公开(公告)号：US10968536B2

公开(公告)日：2021-04-06

申请号：US15553495

申请日：2016-02-25

Applicant: JumpCode Genomics, Inc. ,  The Scripps Research Institute

Inventor： Keith Brown ,  Daniel R. Salomon ,  Steven Head ,  Azeem Siddique ,  Phillip Ordoukhanian

IPC: C40B40/08 ,  C12N15/10

Abstract: Methods, compositions and kits are provided herein for insertional modification of nucleic acids by, for example transposase-mediated covalent insertion of insertion sequence into a sample nucleic acid molecule. Using sequence of the insertion to direct amplification of adjacent nucleic acid sequence, and using bar codes to map amplified sequence to partitions, one can map sample nucleic acid sequence to single molecules of the nucleic acid sample that are derived directly from the sample nucleic acid molecule.

公开(公告)号：US20210164128A1

公开(公告)日：2021-06-03

申请号：US17172029

申请日：2021-02-09

Applicant: JumpCode Genomics, Inc. ,  The Scripps Research Institute

Inventor： Keith Brown ,  Daniel R. Salomon ,  Steven Head ,  Azeem Siddique ,  Phillip Ordoukhanian

IPC: C40B40/08 ,  C12N15/10

Abstract: Methods, compositions and kits are provided herein for insertional modification of nucleic acids by, for example transposase-mediated covalent insertion of insertion sequence into a sample nucleic acid molecule. Using sequence of the insertion to direct amplification of adjacent nucleic acid sequence, and using bar codes to map amplified sequence to partitions, one can map sample nucleic acid sequence to single molecules of the nucleic acid sample that are derived directly from the sample nucleic acid molecule.

公开(公告)号：US10604802B2

公开(公告)日：2020-03-31

申请号：US15116404

申请日：2015-02-03

Applicant: JumpCode Genomics, Inc.

Inventor： Keith Brown ,  Peter Dansky

IPC: C12Q1/68 ,  C12N15/10 ,  C12Q1/6874 ,  C12Q1/6811

Abstract: Disclosed herein are compositions and methods related to the elimination of molecules of a selected sequence from a nucleic acid sample or from an sequence dataset resulting from the sequencing of a sample, for example to exclude such molecules from downstream analysis or sequencing, or to exclude such sequences from a downstream data set.

公开(公告)号：US20230193401A1

公开(公告)日：2023-06-22

申请号：US18112239

申请日：2023-02-21

Applicant: Jumpcode Genomics, Inc.

Inventor： Keith Brown

IPC: C12Q1/6886 ,  A61K49/00 ,  C12Q1/6869 ,  G16H15/00 ,  C12Q1/6809 ,  C12Q1/6883 ,  A61K31/7072 ,  A61K31/7056 ,  A61K38/45 ,  C12Q1/6876

CPC classification number: C12Q1/6886 ,  A61K31/7056 ,  A61K31/7072 ,  A61K38/45 ,  A61K49/0054 ,  C12Q1/6809 ,  C12Q1/6869 ,  C12Q1/6876 ,  C12Q1/6883 ,  C12Y201/01 ,  G16H15/00 ,  C12Q2600/106 ,  C12Q2600/112 ,  C12Q2600/156 ,  C12Q2600/178 ,  Y02A90/10

Abstract: Methods and compositions related to the use of Mobile Element Insertions and their adjacent genomic sequences. Methods using MEIs as markers for cellular proliferation, as targets for pharmaceuticals, as markers for tissue fingerprinting and in related methods and compositions are disclosed herein. Methods and compositions relate to the detection, treatment and ongoing monitoring of cell proliferation events, cancer, and deleterious effects of mobile elements in aging, and to the selection, use and monitoring of the success of treatment regimens to address these conditions.

公开(公告)号：US11761039B2

公开(公告)日：2023-09-19

申请号：US17506431

申请日：2021-10-20

Applicant: JumpCode Genomics, Inc.

