公开(公告)号：CA3155651A1

公开(公告)日：2021-04-01

申请号：CA3155651

申请日：2020-09-25

Applicant: JUMPCODE GENOMICS INC

Inventor： BROWN KEITH

IPC: C12Q1/6869 ,  C12N15/09 ,  C12N15/10 ,  C12N15/113

Abstract: Disclosed herein are methods, compositions, and systems that utilize the consensus sequencing of rolling circle amplified short templates. Methods of determining a nucleic acid sequence can include one or more steps of contacting a nucleic acid in a sample to an endonuclease to cleave a target nucleic acid; ligating the target nucleic acid sequence to form a circular target nucleic acid; hybridizing at least one primer to the circular target molecule to form amplified nucleic acid through rolling circle amplification; and performing sequence analysis of the amplified nucleic acid.

公开(公告)号：CA3013932A1

公开(公告)日：2017-08-17

申请号：CA3013932

申请日：2017-02-10

Applicant: JUMPCODE GENOMICS INC

Inventor： BROWN KEITH

IPC: C12Q1/68 ,  C12N15/10

Abstract: Disclosed herein are methods of long range target specific amplification and sequencing using an RNA intermediate synthesized directly from the target to eliminate 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：US20230122979A1

公开(公告)日：2023-04-20

申请号：US17758659

申请日：2021-01-15

Applicant: JUMPCODE GENOMICS, INC.

Inventor： Keith BROWN

IPC: C12N15/10 ,  C12N9/16 ,  C12Q1/37 ,  C12Q1/6806

Abstract: Provided herein are methods of normalizing a population of nucleic acid samples. Methods herein can comprise: contacting a plurality of nucleic acid samples to a normalizing agent, wherein each nucleic acid of the plurality comprises a sample-specific barcode, and wherein the normalizing agent comprises a plurality of labeled enzymes capable of binding to each sample specific barcode; contacting the product to a capture agent to capture the nucleic acids that are bound to the normalizing agent; and treating the product with a protease to release the bound nucleic acids, thereby creating a normalized library having more even representation of each nucleic acid sample than the plurality of nucleic acid samples before normalization.

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：US20250084484A1

公开(公告)日：2025-03-13

申请号：US18728252

申请日：2023-01-10

Applicant: Jumpcode Genomics, Inc.

Inventor： Keith BROWN

IPC: C12Q1/6886 ,  C12Q1/6855

Abstract: Provided herein are methods and compositions for analysis of a transcriptome, for example detection of a RNA isoform, of a cell, tissue, organ, or subject.

公开(公告)号：US20240182951A1

公开(公告)日：2024-06-06

申请号：US18553167

申请日：2022-03-30

Applicant: Jumpcode Genomics, Inc.

Inventor： Keith BROWN ,  Jon ARMSTRONG ,  Azeem SIDDIQUE

IPC: C12Q1/6816 ,  C12Q1/44 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6886

CPC classification number: C12Q1/6816 ,  C12Q1/44 ,  C12Q1/6806 ,  C12Q1/686 ,  C12Q1/6886

Abstract: Disclosed herein are compositions and methods related to the detection and/or elimination of a first nucleic acid and enrichment of a second nucleic acid in a sample, for example to exclude the first nucleic acid 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：ES2894048T3

公开(公告)日：2022-02-11

申请号：ES15754498

申请日：2015-02-27

Applicant: JUMPCODE GENOMICS INC

Inventor： BROWN KEITH

IPC: A61K38/45 ,  A61P43/00 ,  C12Q1/6809 ,  C12Q1/6869 ,  C12Q1/6886 ,  G16H15/00

Abstract: Un procedimiento de monitoreo de inserción de elementos móviles (IEM) que comprende las etapas de (a) obtener información de la secuencia del genoma por secuenciación del ADN de una muestra biológica que comprende un ácido nucleico tumoral de un individuo en un primer momento, donde la información de la secuencia del genoma comprende una pluralidad de bordes de inserción de IEM; (b) revisar la pluralidad de bordes de inserción de IEM para identificar al menos un borde de IEM adyacente a un oncogén; y (c) monitorear una abundancia cuantitativa del al menos un borde de IEM adyacente al oncogén a lo largo del tiempo, donde (d) el monitoreo de la abundancia cuantitativa del al menos un borde de IEM adyacente al oncogén en el transcurso del tiempo comprende obtener una primera muestra de sangre en el primer momento, determinar la abundancia cuantitativa del al menos un borde de IEM en la primera muestra de sangre en el primer momento, obtener una segunda muestra de sangre en un segundo momento, y determinar la abundancia cuantitativa del al menos un borde de IEM en la segunda muestra de sangre en el segundo momento, o donde (e) dicho monitoreo de la abundancia cuantitativa del al menos un borde de IEM adyacente al oncogén en el transcurso del tiempo comprende emplear una muestra de ácido nucleico de una primera muestra de tejido obtenida en un primer momento, determinar la abundancia cuantitativa del al menos un borde de IEM en la primera muestra de ácido nucleico en el primer momento, emplear una segunda muestra de ácido nucleico de una segunda muestra de tejido obtenida en un segundo momento, y determinar la abundancia cuantitativa del al menos un borde de IEM en la segunda muestra de ácido nucleico en el segundo momento.

公开(公告)号：DK3110975T3

公开(公告)日：2021-10-11

申请号：DK15754498

申请日：2015-02-27

Applicant: JUMPCODE GENOMICS INC

Inventor： BROWN KEITH

IPC: A61K38/45 ,  A61P43/00 ,  C12Q1/6809 ,  C12Q1/6869 ,  C12Q1/6886 ,  G16H15/00

公开(公告)号：AU2015222802B2

公开(公告)日：2021-07-01

申请号：AU2015222802

申请日：2015-02-27

Applicant: JUMPCODE GENOMICS INC

Inventor： BROWN KEITH

IPC: C12Q1/68

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.