Patents by Inventor Jene Golovchenko

Jene Golovchenko 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).

  • Publication number: 20210278392
    Abstract: A nanopore system provided herein includes first and second fluidic reservoirs in fluidic communication with a nanopore forming a fluidic path between the reservoirs. An enzyme clamp, provided in the first fluidic reservoir, abuts the nanopore and is reversibly bound to a sequential plurality of polymer subunits of a target polymer molecule in ionic solution. The clamp has an outer clamp diameter that is greater than the nanopore diameter. An electrical circuit includes an electrode in each of the reservoirs for applying a voltage bias across the nanopore. A pulse generator is connected in the electrical circuit to apply control pulses across the nanopore to step the clamp along sequential polymer subunits of the target polymer molecule. The system includes no fuel or source of fuel for the clamp. A controller is connected in the electrical circuit for controlling the collection of electrical indications of polymer subunits.
    Type: Application
    Filed: May 13, 2021
    Publication date: September 9, 2021
    Applicant: President and Fellows of Harvard College
    Inventors: Daniel Branton, Stephen Jordan Fleming, Jene A. Golovchenko
  • Patent number: 11035847
    Abstract: In a method p for controlling translocation of a target polymer molecule through a nanopore, a clamp is reversibly bound to a sequential plurality of polymer subunits along the target polymer molecule length and the molecule and clamp are disposed in an ionic solution that is in fluidic communication with the nanopore. A constant translocation force is applied across the nanopore to induce travel of the target polymer molecule into the nanopore, until the clamp abuts the nanopore aperture and stops further travel of the target polymer molecule into the nanopore. Then a voltage control pulse is applied across the nanopore and/or a thermal control pulse is applied at the nanopore, with a pulse duration that steps the clamp along the target polymer molecule by no more than one polymer subunit in a direction opposite that of travel into the nanopore. No fuel is provided to the clamp.
    Type: Grant
    Filed: June 28, 2018
    Date of Patent: June 15, 2021
    Assignee: President and Fellows of Harvard College
    Inventors: Daniel Branton, Stephen Jordan Fleming, Jene A. Golovchenko
  • Publication number: 20210148884
    Abstract: Systems and methods are provided for trapping and electrically monitoring molecules in a nanopore sensor. The nanopore sensor comprises a support structure with a first and a second fluidic chamber, at least one nanopore fluidically connected to the two chambers, and a protein shuttle. The protein shuttle comprises an electrically charged protein molecule, such as Avidin. The nanopore can be a Clytosolin A. A method can comprise applying a voltage across the nanopores to draw protein shuttles towards the nanopores. The ionic current through each or all of the nanopores can be concurrently measured. Based on the measured ionic current, blockage events can be detected. Each blockage event indicates a capture of a protein shuttle by at least one nanopore. Each blockage event can be detected through a change of the total ionic current flow or a change in the ionic current flow for a particular nanopore.
    Type: Application
    Filed: July 17, 2018
    Publication date: May 20, 2021
    Applicants: PRESIDENT AND FELLOWS OF HARVARD COLLEGE, UNIVERSITY OF MASSACHUSETTS
    Inventors: Lene V. HAU, Jene A. GOLOVCHENKO, Min CHEN
  • Publication number: 20210140939
    Abstract: Systems and methods are provided for characterizing shuttle capture events in a nanopore sensor. The method first collects time-dependent current blockage signatures for at least one bias voltage. The method then identifies each signature as corresponding to a permanent or transient event. The method then generates a protein dynamics landscape (PDL) for the transient event signatures. The PDL comprises a set of histograms of nanopore current data and characterizes current through the nanopore during shuttle capture events. The method can then comprise identifying an entrance level blockage value based on the permanent event signatures. Permanent event captures can be determined by time duration which is larger than a certain threshold time value. Applying a between the fluidic chambers above a threshold voltage level can be used to control that the vast majority of events are permanent.
