公开(公告)号：US20230296592A1

公开(公告)日：2023-09-21

申请号：US18202246

申请日：2023-05-25

Applicant: Element Biosciences, Inc.

Inventor： Michael PREVITE ,  Molly HE ,  Junhua ZHAO ,  Hui Zhen MAH ,  Chunhong ZHOU ,  Sinan ARSLAN ,  Matthew KELLINGER ,  Lorenzo BERTI ,  Steve Xiangling CHEN

IPC: G01N33/53 ,  C12Q1/6874 ,  G01N33/58

CPC classification number: G01N33/5308 ,  C12Q1/6874 ,  G01N33/582

Abstract: Multivalent binding compositions including a particle-nucleotide conjugate having a plurality of copies of a nucleotide attached to the particle are described. The multivalent binding compositions allow one to localize detectable signals to active regions of biochemical interaction, e.g., sites of protein-protein interaction, protein-nucleic acid interaction, nucleic acid hybridization, or enzymatic reaction, and can be used to identify sites of base incorporation in elongating nucleic acid chains during polymerase reactions and to provide improved base discrimination for sequencing and array based applications.

公开(公告)号：US20230038526A1

公开(公告)日：2023-02-09

申请号：US17695494

申请日：2022-03-15

Applicant: Element Biosciences, Inc.

Inventor： Sinan ARSLAN ,  Molly HE ,  Michael PREVITE

IPC: C12Q1/6834 ,  C12Q1/6832 ,  B01J19/00 ,  C12Q1/6806

Abstract: Nucleic acid hybridization buffer formulations and uses thereof are described that yield improvements in hybridization specificity, rate, and efficiency. The buffer formulation composition includes a target nucleic acid; at least one organic solvent having a dielectric constant in the range of no greater than 115; and a pH buffer system, wherein the target nucleic acid is attached to the surface via hybridization to a surface bound nucleic acid tethered to the surface, and wherein the hybridization of the target nucleic acid and surface bound nucleic acid has a high stringency and annealing rate.

公开(公告)号：US20220403463A1

公开(公告)日：2022-12-22

申请号：US17377279

申请日：2021-07-15

Applicant: Element Biosciences, Inc.

Inventor： Sinan ARSLAN ,  Junhua ZHAO ,  Molly HE ,  Samantha SNOW ,  William LIGHT ,  Matthew KELLINGER ,  Michael PREVITE ,  Michael KIM ,  Hua YU ,  Yu-Hsien HWANG-FU ,  Marco TJIOE ,  Andrew BODDICKER

IPC: C12Q1/6874

Abstract: The present disclosure provides compositions and methods that employ the compositions for conducting pairwise sequencing and for generating concatemer template molecules for pairwise sequencing. The concatemers can be generated using a rolling circle amplification reaction which is conducted either on-support, or conducted in-solution and then distributed onto a support. The rolling circle amplification reaction generates concatemers containing tandem copies of a sequence of interest and at least one universal adaptor sequence. An increase in the number of tandem copies in a given concatemer increases the number of sites along the concatemer for hybridizing to multiple sequencing primers which serve as multiple initiation sites for polymerase-catalyzed sequencing reactions. When the sequencing reaction employs detectably labeled nucleotides and/or detectably labeled multivalent molecules (e.g., having nucleotide units), the signals emitted by the nucleotides or nucleotide units that participate in the parallel sequencing reactions along the concatemer yields an increased signal intensity for each concatemer.

公开(公告)号：US20230392201A1

公开(公告)日：2023-12-07

申请号：US18330279

申请日：2023-06-06

Applicant: Element Biosciences, Inc.

Inventor： James A. STAPLETON ,  Timothy WHITEHEAD ,  Michael PREVITE ,  Molly HE ,  Tuval BEN-YEHEZKEL ,  Matthew KELLINGER ,  Kyle METCALFE

IPC: C12Q1/6869 ,  C12Q1/686 ,  C12N15/10 ,  C12Q1/6813

CPC classification number: C12Q1/6869 ,  C12Q1/686 ,  C12N15/1065 ,  C12Q1/6813

Abstract: The disclosure relates to methods for obtaining nucleic acid sequence information by constructing a nucleic acid library and reconstructing longer nucleic acid sequences by assembling a series of shorter nucleic acid sequences.

公开(公告)号：US20230296593A1

公开(公告)日：2023-09-21

申请号：US18202247

申请日：2023-05-25

Applicant: Element Biosciences, Inc.

Inventor： Michael PREVITE ,  Molly HE ,  Junhua ZHAO ,  Hui Zhen MAH ,  Chunhong ZHOU ,  Sinan ARSLAN ,  Matthew KELLINGER ,  Lorenzo BERTI ,  Steve Xiangling CHEN

IPC: G01N33/53 ,  C12Q1/6874 ,  G01N33/58

CPC classification number: G01N33/5308 ,  C12Q1/6874 ,  G01N33/582

Abstract: Multivalent binding compositions including a particle-nucleotide conjugate having a plurality of copies of a nucleotide attached to the particle are described. The multivalent binding compositions allow one to localize detectable signals to active regions of biochemical interaction, e.g., sites of protein-protein interaction, protein-nucleic acid interaction, nucleic acid hybridization, or enzymatic reaction, and can be used to identify sites of base incorporation in elongating nucleic acid chains during polymerase reactions and to provide improved base discrimination for sequencing and array based applications.

公开(公告)号：US20210373000A1

公开(公告)日：2021-12-02

申请号：US17398315

申请日：2021-08-10

Applicant: Element Biosciences, Inc.

