Patents by Inventor Jeremy Lackey
Jeremy Lackey has filed for patents to protect the following inventions. This listing includes patent applications that are pending as well as patents that have already been granted by the United States Patent and Trademark Office (USPTO).
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Publication number: 20200088639Abstract: System and methods for analyzing single molecules and performing nucleic acid sequencing. An integrated device includes multiple pixels with sample wells configured to receive a sample, which when excited, emits radiation. The integrated device includes at least one waveguide configured to propagate excitation energy to the sample wells from a region of the integrated device configured to couple with an excitation energy source. A pixel may also include at least one element for directing the emission energy towards a sensor within the pixel. The system also includes an instrument that interfaces with the integrated device. The instrument may include an excitation energy source for providing excitation energy to the integrated device by coupling to an excitation energy coupling region of the integrated device.Type: ApplicationFiled: November 19, 2019Publication date: March 19, 2020Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid, Lawrence C. West, Keith G. Fife, Benjamin Cipriany, Farshid Ghasemi
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Publication number: 20200031861Abstract: Aspects of the disclosure provide biconjugatable labels, labeled biomolecules, and methods of using and making the same.Type: ApplicationFiled: July 12, 2019Publication date: January 30, 2020Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Jeremy Lackey, Roger Nani, David Dodd
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Patent number: 10533945Abstract: Apparatus and methods for analyzing single molecule and performing nucleic acid sequencing. An apparatus can include an assay chip that includes multiple pixels with sample wells configured to receive a sample, which, when excited, emits emission energy; at least one element for directing the emission energy in a particular direction; and a light path along which the emission energy travels from the sample well toward a sensor. The apparatus also includes an instrument that interfaces with the assay chip. The instrument includes an excitation light source for exciting the sample in each sample well; a plurality of sensors corresponding the sample wells. Each sensor may detect emission energy from a sample in a respective sample well. The instrument includes at least one optical element that directs the emission energy from each sample well towards a respective sensor of the plurality of sensors.Type: GrantFiled: November 10, 2017Date of Patent: January 14, 2020Assignee: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid, Benjamin Cipriany, Jack Jewell, Lawrence C. West, Michael Ferrigno, Paul E. Glenn, Adam Ezra Cohen, Anthony Bellofiore
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Publication number: 20190383739Abstract: Apparatus and methods for analyzing single molecules and performing nucleic acid sequencing. An apparatus can include an assay chip that includes multiple pixels with sample wells configured to receive a sample, which, when excited, emits emission energy; at least one element for directing the emission energy in a particular direction; and a light path along which the emission energy travels from the sample well toward a sensor. The apparatus also includes an instrument that interfaces with the assay chip. The instrument includes an excitation light source for exciting the sample in each sample well; a plurality of sensors corresponding the sample wells. Each sensor may detect emission energy from a sample in a respective sample well. The instrument includes at least one optical element that directs the emission energy from each sample well towards a respective sensor of the plurality of sensors.Type: ApplicationFiled: June 17, 2019Publication date: December 19, 2019Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid, Paul E. Glenn, Lawrence C. West, Benjamin Cipriany, Keith G. Fife
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Patent number: 10502684Abstract: System and methods for analyzing single molecules and performing nucleic acid sequencing. An integrated device includes multiple pixels with sample wells configured to receive a sample, which when excited, emits radiation. The integrated device includes at least one waveguide configured to propagate excitation energy to the sample wells from a region of the integrated device configured to couple with an excitation energy source. A pixel may also include at least one element for directing the emission energy towards a sensor within the pixel. The system also includes an instrument that interfaces with the integrated device. The instrument may include an excitation energy source for providing excitation energy to the integrated device by coupling to an excitation energy coupling region of the integrated device.Type: GrantFiled: March 15, 2019Date of Patent: December 10, 2019Assignee: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid, Lawrence C. West, Keith G. Fife, Benjamin Cipriany, Farshid Ghasemi
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Publication number: 20190330688Abstract: Methods of sequencing molecules based on luminescence lifetimes and/or intensities are provided. In some aspects, methods of sequencing nucleic acids involve determining the luminescence lifetimes, and optionally luminescence intensities, of a series of luminescently labeled nucleotides incorporated during a nucleic acid sequencing reaction.Type: ApplicationFiled: December 7, 2018Publication date: October 31, 2019Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Jeremy Lackey, Brian Reed, Xinghua Shi, Haidong Huang