    Type: Application
    Filed: July 17, 2018
    Publication date: May 13, 2021
    Applicant: PRESIDENT AND FELLOWS OF HARVARD COLLEGE
    Inventors: Lene V. HAU, Jene A. GOLOVCHENKO
  • Patent number: 10766762
    Abstract: There is provided a nanometric structure that includes a self-supporting nanometric material having a thickness of no more than about 5 nm. A plurality of nanopores is provided in the nanometric material, and the nanopore plurality has a density of at least about 1000 nanopores/cm2. Each nanopore in the plurality of nanopores has a diameter that is no greater than about 10 nm. The plurality of nanopores is monodisperse in diameter with a variation of about ±30%. In a further nanometric structure provided herein there is included a self-supporting nanometric material having a thickness of no more than about 5 nm. A plurality of nanopores in the nanometric material includes at least about 50 nanopores. Each nanopore in the plurality of nanopores has a diameter that is no greater than about 10 nm. The plurality of nanopores is monodisperse in diameter with a variation of about ±30%.
    Type: Grant
    Filed: February 17, 2017
    Date of Patent: September 8, 2020
    Assignee: President and Fellows of Harvard College
    Inventors: Christopher John Russo, Jene A. Golovchenko, Daniel Branton
  • Publication number: 20200158712
    Abstract: Provided herein is a nanopore sensor, including a self-supported solid state material selected from hexagonal-BN, a mono-atomic glass, MoS2, WS2, MoSe2, MoTe2, TaSe2, NbSe2, NiTe2, Bi2Sr2CaCu2Ox, and Bi2Te3, having a thickness less than about 5 nm. A nanopore extends through the material thickness. A connection from the first material surface to a first reservoir provides, at the first material surface, a species in an ionic solution from the first reservoir to the nanopore, and a connection from the second material surface to a second reservoir collects in the second reservoir the species and ionic solution after translocation of the species and ionic solution through the nanopore. An electrical circuit is connected with the nanopore, through the material thickness, from the first reservoir to the second reservoir, to monitor translocation of species in the ionic solution through the nanopore in the solid state material.
    Type: Application
    Filed: January 14, 2020
    Publication date: May 21, 2020
    Applicant: President and Fellows of Harvard College
    Inventors: Daniel Branton, Slaven Garaj, Jene A. Golovchenko
  • Patent number: 10564144
    Abstract: There is provided a substantially bare, self-supported single-layer graphene membrane including a nanopore extending through a thickness of the graphene membrane from a first to a second membrane surface opposite the first graphene membrane surface. A connection from the first graphene membrane surface to a first reservoir provides, at the first graphene membrane surface, a species in an ionic solution to the nanopore, and a connection from the second graphene membrane surface to a second reservoir is provided to collect the species and ionic solution after translocation of the species and ionic solution through the nanopore from the first graphene membrane surface to the second graphene membrane surface. An electrical circuit is connected on opposite sides of the nanopore to measure flow of ionic current through the nanopore in the graphene membrane.
    Type: Grant
    Filed: March 13, 2012
    Date of Patent: February 18, 2020
    Assignee: PRESIDENT AND FELLOWS OF HARVARD COLLEGE
    Inventors: Slaven Garaj, Jene A. Golovchenko, Daniel Branton
  • Patent number: 10228348
    Abstract: Provided is a solid state support structure including an aperture having a molecular entrance and a molecular exit. A first reservoir is in fluidic communication with the molecular entrance of the aperture and contains a molecule-bearing liquid solution. A second reservoir is in fluidic communication with the molecular exit of the aperture for containing a molecule-bearing liquid solution. A first liquid channel is connected to the first reservoir within less than about 300 microns of the aperture in the support structure and includes molecule-bearing liquid solution for delivery to the first reservoir. A second liquid channel is connected to the second reservoir for accepting molecule-bearing liquid solution from the second reservoir. An electrical connection between the first reservoir and the second reservoir imposes an electrical bias between the first reservoir and the second reservoir for driving the molecule-bearing liquid solution through the aperture in the solid state support structure.