Inventor： Sinan ARSLAN ,  Molly HE ,  Matthew KELLINGER ,  Jake LEVIEUX ,  Michael PREVITE ,  Junhua ZHAO ,  Su ZHANG ,  Tyler LOPEZ

IPC: G01N33/53 ,  G01N33/58 ,  C12Q1/6874

Abstract: Multivalent binding compositions including a particle-nucleotide conjugate having a plurality of copies of a nucleotide attached to the particle are described. The multivalent binding compositions allow one to localize detectable signals to active regions of biochemical interaction, e.g., sites of protein-protein interaction, protein-nucleic acid interaction, nucleic acid hybridization, or enzymatic reaction, and can be used to identify sites of base incorporation in elongating nucleic acid chains during polymerase reactions and to provide improved base discrimination for sequencing and array based applications.

公开(公告)号：US20210123911A1

公开(公告)日：2021-04-29

申请号：US17063608

申请日：2020-10-05

Applicant: Element Biosciences, Inc.

Inventor： Sinan ARSLAN ,  Molly HE ,  Matthew KELLINGER ,  Jake LEVIEUX ,  Michael PREVITE ,  Junhua ZHAO ,  Su ZHANG ,  Tyler LOPEZ

IPC: G01N33/53 ,  C12Q1/6874 ,  G01N33/58

Abstract: Multivalent binding compositions including a particle-nucleotide conjugate having a plurality of copies of a nucleotide attached to the particle are described. The multivalent binding compositions allow one to localize detectable signals to active regions of biochemical interaction, e.g., sites of protein-protein interaction, protein-nucleic acid interaction, nucleic acid hybridization, or enzymatic reaction, and can be used to identify sites of base incorporation in elongating nucleic acid chains during polymerase reactions and to provide improved base discrimination for sequencing and array based applications.

公开(公告)号：US20250146068A1

公开(公告)日：2025-05-08

申请号：US18919127

申请日：2024-10-17

Applicant: Element Biosciences, Inc.

Inventor： Tsung-Li LIU ,  Sinan ARSLAN ,  Michael PREVITE ,  Tuval BEN-YEHEZKEL ,  Connor THOMPSON ,  Matthew KELLINGER ,  Hui Zhen MAH ,  Molly HE ,  Andrew PRICE

IPC: C12Q1/6874 ,  C12N15/10 ,  C12Q1/6804 ,  C12Q1/6841 ,  C12Q1/6844 ,  G01N33/58

Abstract: The present disclosure provides methods for conducting in situ multiplex and multi-omics detection and identification using coded padlocks probes. The methods comprise simultaneous use of RNA-specific padlock probes and polypeptide-specific padlock probes to detect both RNA and polypeptides in a cellular sample. Both types of probes include a barcode that unique identifies the RNA or polypeptide that that padlock probe detects. Both types of probes also include a batch-specific sequencing primer binding site to enable sequencing a desired subset of concatemer template molecules. Use of the batch-specific sequencing primers reduces overcrowding signals and images, to produces optical images that are intense and resolvable. By conducting multiple rounds of sequencing on the same cellular sample using different batch-specific sequencing primers enables multiplex and multi-omics sequencing to reveal numerous target RNAs and their encoded polypeptides.

公开(公告)号：US20250034628A1

公开(公告)日：2025-01-30

申请号：US18426101

申请日：2024-01-29

Applicant: Element Biosciences, Inc.

Inventor： Sinan ARSLAN ,  Molly HE ,  Michael PREVITE

IPC: C12Q1/6834 ,  B01J19/00 ,  C12Q1/6806 ,  C12Q1/6832

Abstract: Nucleic acid hybridization buffer formulations and uses thereof are described that yield improvements in hybridization specificity, rate, and efficiency. The buffer formulation composition includes a target nucleic acid; at least one organic solvent having a dielectric constant in the range of no greater than 115; and a pH buffer system, wherein the target nucleic acid is attached to the surface via hybridization to a surface bound nucleic acid tethered to the surface, and wherein the hybridization of the target nucleic acid and surface bound nucleic acid has a high stringency and annealing rate.

公开(公告)号：US20240191278A1

公开(公告)日：2024-06-13

申请号：US18510487

申请日：2023-11-15

Applicant: Element Biosciences, Inc.

Inventor： Sinan ARSLAN ,  Junhua ZHAO ,  Molly HE ,  Samantha SNOW ,  William LIGHT ,  Matthew KELLINGER ,  Michael PREVITE ,  Michael KIM ,  Hua YU ,  Yu-Hsien HWANG-FU ,  Marco TJIOE ,  Andrew BODDICKER ,  Mark AMBROSO ,  Tyler LOPEZ ,  Michael KLEIN ,  Virginia SAADE

IPC: C12Q1/6806 ,  C12Q1/6834 ,  C12Q1/6853 ,  C12Q1/6874 ,  G01N21/64

CPC classification number: C12Q1/6806 ,  C12Q1/6834 ,  C12Q1/6853 ,  C12Q1/6874 ,  G01N21/6428 ,  G01N21/6458 ,  C12Q2600/158

Abstract: The present disclosure provides compositions and methods that employ the compositions for conducting pairwise sequencing and for generating concatemer template molecules for pairwise sequencing. The concatemers can be generated using a rolling circle amplification reaction which is conducted either on-support, or conducted in-solution and then distributed onto a support. The rolling circle amplification reaction generates concatemers containing tandem copies of a sequence of interest and at least one universal adaptor sequence. An increase in the number of tandem copies in a given concatemer increases the number of sites along the concatemer for hybridizing to multiple sequencing primers which serve as multiple initiation sites for polymerase-catalyzed sequencing reactions. When the sequencing reaction employs detectably labeled nucleotides and/or detectably labeled multivalent molecules (e.g., having nucleotide units), the signals emitted by the nucleotides or nucleotide units that participate in the parallel sequencing reactions along the concatemer yields an increased signal intensity for each concatemer.