Inventor： Keith Brown ,  Peter Dansky

IPC: C12Q1/6874 ,  C12Q1/6811 ,  C12Q1/68 ,  C12N15/10

CPC classification number: C12Q1/6874 ,  C12N15/1093 ,  C12Q1/68 ,  C12Q1/6811 ,  C12Q1/6811 ,  C12Q2521/301 ,  C12Q2535/122

Abstract: Disclosed herein are compositions and methods related to the elimination of molecules of a selected sequence from a nucleic acid sample or from an sequence dataset resulting from the sequencing of a sample, for example to exclude such molecules from downstream analysis or sequencing, or to exclude such sequences from a downstream data set.

公开(公告)号：US11339427B2

公开(公告)日：2022-05-24

申请号：US16101083

申请日：2018-08-10

Applicant: JumpCode Genomics, Inc.

Inventor： Keith Brown

IPC: C12Q1/6869 ,  C12Q1/6865

Abstract: Disclosed herein are methods of long range target specific amplification and sequencing using an RNA intermediate synthesized directly from the target including using hairpin adaptors having a double stranded promoter and an overhang which hybridizes with a reverse-complementary overhang on a target nucleic acid. RNA transcription eliminates clonal amplification of early synthesis errors. Approaches allow for the identification of target-adjacent sequence, such as sequence adjacent to a repeat element target. Also disclosed herein are compositions and kits for amplification and sequencing.

公开(公告)号：US20190153528A1

公开(公告)日：2019-05-23

申请号：US16101083

申请日：2018-08-10

Applicant: JumpCode Genomics, Inc.

Inventor： Keith Brown

IPC: C12Q1/6869

Abstract: Disclosed herein are methods of long range target specific amplification and sequencing using an RNA intermediate synthesized directly from the target including using hairpin adaptors having a double stranded promoter and an overhang which hybridizes with a reverse-complementary overhang on a target nucleic acid. RNA transcription eliminates clonal amplification of early synthesis errors. Approaches allow for the identification of target-adjacent sequence, such as sequence adjacent to a repeat element target. Also disclosed herein are compositions and kits for amplification and sequencing.

公开(公告)号：US20240035086A1

公开(公告)日：2024-02-01

申请号：US18446208

申请日：2023-08-08

Applicant: JumpCode Genomics, Inc.

Inventor： Keith Brown ,  Peter Dansky

IPC: C12Q1/6874 ,  C12Q1/6811 ,  C12Q1/68 ,  C12N15/10

CPC classification number: C12Q1/6874 ,  C12Q1/6811 ,  C12Q1/68 ,  C12N15/1093

Abstract: Disclosed herein are compositions and methods related to the elimination of molecules of a selected sequence from a nucleic acid sample or from an sequence dataset resulting from the sequencing of a sample, for example to exclude such molecules from downstream analysis or sequencing, or to exclude such sequences from a downstream data set.

公开(公告)号：US11708606B2

公开(公告)日：2023-07-25

申请号：US16793908

申请日：2020-02-18

Applicant: JumpCode Genomics, Inc.

Inventor： Keith Brown ,  Peter Dansky

IPC: C12Q1/6874 ,  C12N15/10 ,  C12Q1/6811 ,  C12Q1/68

CPC classification number: C12Q1/6874 ,  C12N15/1093 ,  C12Q1/68 ,  C12Q1/6811 ,  C12Q1/6811 ,  C12Q2521/301 ,  C12Q2535/122

Abstract: Disclosed herein are compositions and methods related to the elimination of molecules of a selected sequence from a nucleic acid sample or from an sequence dataset resulting from the sequencing of a sample, for example to exclude such molecules from downstream analysis or sequencing, or to exclude such sequences from a downstream data set.

公开(公告)号：US20220403447A1

公开(公告)日：2022-12-22

申请号：US17770807

申请日：2020-10-23

Applicant: JumpCode Genomics, Inc.

Inventor： Keith Brown

IPC: C12Q1/6806 ,  C12Q1/6869 ,  C12Q1/6883

Abstract: Provided are methods for preparing samples for sequencing. Also provided are methods for sequence analysis. Also provided are methods for classifying multiple aspects of a nucleotide repeat expansion disorder in a single sequencing assay. Also provided are methods for genotyping a target nucleic acid sequence.