aruna Ayer ,  Frank Bergmann ,  Peter Crisalli ,  Lars Hillringhaus ,  Omid Khakshoor ,  Hannes Kuchelmeister ,  Rongxin Nie ,  Marshall W. Porter ,  Christoph Seidel ,  Seong-Ho Shin ,  Meng Taing ,  Adolfo Vargas

IPC分类号： C12Q1/6869 ,  B01L3/00 ,  C12Q1/6876

CPC分类号： C12Q1/6869 ,  B01L3/50273 ,  C12Q1/6876 ,  B01L2200/0694 ,  B01L2200/16 ,  B01L2300/0645 ,  B01L2400/0418

摘要： The present disclosure relates to tagged nucleoside-5′-oligophosphates having a positively charged polymer tag structure and components thereof. Such nucleoside-5′-oligophosphates are useful, for example, in nanopore-based sequencing-by-synthesis applications. Also disclosed herein are nanopore constructs engineered to have additional negatively-charged moieties in the channel of the nanopore. Such nanopores can be useful, for example, for providing a repellant force against template and/or primer nucleic acids inserting into the pore during a nucleic sequence-by-synthesis process. The tagged nucleoside-5′-oligophosphates and nanopores disclosed herein can be used together to provide nanopore-based nucleic acid sequencing-by-synthesis systems and processes having reduced background tag levels and improved throughput.

公开(公告)号：US11970786B2

公开(公告)日：2024-04-30

申请号：US16277757

申请日：2019-02-15

申请人： BIOO Scientific Corporation

发明人： Shannon Piehl ,  Josh Kinman

IPC分类号： C40B40/08 ,  C12Q1/6869 ,  C40B20/04 ,  C40B30/00 ,  C12Q1/686

CPC分类号： C40B40/08 ,  C12Q1/6869 ,  C40B20/04 ,  C40B30/00 ,  C12Q1/686

摘要： The disclosed methods and kits are useful in processing and analyzing a multiplicity of samples in molecular biology workflows where there is an increased chance for sample cross-contamination or misidentification. Some embodiments of the methods and kits utilize at least one spike in control and at least one barcode per sample.

公开(公告)号：US20240132949A1

公开(公告)日：2024-04-25

申请号：US18372695

申请日：2023-09-24

申请人： Guangzhou SequMed Biology Technology Co., Ltd.

发明人： Xinghua Pan ,  Liyao Mai ,  Zhiwei Lian

IPC分类号： C12Q1/6869 ,  C12Q1/44 ,  C12Q1/48 ,  C12Q1/6806 ,  C12Q1/686

CPC分类号： C12Q1/6869 ,  C12Q1/44 ,  C12Q1/485 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q2600/154 ,  C12Y207/07

摘要： Disclosed is a set of adhesive adapters containing sample barcodes for specifically tagging different samples. Further disclosed is a method for simultaneously detecting CpG methylation in a high number of samples, which is multi-sample reduced-representation bisulfite sequencing (msRRBS); and an alternative method thereof, which is multi-sample reduced-representation APOBEC sequencing (msRRAS). The adapters are used to specifically tag the plurality of samples, including all DNA fragments of the plurality of samples; then the plurality of samples are pooled to allow a single-tube reaction of the plurality of samples; and then the subsequent conversion, sequencing library construction and sequencing, distribution and decoding of readings of each sample, and downstream analysis are conducted. The library construction technology of the present application has advantages such as high efficiency, low cost, and stable and convenient operations.

公开(公告)号：US20240132947A1

公开(公告)日：2024-04-25

申请号：US18047966

申请日：2022-10-18

申请人： DNAalgo S.r.l.

发明人： Thomas Chiozzi ,  Lorenzo Zuolo ,  Alessia Marelli ,  Rino Micheloni

IPC分类号： C12Q1/6869 ,  C12Q1/6844

CPC分类号： C12Q1/6869 ,  C12Q1/6844

摘要： A method for clustering nucleotide strings of DNA strand replicas in clusters, comprising, for each pair of a first nucleotide string and a second nucleotide string, carrying out: arranging a matrix wherein each matrix element corresponds to a selected nucleotide in the first nucleotide string and to a further selected nucleotide in the second nucleotide string and is configured to store a calculated edit value indicative of an edit distance; progressively filling the matrix by storing calculated edit values; if the edit value calculated for a matrix element belonging to an output diagonal of the matrix is not lower than a cluster threshold, stopping said progressively filling and placing said first and second nucleotide strings in two different clusters, said output diagonal comprising the matrix element corresponding to the last column and the last row of the matrix.