公开(公告)号：US10167509B2

公开(公告)日：2019-01-01

申请号：US14848311

申请日：2015-09-08

Applicant: Bio-Rad Laboratories, Inc.

Inventor： John F. Regan ,  Serge Saxonov ,  Michael Y. Lucero ,  Benjamin J. Hindson ,  Phillip Belgrader ,  Simant Dube ,  Austin P. So ,  Jeffrey C. Mellen ,  Nicholas J. Heredia ,  Kevin D. Ness ,  Billy W. Colston, Jr.

IPC: C12Q1/68 ,  C07H21/00 ,  C12Q1/6883 ,  C12Q1/683 ,  C12Q1/6858

Abstract: Provided herein are improved methods, compositions, and kits for analysis of nucleic acids. The improved methods, compositions, and kits can enable copy number estimation of a nucleic acid in a sample. Also provided herein are methods, compositions, and kits for determining the linkage of two or more copies of a target nucleic acid in a sample (e.g. whether the two or more copies are on the same chromosome or different chromosomes) or for phasing alleles.

公开(公告)号：US11499181B2

公开(公告)日：2022-11-15

申请号：US16235996

申请日：2018-12-28

Applicant: Bio-Rad Laboratories, Inc.

Inventor： John F. Regan ,  Serge Saxonov ,  Michael Y. Lucero ,  Benjamin J. Hindson ,  Phillip Belgrader ,  Simant Dube ,  Austin P. So ,  Jeffrey C. Mellen ,  Nicholas J. Heredia ,  Kevin D. Ness ,  Billy W. Colston, Jr.

IPC: C12Q1/6858 ,  C12Q1/683 ,  C12Q1/6883 ,  C12Q1/6806 ,  C12Q1/6827 ,  C12Q1/686

Abstract: Method of haplotype analysis. In an exemplary method, an aqueous phase containing nucleic acid may be partitioned into a plurality of discrete volumes. At least one allele sequence may be amplified in the volumes from each of a first polymorphic locus and a second polymorphic locus that exhibit sequence variation in the nucleic acid. At least one measure of co-amplification of allele sequences from both loci in the same volumes may be determined. A haplotype of the first and second loci may be selected based on the at least one measure of co-amplification.

公开(公告)号：US20190241947A1

公开(公告)日：2019-08-08

申请号：US16235996

申请日：2018-12-28

Applicant: Bio-Rad Laboratories, Inc.

Inventor： John F. Regan ,  Serge Saxonov ,  Michael Y. Lucero ,  Benjamin J. Hindson ,  Phillip Belgrader ,  Simant Dube ,  Austin P. So ,  Jeffrey C. Mellen ,  Nicholas J. Heredia ,  Kevin D. Ness ,  Billy W. Colston, JR.

IPC: C12Q1/6858 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6827

CPC classification number: C12Q1/6806 ,  C12Q1/6827 ,  C12Q1/683 ,  C12Q1/6858 ,  C12Q1/686 ,  C12Q1/6883 ,  C12Q2535/125 ,  C12Q2600/158 ,  C12Q2600/172 ,  C12Q2537/16 ,  C12Q2563/159 ,  C12Q2537/165

Abstract: Method of haplotype analysis. In an exemplary method, an aqueous phase containing nucleic acid may be partitioned into a plurality of discrete volumes. At least one allele sequence may be amplified in the volumes from each of a first polymorphic locus and a second polymorphic locus that exhibit sequence variation in the nucleic acid. At least one measure of co-amplification of allele sequences from both loci in the same volumes may be determined. A haplotype of the first and second loci may be selected based on the at least one measure of co-amplification.

公开(公告)号：US20250091048A1

公开(公告)日：2025-03-20

申请号：US18888785

申请日：2024-09-18

Applicant: Bio-Rad Laboratories, Inc.

Inventor： Benjamin J. Hindson ,  Serge Saxonov ,  Phillip Belgrader ,  Kevin D. Ness ,  Michael Y. Lucero ,  Billy W. Colston, JR. ,  Shawn Paul Hodges ,  Nicholas J. Heredia ,  Jeffrey Clark Mellen ,  Camille Bodley Troup ,  Paul Wyatt

IPC: B01L3/00 ,  B01F23/41 ,  B01F25/00 ,  B01F25/23 ,  B01F33/3011 ,  B01F33/302 ,  B01F33/81 ,  B01L9/00 ,  C12Q1/686 ,  G01N35/08

Abstract: The present disclosure provides methods and compositions for detecting polynucleotides in a sample and for quantifying polynucleotide load in a sample. The polynucleotides can be associated with a disease, disorder, or condition. In some applications, methylated DNA is quantified, e.g., in order to determine the load of polynucleotides in a sample. The present disclosure also provides methods and compositions for determining the load of fetal polynucleotides in a biological sample, e.g., the load of fetal polynucleotides (e.g., DNA, RNA) in maternal plasma. The present disclosure provides methods and compositions for detecting cellular processes such as cellular viability, growth rates, and infection rates. This disclosure also provides compositions and methods for detecting differences in copy number of a target polynucleotide. In some embodiments, the methods and compositions provided herein are useful for diagnosis of fetal genetic abnormalities, when the starting sample is maternal tissue (e.g., blood, plasma). The methods and materials described apply techniques for allowing detection of small, but statistically significant, differences in polynucleotide copy number.

公开(公告)号：US12097495B2

公开(公告)日：2024-09-24

申请号：US17750195

申请日：2022-05-20

Applicant: Bio-Rad Laboratories, Inc.

