Pacific Biosciences of California, Inc.

Ciena Corporation

Berkeley Lights, Inc.

Paul M Lundquist

Stephen Wilson Turner

Denis Zaccarin

Mathieu Foquet

Annette Claire Grot

Cheng Frank Zhong

Shang Wang

Aaron J Rulison

Hovig Bayandorian

Jonas Korlach

Mark E McDonald

Ravi Saxena

Yves Lacroix

John Dixon

Hans Callebaut

Ariel Herrmann

Marc Levesque

John A Tenney

Troy A Lionberger

Peiqian Zhao

Fenglei Du

Yanqiao Huang

Mark Maxham

Pezhman Monadgemi

Paul M Lebel

Tsuei-Lian Wang

Deborah Pao-Tung Kwo

Phillip Ronald Thomas Jess

Keith J Breinlinger

J Tanner Nevill

John Lyle

Joy Roy

Daniele Malleo

Andrew W McFarland

Justin K Valley

Khai Luong

Kevin Hester

Russell A Newstrom

Ravi Dalal

Richard J Frost

Jonathan Cloud Dragon Hubbard

Yujuan Cheng

Mathieu Foguet

Andrew W Mcfarland

Mark Mcdonald

Frank Zhong

Jonathan Cloud Hubbard

Integrated target waveguide devices and optical analytical systems comprising such devices are provided. The target devices include an optical coupler that is optically coupled to an integrated waveguide and that is configured to receive optical input from an optical source through free space, particularly through a low numerical aperture interface. The devices and systems are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices provide for the efficient and reliable coupling of optical excitation energy from an optical source to the optical reactions. Optical signals emitted from the reactions can thus be measured with high sensitivity and discrimination. The devices and systems are well suited for miniaturization and high throughput.

Integrated target waveguide devices and systems for optical coupling

Methods are provided for the automated detection of micro-objects in a microfluidic device. In addition, methods are provided for repositioning micro-objects in a microfluidic device. In addition, methods are provided for separating micro-objects in a spatial region of the microfluidic device.

Automated detection and repositioning of micro-objects in microfluidic devices

Arrays of integrated analytical devices and their methods for production are provided. The arrays are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices allow the highly sensitive discrimination of optical signals using features such as spectra, amplitude, and time resolution, or combinations thereof. The devices include an integrated diffractive beam shaping element that provides for the spatial separation of light emitted from the optical reactions.

Arrays of integrated analytical devices

Optical analytical devices and their methods of use are provided. The devices are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices include optical waveguides for illumination of the optical reactions. The devices further provide for the efficient coupling of optical excitation energy from the waveguides to the optical reactions. Optical signals emitted from the reactions can thus be measured with high sensitivity and discrimination using features such as spectra, amplitude, and time resolution, or combinations thereof. The devices of the invention are well suited for miniaturization and high throughput.

Illumination of optical analytical devices

This invention provides devices for use in various analytical applications including single-molecule analytical reactions. Methods for detecting analytes optically by propagating optical energy by waveguides within a substrate are provided. Analytical devices are provided which have both shallow and deep waveguides in which illumination light is transported through the deep waveguides and coupled into the shallow waveguides. The shallow waveguides provide evanescent field illumination to analytes, such as single-molecule analytes, within nanometer scale wells. Integrated devices including integrated detectors such as CMOS detectors are included.

Substrates and optical systems and methods of use thereof

The present disclosure relates to an optical apparatus for imaging and/or manipulating micro-objects in a microfluidic device, such as a light-actuated microfluidic (LAMF) device, and related systems and methods. The optical apparatus can comprise a structured light modulator, a first and a second tube lens, an objective lens, a dichroic beam splitter, and an image sensor. The structured light modulator can be configured to receive unstructured light beams and transmit structured light beams for illuminating micro-objects located within an enclosure of the microfluidic device and/or selectively activating one or more of a plurality of dielectrophoresis (DEP) electrodes of the microfluidic device. The image light beams received by the image sensor can be used to form an image of at least a portion of the microfluidic device.

Apparatuses, systems and methods for imaging micro-objects

Analytic device comprising a substrate, nanometer-scale wells, and shallow waveguide optically coupled to a deep waveguide

Optical analytical devices and their methods of use are provided. The devices are useful in the analysis of highly multiplexed optical reactions in large numbers at high densities, including biochemical reactions, such as nucleic acid sequencing reactions. The devices include integrated illumination elements and optical waveguides for illumination of the optical reactions. The devices further provide for the efficient coupling of optical excitation energy from the waveguides to the optical reactions. Optical signals emitted from the reactions can thus be measured with high sensitivity and discrimination using features such as spectra, amplitude, and time resolution, or combinations thereof. The devices of the invention are well suited for miniaturization and high throughput.

Integrated illumination of optical analytical devices

We describe methods of producing gratings such as Bragg gratings with optical waveguides. Described are the writing and erasing of gratings within SiON waveguides by forming standing waves. Methods, systems, instruments, and devices are described that provide improved transmission of light through such waveguides.

Producing bragg gratings in optical waveguides

The present disclosure relates to an optical apparatus for imaging and/or manipulating micro-objects in a microfluidic device, such as a light-actuated microfluidic (LAMF) device, and related systems and methods. The optical apparatus can comprise a structured light modulator, a first and a second tube lens, an objective lens, a dichroic beam splitter, and an image sensor. The structured light modulator can be configured to receive unstructured light beams and transmit structured light beams for illuminating micro-objects located within an enclosure of the microfluidic device and/or selectively activating one or more of a plurality of dielectrophoresis (DEP) electrodes of the microfluidic device. The first tube lens can be configured to capture the structured light beams transmitted by the structured light modulator. The second tube lens can be configured to transmit image light beams from the dichroic beam splitter to the image sensor. The image sensor can be configured to receive image light beams from the second tube lens. The image light beams received by the image sensor can be used to form an image of at least a portion of the microfluidic device.

Growing community of inventors

Oakland, CA, United States of America

Paul M Lundquist