    Type: Grant
    Filed: January 22, 2016
    Date of Patent: March 12, 2019
    Assignee: President and Fellows of Harvard College
    Inventors: Daniel Branton, Jene A Golovchenko
  • Publication number: 20190004029
    Abstract: In a method p for controlling translocation of a target polymer molecule through a nanopore, a clamp is reversibly bound to a sequential plurality of polymer subunits along the target polymer molecule length and the molecule and clamp are disposed in an ionic solution that is in fluidic communication with the nanopore. A constant translocation force is applied across the nanopore to induce travel of the target polymer molecule into the nanopore, until the clamp abuts the nanopore aperture and stops further travel of the target polymer molecule into the nanopore. Then a voltage control pulse is applied across the nanopore and/or a thermal control pulse is applied at the nanopore, with a pulse duration that steps the clamp along the target polymer molecule by no more than one polymer subunit in a direction opposite that of travel into the nanopore. No fuel is provided to the clamp.
    Type: Application
    Filed: June 28, 2018
    Publication date: January 3, 2019
    Applicant: President and Fellows of Harvard College
    Inventors: Daniel Branton, Stephen Jordan Fleming, Jene A. Golovchenko
  • Patent number: 9815082
    Abstract: In a method for forming nanopores, two opposing surfaces of a membrane are exposed to an electrically conducting liquid environment. A nanopore nucleation voltage pulse, having a first nucleation pulse amplitude and duration, is applied between the two membrane surfaces, through the liquid environment. After applying the nanopore nucleation voltage pulse, the electrical conductance of the membrane is measured and compared to a first prespecified electrical conductance. Then at least one additional nanopore nucleation voltage pulse is applied between the two membrane surfaces, through the liquid environment, if the measured electrical conductance is no greater than the first prespecified electrical conductance.
    Type: Grant
    Filed: March 14, 2014
    Date of Patent: November 14, 2017
    Assignee: President and Fellows of Harvard College
    Inventors: Jene A. Golovchenko, Bo Lu, Aaron T. Kuan
  • Publication number: 20170158487
    Abstract: There is provided a nanometric structure that includes a self-supporting nanometric material having a thickness of no more than about 5 nm. A plurality of nanopores is provided in the nanometric material, and the nanopore plurality has a density of at least about 1000 nanopores/cm2. Each nanopore in the plurality of nanopores has a diameter that is no greater than about 10 nm. The plurality of nanopores is monodisperse in diameter with a variation of about ±30%. In a further nanometric structure provided herein there is included a self-supporting nanometric material having a thickness of no more than about 5 nm. A plurality of nanopores in the nanometric material includes at least about 50 nanopores. Each nanopore in the plurality of nanopores has a diameter that is no greater than about 10 nm. The plurality of nanopores is monodisperse in diameter with a variation of about ±30%.
    Type: Application
    Filed: February 17, 2017
    Publication date: June 8, 2017
    Applicant: President and Fellows of Havard College
    Inventors: Christopher John Russo, Jene A. Golovchenko, Daniel Branton
  • Patent number: 9656293
    Abstract: In a method for forming nanopores, two opposing surfaces of a membrane are exposed to an electrically conducting liquid environment. A nanopore nucleation voltage pulse, having a first nucleation pulse amplitude and duration, is applied between the two membrane surfaces, through the liquid environment. After applying the nanopore nucleation voltage pulse, the electrical conductance of the membrane is measured and compared to a first prespecified electrical conductance. Then at least one additional nanopore nucleation voltage pulse is applied between the two membrane surfaces, through the liquid environment, if the measured electrical conductance is no greater than the first prespecified electrical conductance.
    Type: Grant
    Filed: March 14, 2014
    Date of Patent: May 23, 2017
    Assignee: President and Fellows of Harvard College
    Inventors: Aaron T. Kuan, Jene A. Golovchenko
  • Patent number: 9611140
    Abstract: In a method of forming a nanopore in a nanometric material, a nanopore nucleation site is formed at a location that is interior to lateral edges of the nanometric material by directing a first energetic beam, selected from the group of ion beam and neutral atom beam, at the interior location for a first time duration that imposes a first beam dose which causes removal of no more than five interior atoms from the interior location to produce at the interior location a nanopore nucleation site having a plurality of edge atoms. A nanopore is then formed at the nanopore nucleation site by directing a second energetic beam, selected from the group consisting of electron beam, ion beam, and neutral atom beam, at the nanopore nucleation site with a beam energy that removes edge atoms at the nanopore nucleation site but does not remove bulk atoms from the nanometric material.