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Patent number: 10371634Abstract: Apparatus and methods for analyzing single molecule and performing nucleic acid sequencing. An apparatus can include an assay chip that includes multiple pixels with sample wells configured to receive a sample, which, when excited, emits emission energy; at least one element for directing the emission energy in a particular direction; and a light path along which the emission energy travels from the sample well toward a sensor. The apparatus also includes an instrument that interfaces with the assay chip. The instrument includes an excitation light source for exciting the sample in each sample well; a plurality of sensors corresponding the sample wells. Each sensor may detect emission energy from a sample in a respective sample well. The instrument includes at least one optical element that directs the emission energy from each sample well towards a respective sensor of the plurality of sensors.Type: GrantFiled: January 29, 2018Date of Patent: August 6, 2019Assignee: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid, Paul E. Glenn, Lawrence C. West, Benjamin Cipriany, Keith G. Fife
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Publication number: 20190211389Abstract: Apparatus and techniques for electrokinetic loading of samples of interest into sub-micron-scale reaction chambers are described. Embodiments include an integrated device and related apparatus for analyzing samples in parallel. The integrated device may include at least one reaction chamber formed through a surface of the integrated device and configured to receive a sample of interest, such as a molecule of nucleic acid. The integrated device may further include electrodes patterned adjacent to the reaction chamber that produce one or more electric fields that assist loading the sample into the reaction chamber. The apparatus may further include a sample reservoir having a fluid seal with the surface of the integrated device and configured to hold a suspension containing the samples.Type: ApplicationFiled: January 4, 2019Publication date: July 11, 2019Applicant: Quantum-Si IncorporatedInventors: Guojun CHEN, Jeremy Lackey, Alex Goryanyov, Gerard Schmid, Ali Kabiri, Jonathan M. Rothberg, Todd Rearick, Jonathan C. Schultz, Farshid Ghasemi, Keith G. Fife
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Publication number: 20190212265Abstract: System and methods for analyzing single molecules and performing nucleic acid sequencing. An integrated device includes multiple pixels with sample wells configured to receive a sample, which when excited, emits radiation. The integrated device includes at least one waveguide configured to propagate excitation energy to the sample wells from a region of the integrated device configured to couple with an excitation energy source. A pixel may also include at least one element for directing the emission energy towards a sensor within the pixel. The system also includes an instrument that interfaces with the integrated device. The instrument may include an excitation energy source for providing excitation energy to the integrated device by coupling to an excitation energy coupling region of the integrated device.Type: ApplicationFiled: March 15, 2019Publication date: July 11, 2019Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid, Lawrence C. West, Keith G. Fife, Benjamin Cipriany, Farshid Ghasemi
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Patent number: 10288565Abstract: System and methods for analyzing single molecules and performing nucleic acid sequencing. An integrated device includes multiple pixels with sample wells configured to receive a sample, which when excited, emits radiation. The integrated device includes at least one waveguide configured to propagate excitation energy to the sample wells from a region of the integrated device configured to couple with an excitation energy source. A pixel may also include at least one element for directing the emission energy towards a sensor within the pixel. The system also includes an instrument that interfaces with the integrated device. The instrument may include an excitation energy source for providing excitation energy to the integrated device by coupling to an excitation energy coupling region of the integrated device.Type: GrantFiled: July 5, 2017Date of Patent: May 14, 2019Assignee: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid, Lawrence C. West, Keith G. Fife, Benjamin Cipriany, Farshid Ghasemi
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Patent number: 10287313Abstract: The present invention is directed to RNA monomers comprising O-acetal levulinyl protecting groups at the 2? and/or the 5?-hydroxy functionalities of the ribose moiety. Said monomers may be incorporated into oligoribonucleotides or RNA polynucleotides. Furthermore, the invention is directed to methods for the synthesis of said RNA monomers, oligoribonucleotides and RNA polynucleotides, as well as methods for their deprotection and methods for the use of said compounds and compositions comprising said compounds. In particular, such compounds and compositions comprising them are used in methods for light-directed synthesis of RNA microarrays.Type: GrantFiled: December 29, 2015Date of Patent: May 14, 2019Assignees: The Royal Institution for the Advancement of Learning/McGill University, Wisconsin Alumni Research FoundationInventors: Masad Damha, Jeremy Lackey, Debbie Mitra, Marvin Wickens, Franco Cerrina, Mark Somoza
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Patent number: 10288566Abstract: System and methods for analyzing single molecules and performing nucleic acid sequencing. An integrated device includes multiple pixels with sample wells configured to receive a sample, which when excited, emits radiation. The integrated device includes at least one waveguide configured to propagate excitation energy to the sample wells from a region of the integrated device configured to couple with an excitation energy source. A pixel may also include at least one element for directing the emission energy towards a sensor within the pixel. The system also includes an instrument that interfaces with the integrated device. The instrument may include an excitation energy source for providing excitation energy to the integrated device by coupling to an excitation energy coupling region of the integrated device.Type: GrantFiled: December 18, 2017Date of Patent: May 14, 2019Assignee: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid, Lawrence C. West, Keith G. Fife, Benjamin Cipriany, Farshid Ghasemi
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Publication number: 20190024168Abstract: Compositions useful for the detection of single molecules in a sample are provided. In some aspects, the disclosure provides a nucleic acid connected to a nucleotide and two or more luminescent labels. In some embodiments, the nucleic acids described herein comprise one or more structural features that provide enhanced fluorescence intensity. In some aspects, methods of sequencing using the labeled nucleotides of the disclosure are provided.Type: ApplicationFiled: July 24, 2018Publication date: January 24, 2019Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Jeremy Lackey, Brian Reed, Xinghua Shi, Haidong Huang, David Dodd
