公开(公告)号：AU2021209101A1

公开(公告)日：2022-08-18

申请号：AU2021209101

申请日：2021-01-15

Applicant: JUMPCODE GENOMICS INC

Inventor： BROWN KEITH

IPC: C12Q1/6806 ,  C12Q1/6853 ,  C12Q1/6876

Abstract: Provided herein are methods and compositions for creating a sequencing library comprising a target nucleic acid. Methods herein can comprise: contacting a nucleic acid sample to a first population of primers, a polymerase, dNTPs, and labeled ddNTPs; performing an extension reaction thereby creating an labeled extension product; contacting the extension product to a second population of primers to create a double stranded extension product comprising the target nucleic acid; contacting the double stranded extension product to a target specific enzyme under conditions allowing cleavage of at least a subset of the double stranded extension product thereby creating a cleaved target nucleic acid; and isolating the cleaved target nucleic acid.

公开(公告)号：AU2021240134A1

公开(公告)日：2021-10-28

申请号：AU2021240134

申请日：2021-09-28

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.

公开(公告)号：AU2017217868A1

公开(公告)日：2018-08-23

申请号：AU2017217868

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：US20250163407A1

公开(公告)日：2025-05-22

申请号：US18834794

申请日：2023-02-02

Applicant: Jumpcode Genomics, Inc.

Inventor： Keith BROWN

IPC: C12N15/10 ,  C12Q1/44 ,  C12Q1/6806 ,  C12Q1/6809 ,  C12Q1/6811 ,  C12Q1/6813

Abstract: Provided herein are methods and compositions for a simplified and cost effective method for removing unwanted nucleic acids from a sample using RNase H.

公开(公告)号：US20220145359A1

公开(公告)日：2022-05-12

申请号：US17430102

申请日：2020-02-11

Applicant: JUMPCODE GENOMICS, INC.

Inventor： Keith BROWN

IPC: C12Q1/6806 ,  C12N9/22 ,  C12N15/11 ,  C12N15/10

Abstract: Disclosed herein are compositions and methods related to the 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：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：WO2021081403A1

公开(公告)日：2021-04-29

申请号：PCT/US2020/057163

申请日：2020-10-23

Applicant: JUMPCODE GENOMICS, INC.

Inventor： BROWN, Keith

IPC: C40B40/08 ,  A61K31/70 ,  A61K38/45 ,  A61P43/00 ,  C12Q1/68

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.

公开(公告)号：WO2020167795A1

公开(公告)日：2020-08-20

申请号：PCT/US2020/017707

申请日：2020-02-11

Applicant: JUMPCODE GENOMICS, INC.

Inventor： BROWN, Keith

IPC: C12N9/22 ,  C12Q1/68 ,  C12Q1/6806

Abstract: Disclosed herein are compositions and methods related to the 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：WO2021146601A1

公开(公告)日：2021-07-22

申请号：PCT/US2021/013701

申请日：2021-01-15

Applicant: JUMPCODE GENOMICS, INC.

Inventor： BROWN, Keith

IPC: C12Q1/68 ,  C40B40/08 ,  C12N15/11 ,  C12N9/22 ,  C12N15/10

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.