Illumina Corporation

Element Biosciences, Inc.

Pacific Biosciences of California, Inc.

Illumina Singapore Pte. Ltd.

Illumina Cambridge Limited

Molly Min He

Michael Previte

Matthew William Kellinger

Cheng-Yao Chen

Sinan Arslan

Erin Bomati

Junhua Zhao

Rigo Pantoja

Chunhong Zhou

Mostafa Ronaghi

Sergio Peisajovich

Amirali Kia

William Light

Eric T Kool

Christian Gloeckner

Samantha Snow

Trina Faye Osothprarop

Robin A Emig

Lei Jia

Lei Sun

Insil Park

Hua Yu

Misha Golynskiy

Fred C Christians

Ramesh Vaidyanathan

Haiying Li Grunenwald

Scott Kuersten

Yu-Hsien Hwang-Fu

Harold Ray Lee

Darin J Haskins

Michael Kim

Marco Tjioe

Andrew Boddicker

Hui Zhen Mah

Joshua Burgess

Anupama Khanna

Daniel Schlingman

Kevin L Gunderson

Frank J Steemers

Keith P Bjornson

Arek Bibillo

Tyler Lopez

Adeline Huizhen Mah

M Shane Bowen

Jerome J Jendrisak

Erik Miller

Satwik Kamtekar

Jeffrey G Mandell

Sasan Amini

Paul S Peluso

Lorenzo Berti

Steve Xiangling Chen

Sonya Clark

Saurabh Nirantar

Seth McDonald

BeiBei Wang

Jake Levieux

Su Zhang

Stephen Wilson Turner

Jonas Korlach

Jonathan Mark Boutell

Niall Anthony Gormley

Jeremiah Hanes

John Lyle

Andrei Fedorov

Igor Yu Goryshin

Jason Richard Betley

Minghao Guo

Walter H Lee

Mark R Ambroso

Dmitry K Pokholok

Fan Zhang

Michael Klein

Virginia Saade

Natalie Morrell

Wouter Meuleman

Rosamond Jackson

Leon Zilun Zhang

Avgousta Ioannou

Ramreddy Tippana

Gareth Jenkins

Shane Bowen

John M Lyle

Jacqueline Weir

Steven J Norberg

Marie Hu

Hui Zhen Ma

Kia Amirali

Igor Goryshin

A method for synthesizing a nucleic acid includes synthesizing one or more nucleic acid fragments on a substrate. The synthesized one or more nucleic acid fragments may be amplified on the substrate. The method also includes sequencing the synthesized or amplified one or more nucleic acid fragments on the substrate. The sequencing may provide feedback to designs of the one or more nucleic acid fragments. The method further includes harvesting the synthesized or amplified one or more nucleic acid fragments based on sequencing. The synthesized or amplified one or more nucleic acid fragments may be assembled to generate a target nucleic acid.

Nucleic acid synthesis techniques

Compositions and methods comprising the use of polymerase-nucleotide conjugates for nucleic acid sequencing and analysis applications are described.

Polymerase-nucleotide conjugates for sequencing by trapping

A method for enriching or amplifying a target nucleic acid including providing a system having a guide nucleic acid, and a Cas or Argonaute protein or a variant thereof. The guide nucleic acid contains a target-specific nucleotide region substantially complementary to a region of the target nucleic acid, and contacting the target nucleic acid with the system to form a complex.

Polynucleotide enrichment and amplification using CRISPR-Cas or Argonaute systems

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.

Multipart reagents having increased avidity for polymerase binding

Multivalent binding composition for nucleic acid analysis

This disclosure provides a method of determining a sequence of nucleotides for a nucleic acid template. The method can include the steps of contacting the nucleic acid template with a conformationally labeled polymerase and at least four different nucleotide species under conditions wherein the conformationally labeled polymerase catalyzes sequential addition of the nucleotide species to form a nucleic acid complement of the nucleic acid template, wherein the sequential addition of each different nucleotide species produces a conformational signal change from the conformationally labeled polymerase and wherein the rate or time duration for the conformational signal change is distinguishable for each different nucleotide species; detecting a series of changes in the signal from the conformationally labeled polymerase under the conditions; and determining the rates or time durations for the changes in the signal, thereby determining the sequence of nucleotides for the nucleic acid template.

Conformational probes and methods for sequencing nucleic acids

Presented herein are methods and compositions for tagmentation of nucleic acids. The methods are useful for generating tagged DNA fragments that are qualitatively and quantitatively representative of the target nucleic acids in the sample from which they are generated.

Transposase compositions for reduction of insertion bias

Presented herein are polymerase enzymes for improved incorporation of nucleotide analogues, in particular nucleotides which are modified at the 3' sugar hydroxyl, as well as methods and kits using the same.

Modified polymerases for improved incorporation of nucleotide analogues

Provided herein are compositions and methods for the incorporation of unnatural nucleotides using mutant polymerases, such as reverse transcriptases. Further provided herein are methods of detection and sequencing of polynucleotide sequences. In some aspects, the compositions and methods are used enhance the efficiency and speed of detecting nucleotide bases. The methods and compositions described herein may further reduce time, cost, or scale of devices for next generation sequencing platforms.

Reverse transcriptase for nucleic acid sequencing

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.

Compositions and methods for pairwise sequencing

Embodiments provided herein relate to methods and compositions for preparing an immobilized library of barcoded DNA fragments of a target nucleic acid, identifying genomic variants, determining the contiguity information, phasing information, and methylation status of the target nucleic acid.

Contiguity preserving transposition

A method of characterizing candidate agents including steps of (a) providing a library of candidate agents attached to nucleic acid tags; (b) contacting the library with a solid support to attach the candidate agents to the solid support, whereby an array of candidate agents is formed; (c) contacting the array with a screening agent, wherein one or more candidate agents in the array react with the screening agent; (d) detecting the array to determine that at least one candidate agent in the array reacts with the screening agent; (e) sequencing the nucleic acid tag to determine the tag sequences attached to candidate agents in the array; and (f) identifying the at least one candidate agent in the array that reacts with the screening agent based on the tag sequence that is attached to the at least one candidate agent.

Platform for discovery and analysis of therapeutic agents

Growing community of inventors

San Diego, CA, United States of America

Molly Min He