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Publication number: 20190025511Abstract: An integrated device and related instruments and systems for analyzing samples in parallel are described. The integrated device may include sample wells arranged on a surface of where individual sample wells are configured to receive a sample labeled with at least one fluorescent marker configured to emit emission light in response to excitation light. The integrated device may further include photodetectors positioned in a layer of the integrated device, where one or more photodetectors are positioned to receive a photon of emission light emitted from a sample well. The integrated device further includes one or more photonic structures positioned between the sample wells and the photodetectors, where the one or more photonic structures are configured to attenuate the excitation light relative to the emission light such that a signal generated by the one or more photodetectors indicates detection of photons of emission light.Type: ApplicationFiled: July 23, 2018Publication date: January 24, 2019Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Gerard Schmid, Alexander Gondarenko, James Beach, Kyle Preston, Farshid Ghasemi, Jeremy Lackey, Jack Jewell, Keith G. Fife, Ali Kabiri
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Patent number: 10174363Abstract: Methods of sequencing molecules based on luminescence lifetimes and/or intensities are provided. In some aspects, methods of sequencing nucleic acids involve determining the luminescence lifetimes, and optionally luminescence intensities, of a series of luminescently labeled nucleotides incorporated during a nucleic acid sequencing reaction.Type: GrantFiled: May 20, 2016Date of Patent: January 8, 2019Assignee: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Jeremy Lackey, Brian Reed, Xinghua Shi, Haidong Huang
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Publication number: 20180362941Abstract: Compositions comprising modified recombinant polymerizing enzymes are provided, along with nucleic acid molecules encoding the modified polymerizing enzymes. In some aspects, methods of using such polymerizing enzymes to synthesize a nucleic acid molecule or to sequence a nucleic acid template are provided.Type: ApplicationFiled: December 19, 2017Publication date: December 20, 2018Applicant: Quantum-Si IncorporatedInventors: Brian Reed, Mohammad Wadud Bhuiya, Manjula Pandey, Jeremy Lackey, Jonathan M. Rothberg
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Publication number: 20180348132Abstract: An active-source-pixel, integrated device capable of performing biomolecule detection and/or analysis, such as single-molecule nucleic acid sequencing, is described. An active pixel of the integrated device includes a sample well into which a sample to be analyzed may diffuse, an excitation source for providing excitation energy to the sample well, and a sensor configured to detect emission from the sample. The sensor may comprise two or more segments that produce a set of signals that are analyzed to differentiate between and identify tags that are attached to, or associated with, the sample. Tag differentiation may be spectral and/or temporal based. Identification of the tags may be used to detect, analyze, and/or sequence the biomolecule.Type: ApplicationFiled: April 24, 2018Publication date: December 6, 2018Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid
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Publication number: 20180348133Abstract: An active-source-pixel, integrated device capable of performing biomolecule detection and/or analysis, such as single-molecule nucleic acid sequencing, is described. An active pixel of the integrated device includes a sample well into which a sample to be analyzed may diffuse, an excitation source for providing excitation energy to the sample well, and a sensor configured to detect emission from the sample. The sensor may comprise two or more segments that produce a set of signals that are analyzed to differentiate between and identify tags that are attached to, or associated with, the sample. Tag differentiation may be spectral and/or temporal based. Identification of the tags may be used to detect, analyze, and/or sequence the biomolecule.Type: ApplicationFiled: May 9, 2018Publication date: December 6, 2018Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid
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Publication number: 20180328850Abstract: Apparatus and methods for analyzing single molecule and performing nucleic acid sequencing. An integrated device includes multiple pixels with sample wells configured to receive a sample, which, when excited, emits radiation; at least one element for directing the emission radiation in a particular direction; and a light path along which the emission radiation travels from the sample well toward a sensor. The apparatus also includes an instrument that interfaces with the integrated device. Each sensor may detect emission radiation from a sample in a respective sample well. The instrument includes an excitation light source for exciting the sample in each sample well.Type: ApplicationFiled: July 5, 2018Publication date: November 15, 2018Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Ali Kabiri, Jason W. Sickler, Brett J. Gyarfas, Jeremy Lackey, Gerard Schmid, Benjamin Cipriany, Jack Jewell, Lawrence C. West, Michael Ferrigno, Paul E. Glenn, Anthony Bellofiore
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Publication number: 20180326412Abstract: Methods of preparing surfaces of sample wells are provided. In some aspects, methods of preparing a sample well surface involve contacting the sample well with a block copolymer to form an antifouling overlay over a metal oxide surface of the sample well. In some aspects, methods of passivating and/or selectively functionalizing a sample well surface are provided.Type: ApplicationFiled: May 4, 2018Publication date: November 15, 2018Applicant: Quantum-Si IncorporatedInventors: Jonathan M. Rothberg, Jeremy Lackey, Guojun Chen