Inventor： Benjamin J. Hindson ,  Serge Saxonov ,  Phillip Belgrader ,  Kevin D. Ness ,  Michael Y. Lucero ,  Billy W. Colston, Jr. ,  Shawn Paul Hodges ,  Nicholas J. Heredia ,  Jeffrey Clark Mellen ,  Camille Bodley Troup ,  Paul Wyatt

IPC: B01L3/00 ,  B01F23/41 ,  B01F33/3011 ,  B01F33/81 ,  B01L9/00 ,  C12Q1/686 ,  B01F25/00 ,  B01F25/23 ,  B01F33/302 ,  G01N35/08

CPC classification number: B01L3/50273 ,  B01F23/41 ,  B01F33/3011 ,  B01F33/813 ,  B01L3/502 ,  B01L3/502784 ,  B01L3/52 ,  B01L9/527 ,  C12Q1/686 ,  B01F25/14 ,  B01F25/23 ,  B01F33/3021 ,  B01L3/502761 ,  B01L2200/025 ,  B01L2200/0636 ,  B01L2200/0647 ,  B01L2200/0673 ,  B01L2200/14 ,  B01L2200/16 ,  B01L2300/0609 ,  B01L2300/0681 ,  B01L2300/0816 ,  B01L2300/0829 ,  B01L2300/0861 ,  B01L2400/049 ,  G01N35/08

Abstract: The present disclosure provides methods and compositions for detecting polynucleotides in a sample and for quantifying polynucleotide load in a sample. The polynucleotides can be associated with a disease, disorder, or condition. In some applications, methylated DNA is quantified, e.g., in order to determine the load of polynucleotides in a sample. The present disclosure also provides methods and compositions for determining the load of fetal polynucleotides in a biological sample, e.g., the load of fetal polynucleotides (e.g., DNA, RNA) in maternal plasma. The present disclosure provides methods and compositions for detecting cellular processes such as cellular viability, growth rates, and infection rates. This disclosure also provides compositions and methods for detecting differences in copy number of a target polynucleotide. In some embodiments, the methods and compositions provided herein are useful for diagnosis of fetal genetic abnormalities, when the starting sample is maternal tissue (e.g., blood, plasma). The methods and materials described apply techniques for allowing detection of small, but statistically significant, differences in polynucleotide copy number.

公开(公告)号：US11118156B2

公开(公告)日：2021-09-14

申请号：US16140171

申请日：2018-09-24

Applicant: AKONNI BIOSYSTEMS, INC. ,  BIO-RAD LABORATORIES, INC.

Inventor： Phillip Belgrader ,  Benjamin Hindson

IPC: C12M1/00 ,  C12N1/06 ,  C12N13/00 ,  C12Q1/6806 ,  C12N1/20

Abstract: A method for lysing cells is disclosed. The method includes stirring cells with a magnetic stir element in the presence of a plurality of cell lysis beads at a speed sufficient to lyse the cells. Also disclosed is a device for lysing cells. The device includes a container having a magnetic stir element and a plurality of cell lysis beads disposed therein. The container is dimensioned to allow rotation of the magnetic stir element inside the container.

公开(公告)号：US12162008B2

公开(公告)日：2024-12-10

申请号：US17486667

申请日：2021-09-27

Applicant: Bio-Rad Laboratories, Inc.

Inventor： Billy Wayne Colston, Jr. ,  Benjamin Joseph Hindson ,  Kevin Dean Ness ,  Donald Arthur Masquelier ,  Fred Paul Milanovich ,  Douglas N. Modlin ,  Vincent Riot ,  Samuel Burd ,  Anthony Joseph Makarewicz, Jr. ,  Phillip Belgrader

IPC: B01L3/00 ,  B01F23/41 ,  B01F33/3011 ,  B01F33/81 ,  B01L9/00 ,  C12Q1/686 ,  B01F25/00 ,  B01F25/23 ,  B01F33/302 ,  G01N35/08

Abstract: Methods of partition-based analysis. In an exemplary method, a device having a port fluidically connected to a chamber may be selected. A sample-containing fluid may be placed into the port. The sample-containing fluid may be moved from the port to the chamber. Partitions of the sample-containing fluid may be formed. A monolayer of the partitions in the chamber may be created. At least a portion of the monolayer may be imaged.

公开(公告)号：US20160076099A1

公开(公告)日：2016-03-17

申请号：US14848311

申请日：2015-09-08

Applicant: Bio-Rad Laboratories, Inc.

Inventor： John F. Regan ,  Serge Saxonov ,  Michael Y. Lucero ,  Benjamin J. Hindson ,  Phillip Belgrader ,  Simant Dube ,  Austin P. So ,  Jeffrey C. Mellen ,  Nicholas J. Heredia ,  Kevin D. Ness ,  Billy W. Colston, Jr.

IPC: C12Q1/68

CPC classification number: C12Q1/6883 ,  C12Q1/683 ,  C12Q1/6858 ,  C12Q2600/158 ,  C12Q2600/172 ,  C12Q2537/16 ,  C12Q2563/159 ,  C12Q2537/165

Abstract: Provided herein are improved methods, compositions, and kits for analysis of nucleic acids. The improved methods, compositions, and kits can enable copy number estimation of a nucleic acid in a sample. Also provided herein are methods, compositions, and kits for determining the linkage of two or more copies of a target nucleic acid in a sample (e.g. whether the two or more copies are on the same chromosome or different chromosomes) or for phasing alleles.

Abstract translation: 本文提供了用于分析核酸的改进的方法，组合物和试剂盒。 改进的方法，组合物和试剂盒可以使得样品中核酸的拷贝数估计可以进行。 本文还提供了用于确定样品中靶核酸的两个或多个拷贝（例如两个或多个拷贝是在同一染色体上还是在不同染色体上）或用于定相等位基因的连接的方法，组合物和试剂盒。