Children's Medical Center Corporation

Harvard College

Dana-farber-cancer Institute Inc.

The State University of New York

Wesley Philip Wong

Kenneth Anders Halvorsen

Clinton H Hansen

Darren Yang

William M Shih

Andrew Ward

Mounir Ahmad Koussa

Bhavik Nathwani

Arun Richard Chandrasekaran

Eric M Mulhall

Hongyu Zhao

Johanna Blass

Provided herein are products and methods for detecting analytes using polymers that bind to such analytes and thereby undergo a conformational change or contribute to a newly formed complex.

Method for detection of analytes via polymer complexes

This disclosure provides methods for generating functionalized nanoswitches, as well as the functionalized nanoswitches themselves, and methods of use thereof.

Nucleic acid nanoswitch construction methods

Provided herein, inter alia, are improved methods for detecting analytes, including proteins and nucleic acids. In some instances, the analytes are detected in complex matrices such as serum.

Rapid and sensitive detection and quantification of analytes in complex samples using polymer-based methods

Provided herein are nucleic acid-based nanoswitches that can detect specific nucleic acids and other analytes types by for example a simple gel electrophoresis readout. Binding of the target to the nanoswitches induces a conformation change from a linear, open conformation to a looped, closed conformation. These nanoswitches may be used in diagnostic assays such as nucleic acid-based diagnostic assays, to detect, measure and/or purify a variety of targets including low abundance targets.

Compositions and methods for analyte detection using nanoswitches

An apparatus for measuring a characteristic of a sample using a centrifuge and optical components is disclosed. The centrifuge may be a standard benchtop centrifuge. The optical components may be sized and dimensioned to fit, along with the sample, inside the centrifuge.

Spinning apparatus for measurement of characteristics relating to molecules

Provided herein are methods and products for detecting analytes in a sample. The analytes may be rare analytes such as biomarkers in a biological sample. These methods make use of nucleic acid nanoswitches that adopt a particular conformation and have a particular length in the presence of an analyte.

Force-controlled nanoswitch assays for single-molecule detection in complex biological fluids

The present disclosure provides nucleic acid-based nanoswitch catenanes and methods of use. A nanoswitch catenane may include a single-stranded nucleic acid comprising a first and second terminal domain linked to each other to form a host ring by one of a first, second or third switchable bridges, wherein the first switchable bridge is formed in the presence of a reaction agent through the reaction of two cognate functional groups, each linked to a terminal domain of the single-stranded nucleic acid, wherein the second switchable bridge is formed in the presence of a biomolecule of interest through binding of the bio-molecule of interest to two cognate antibodies, each linked to a terminal domain of the single stranded nucleic acid, and wherein the third switchable bridge is a link between two cognate functional groups that breaks in the presence of a dissociation agent. A nanoswitch catenane may also include a circular nucleic acid guest ring catenated with the host ring.

Nucleic acid nanoswitch catenanes

The invention provides compositions comprising nucleic acid complexes for use in screening compounds based on their ability to modulate binding interactions, wherein the compounds are barcoded.

Nucleic acid complexes for screening barcoded compounds

The invention provides compositions comprising nucleic acid complexes for use in monitoring binding interactions and in measuring association and/or dissociation kinetics, detecting analytes including low concentration analytes, and screening library members. In some instances, the nucleic acid complexes are double-stranded nicked nucleic acids comprising a scaffold nucleic acid hybridized to one or more oligonucleotides. In some instances, a first, a second, a third, and optionally a fourth oligonucleotide are linked to moieties that are known to interact with each other or which are suspected of interacting with each other or of interacting with a common moiety such as an analyte. Changes in topology of the complex are used to determine the binding interactions of the various binding partners.

Nucleic acid-based linkers for detecting and measuring interactions

Systems and apparatus for performing analysis of human biological samples are described. Collected biological samples are combined with a substance including nucleic acid complexes and the combined substance is processed using gel electrophoresis. An indication of a detected compound in the biological sample and/or a particular medical condition associated with the detected compound is output from the apparatus.

Systems and apparatus for detecting compounds in human biological samples

Provided herein are compositions and methods for determining the structure of individual targets using by determining long-range distances within such targets.

High-throughput structure determination using nucleic acid calipers

Provided are methods and compositions relating to conjugation of nucleic acids and proteins of interest under conditions that maintain protein activity. The nucleic acid-protein conjugates may be used in nucleic acid nanostructures such as those generated using DNA origami methods.

Compositions and methods relating to nucleic acid-protein complexes

An apparatus for measuring a characteristic of a sample includes a sample measurement apparatus (), which includes a light source () configured to illuminate the sample; and a detector () configured to receive light from the sample. The sample measurement apparatus is sized and dimensioned to fit within a centrifuge receptacle, the centrifuge receptacle () coupled to a spindle configured to rotate the centrifuge receptacle to apply a force to the sample.

Growing community of inventors

Cambridge, MA, United States of America

Wesley Philip Wong