公开(公告)号：US20230295692A1

公开(公告)日：2023-09-21

申请号：US18161581

申请日：2023-01-30

Applicant: ELEMENT BIOSCIENCES, INC.

Inventor： Lorenzo BERTI ,  Semyon KRUGLYAK ,  Matthew KELLINGER ,  Molly HE ,  Sinan ARSLAN ,  Junhua ZHAO ,  Michael PREVITE

IPC: C12Q1/6816 ,  C12Q1/6855

CPC classification number: C12Q1/6816 ,  C12Q1/6855

Abstract: Methods and systems for detecting the presence of a target nucleic acid sequence in one or more samples of a plurality of samples are described. The methods may comprise the use of linear barcoded nucleic acid probes that, upon hybridization to a target nucleic acid sequence, may be ligated to circularize the probe molecule, amplified, and sequenced. The use of a probe-specific barcode integrated into the nucleic acid probe molecule, and sample-specific barcodes that may be incorporated into the nucleic acid probe molecule or added during the amplification step, enable large-scale multiplexed assay and sample processing.

公开(公告)号：US20230203564A1

公开(公告)日：2023-06-29

申请号：US18166429

申请日：2023-02-08

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 ,  C12Q1/6874 ,  G01N21/64 ,  C12Q1/6853

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

公开(公告)号：US20230193354A1

公开(公告)日：2023-06-22

申请号：US17992564

申请日：2022-11-22

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

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

Abstract: The 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：US20230065693A1

公开(公告)日：2023-03-02

申请号：US17947984

申请日：2022-09-19

Applicant: Element Biosciences, Inc.

Inventor： Sinan ARSLAN ,  Molly HE ,  Michael PREVITE ,  Ramreddy TIPPANA ,  Hua YU ,  William LIGHT ,  Junhua ZHAO

IPC: C12Q1/6874 ,  C12Q1/6806

Abstract: The present disclosure provides compositions and methods that employ the compositions for conducting nucleic acid sequencing workflows, where the workflows include library preparation, immobilization and amplification of the library molecules to form immobilized template molecules, and sequencing the template molecules. In some embodiments, the compositions comprise reagents used to conduct nucleic acid sequencing workflows.

公开(公告)号：US11287422B2

公开(公告)日：2022-03-29

申请号：US17356929

申请日：2021-06-24

Applicant: Element Biosciences, Inc.

Inventor： Michael Previte ,  Molly Min He ,  Junhua Zhao ,  Hui Zhen Mah ,  Chunhong Zhou ,  Sinan Arslan ,  Matthew Kellinger ,  Lorenzo Berti ,  Steve Xiangling Chen

IPC: G01N33/53 ,  G01N33/58 ,  C12Q1/68 ,  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：US20210387184A1

公开(公告)日：2021-12-16

申请号：US17218027

申请日：2021-03-30

Applicant: Element Biosciences, Inc.

Inventor： Minghao GUO ,  Leon Zilun ZHANG ,  Chunhong ZHOU ,  Matthew KELLINGER ,  Michael PREVITE ,  Sinan ARSLAN ,  Molly HE ,  Huizhen MAH ,  Lei SUN

IPC: B01L3/00 ,  C12Q1/6874 ,  C12N15/10 ,  C12Q1/6806 ,  G01N21/64

Abstract: Flow cell devices, cartridges, and systems are described that provide reduced manufacturing complexity, lowered consumable costs, and flexible system throughput for nucleic acid sequencing and other chemical or biological analysis applications. The flow cell device can include a capillary flow cell device or a microfluidic flow cell device.

公开(公告)号：US20210333210A1

公开(公告)日：2021-10-28

申请号：US17372359

申请日：2021-07-09

Applicant: Element Biosciences, Inc.

Inventor： Steve Xiangling CHEN ,  Minghao GUO ,  Michael PREVITE ,  Chunhong ZHOU ,  Derek FULLER

IPC: G01N21/64 ,  C12Q1/6869 ,  G01N15/14

Abstract: Fluorescence imaging system designs are described that provide larger fields-of-view, increased spatial resolution, improved modulation transfer and image quality, higher spatial sampling frequency, faster transitions between image capture when repositioning the sample plane to capture a series of images (e.g., of different fields-of-view), and improved imaging system duty cycle, and thus enable higher throughput image acquisition and analysis for genomics and other imaging applications.

公开(公告)号：US20210223531A1

公开(公告)日：2021-07-22

申请号：US17151020

申请日：2021-01-15

Applicant: Element Biosciences, Inc.

Inventor： Minghao Guo ,  Michael Previte ,  Steven Xiangling Chen ,  Chunhong Zhou

IPC: G02B21/16 ,  B01L3/00 ,  G01N21/64 ,  G02B21/06 ,  G02B21/02

Abstract: Optical systems for DNA sequencing and other assays are described. Microscope designs may include a light source configured to emit an excitation beam and an objective lens disposed to receive the excitation beam, direct the excitation beam to a specimen, and receive emission light emitted by the specimen in response to the excitation beam. A plurality of detection channels includes optics configured to receive at least a portion of the emission light. A first dichroic filter can be disposed to reflect the excitation beam into the objective lens and to transmit the emission light, and a second dichroic filter can be disposed to receive the transmitted emission light, transmit a first portion of the transmitted emission light to a first channel of the plurality of channels, and reflect a second portion of the transmitted emission light to a second channel of the plurality of channels. Imaging or detection performance may further be improved by a reduced angle of incidence between the emission light and some or all of the dichroic filters, and/or by linearly polarizing the excitation beam such that the excitation beam is s-polarized with respect to the first dichroic filter.

公开(公告)号：US20210223530A1

公开(公告)日：2021-07-22

申请号：US16902188

申请日：2020-06-15

Applicant: Element Biosciences, Inc.

Inventor： Minghao Guo ,  Michael Previte ,  Steven Xiangling Chen ,  Chunhong Zhou

IPC: G02B21/16 ,  G02B21/02 ,  G02B21/36 ,  G02B21/06 ,  G01N21/64

Abstract: Multi-channel fluorescence microscopes and optical systems may include a light source configured to emit an excitation beam and an objective lens disposed to receive the excitation beam, direct the excitation beam to a specimen, and receive emission light emitted by the specimen in response to the excitation beam. A plurality of detection channels include optics configured to receive at least a portion of the emission light. A first dichroic filter can be disposed to reflect the excitation beam into the objective lens and to transmit the emission light, and a second dichroic filter can be disposed to receive the transmitted emission light, transmit a first portion of the transmitted emission light to a first channel of the plurality of channels, and reflect a second portion of the transmitted emission light to a second channel of the plurality of channels.

公开(公告)号：US11060138B1

公开(公告)日：2021-07-13

申请号：US17016353

申请日：2020-09-09

Applicant: Element Biosciences, Inc.

Inventor： Steve Xiangling Chen ,  Minghao Guo ,  Michael Previte ,  Chunhong Zhou ,  Derek Fuller

IPC: C12Q1/6869 ,  G01N15/14

Abstract: Methods and systems for sequencing a nucleic acid molecule are described that comprise imaging a first surface and an axially-displaced second surface using a compensation-free optical system, the system comprising an objective lens and at least one image sensor, wherein said optical system has a numerical aperture (NA) of less than 0.6 and a field-of-view (FOV) of greater than 1.0 mm2; and) processing the images of the first surface and the axially-displaced second surface to correct for optical aberration such that the images of the first surface and the axially-displaced second surface have substantially the same optical resolution.