University of California

Yale University

California Institute of Technology

Cal. Inst. Tech.

Rong Fan

Peidong Yang

Arun Majumdar

Yiying Wu

Timothy David Sands

Richard E Russo

Ali Shakouri

Samuel S Mao

Eicke R Weber

Hannes Kind

Haoquan Yan

Michael Huang

Yao Lu

Henning Feick

Jonathan Chen

Rongrui He

Joshua Goldberger

Deyu Li

James R Heath

Rohit Nandkumar Karnik

Woong Bae Kim

Arunava Majumdar

Ryan C Bailey

Donald J Sirbuly

Matthew Law

Daojing Wang

Andrea R Tao

Matt Law

Richard J Saykally

Gabriel A Kwong

Nayi Wang

Burak Dura

Yang Liu

Yanxiang Deng

Kenneth Castelino

Justin C Johnson

Habib Ahmad

Franklin Kim

Yi-Ying Wu

Provided herein, in some embodiments, are compositions and methods for producing a molecular expression map of a biological sample using Deterministic Barcoding in Tissue for spatial omics sequencing (DBiT-seq).

Deterministic barcoding for spatial omics sequencing

The present invention relates to a system, device, and method for the high throughput multiplexed detection of a wide number of compounds. The invention comprises of a microwell array coupled to a capture agent array to form a plurality of interfaces between a microwell and a set of immobilized capture agents. The set of capture agents comprises a plurality of distinguishable features, with each feature corresponding to the detection of a particular compound of interest. In certain embodiments, each microwell is configured to contain a single cell. The invention is therefore capable of performing a high throughput analysis of single cell profiles, including profiles of secreted compounds.

System, device and method for high-throughput multi-plexed detection

Provided herein, in some embodiments, are devices, systems and methods for high-throughput single-cell polyomics (e.g., genomic, epigenomic, proteomic and/or phenotypic profile) analyses.

High-throughput single-cell polyomics

This disclosure demonstrates an approach that translates synthetic DNA codes to spatial codes registered in nanoliter microchambers for multiplexed measurement of nearly any type of molecular targets (e.g., miRNAs, mRNAs, intracellular and surface proteins) in single cells.

Multiplex detection of intracellular or surface molecular targets in single cells

Arrays and substrates comprising a material, in particular capture agents and/or detectable targets, attached to the substrates along substantially parallel lines forming a barcoded pattern and related methods and systems.

Arrays, substrates, devices, methods and systems for detecting target molecules

One-dimensional nanostructures having uniform diameters of less than approximately 200 nm. These inventive nanostructures, which we refer to as 'nanowires', include single-crystalline homostructures as well as heterostructures of at least two single-crystalline materials having different chemical compositions. Because single-crystalline materials are used to form the heterostructure, the resultant heterostructure will be single-crystalline as well. The nanowire heterostructures are generally based on a semiconducting wire wherein the doping and composition are controlled in either the longitudinal or radial directions, or in both directions, to yield a wire that comprises different materials. Examples of resulting nanowire heterostructures include a longitudinal heterostructure nanowire (LOHN) and a coaxial heterostructure nanowire (COHN).

Methods of fabricating nanostructures and nanowires and devices fabricated therefrom

A functionalized nanofluidic channel and method for functionalization that provides control over the ionic environment and geometry of the nanofluidic channel with the immobilization of biomolecules on the inner surface of the channel and use of high ionic concentration solutions. In one embodiment, the surface charge of the nanochannel is controlled with the immobilization of a protein such as streptavidin in the nanochannel. In another embodiment, the biomolecules are receptors and changes in nanochannel conductance indicates ligand binding events. The functionalized nanofluidic channel can be easily adapted for use with microchannel arrays.

Functionalization of nanofluidic channels

Provided herein are methods and systems for detecting and/or sorting targets in a sample based on the combined use of polynucleotide-encoded protein and substrate polynucleotides. The polynucleotide-encoded protein is comprised of a protein that specifically binds to a predetermined target and of an encoding polynucleotide that specifically binds to a substrate polynucleotide, wherein the substrate polynucleotide is attached to a substrate.

Methods and systems for detecting and/or sorting targets

Nanoribbons and nanowires having diameters less than the wavelength of light are used in the formation and operation of optical circuits and devices. Such nanostructures function as subwavelength optical waveguides which form a fundamental building block for optical integration. The extraordinary length, flexibility and strength of these structures enable their manipulation on surfaces, including the precise positioning and optical linking of nanoribbon/wire waveguides and other nanoribbon/wire elements to form optical networks and devices. In addition, such structures provide for waveguiding in liquids, enabling them to further be used in other applications such as optical probes and sensors.

Nanowires and nanoribbons as subwavelength optical waveguides and their use as components in photonic circuits and devices

Fluidic nanotube devices are described in which a hydrophilic, non-carbon nanotube, has its ends fluidly coupled to reservoirs. Source and drain contacts are connected to opposing ends of the nanotube, or within each reservoir near the opening of the nanotube. The passage of molecular species can be sensed by measuring current flow (source-drain, ionic, or combination). The tube interior can be functionalized by joining binding molecules so that different molecular species can be sensed by detecting current changes. The nanotube may be a semiconductor, wherein a tubular transistor is formed. A gate electrode can be attached between source and drain to control current flow and ionic flow. By way of example an electrophoretic array embodiment is described, integrating MEMs switches. A variety of applications are described, such as: nanopores, nanocapillary devices, nanoelectrophoretic, DNA sequence detectors, immunosensors, thermoelectric devices, photonic devices, nanoscale fluidic bioseparators, imaging devices, and so forth.

Fluidic nanotubes and devices

Novel and significantly simplified procedures for fabrication of fully integrated nanoelectrospray emitters have been described. For nanofabricated monolithic multinozzle emitters (NMemitters), a bottom up approach using silicon nanowires on a silicon sliver is used. For microfabricated monolithic multinozzle emitters (Memitters), a top down approach using MEMS techniques on silicon wafers is used. The emitters have performance comparable to that of commercially-available silica capillary emitters for nanoelectrospray mass spectrometry.

Monolithic multinozzle emitters for nanoelectrospray mass spectrometry

Growing community of inventors

Cheshire, CT, United States of America

Rong Fan