    Type: Grant
    Filed: March 14, 2012
    Date of Patent: April 4, 2017
    Assignee: President and Fellows of Harvard College
    Inventors: Christopher John Russo, Jene Golovchenko, Daniel Branton
  • Publication number: 20160139079
    Abstract: Provided is a solid state support structure including an aperture having a molecular entrance and a molecular exit. A first reservoir is in fluidic communication with the molecular entrance of the aperture and contains a molecule-bearing liquid solution. A second reservoir is in fluidic communication with the molecular exit of the aperture for containing a molecule-bearing liquid solution. A first liquid channel is connected to the first reservoir within less than about 300 microns of the aperture in the support structure and includes molecule-bearing liquid solution for delivery to the first reservoir. A second liquid channel is connected to the second reservoir for accepting molecule-bearing liquid solution from the second reservoir. An electrical connection between the first reservoir and the second reservoir imposes an electrical bias between the first reservoir and the second reservoir for driving the molecule-bearing liquid solution through the aperture in the solid state support structure.
    Type: Application
    Filed: January 22, 2016
    Publication date: May 19, 2016
    Applicant: President and Fellows of Harvard College
    Inventors: Daniel Branton, Jene A. Golovchenko
  • Patent number: 9274097
    Abstract: Provided is a first reservoir for containing a liquid solution including a molecule to be characterized and a second reservoir for containing a liquid solution. A solid state support includes a nanopore having a molecular inlet providing a fluidic connection to the first reservoir and a molecular outlet providing a fluidic connection to the second reservoir. An electrical connection is disposed between the first and second reservoirs to apply a molecular translocation voltage across the nanopore between the molecular inlet entrance and outlet exit. At least one electrical probe is disposed at the nanopore to apply a first voltage bias with respect to translocation voltage to slow progression of a molecule through the nanopore between the molecular inlet and outlet and to apply a second voltage bias with respect to translocation voltage to cause the molecule to proceed through the nanopore between the molecular inlet and outlet.
    Type: Grant
    Filed: March 4, 2011
    Date of Patent: March 1, 2016
    Assignee: President and Fellows of Harvard College
    Inventors: Jene A. Golovchenko, Daniel Branton
  • Publication number: 20160023239
    Abstract: In a method for forming nanopores, two opposing surfaces of a membrane are exposed to an electrically conducting liquid environment. A nanopore nucleation voltage pulse, having a first nucleation pulse amplitude and duration, is applied between the two membrane surfaces, through the liquid environment. After applying the nanopore nucleation voltage pulse, the electrical conductance of the membrane is measured and compared to a first prespecified electrical conductance. Then at least one additional nanopore nucleation voltage pulse is applied between the two membrane surfaces, through the liquid environment, if the measured electrical conductance is no greater than the first prespecified electrical conductance.
    Type: Application
    Filed: March 14, 2014
    Publication date: January 28, 2016
    Applicant: President and Fellows of Harvard College
    Inventors: Jene A. Golovchenko, Bo Lu, Aaron T. Kuan
  • Patent number: 9046483
    Abstract: The invention relates to a method for characterizing a target polynucleic acid by providing a surface containing a channel of a dimension sufficient to allow sequential monomer-by-monomer passage of a single-stranded polynucleic acid, but not of a double-stranded polynucleic acid; providing a source of hybridized target polynucleic acid at the surface; inducing passage of the target polynucleic acid through the channel, whereby the target polynucleic acid undergoes base pair separation (melts) prior to its passage; and making one or more measurements over time as the target polynucleic acid moves relative to the channel yielding data suitable to determine a monomer-dependent characteristic of the target polynucleic acid.
    Type: Grant
    Filed: August 8, 2013
    Date of Patent: June 2, 2015
    Assignee: President and Fellows of Harvard College
    Inventors: Timothy J. Denison, Alexis Sauer-Budge, Jene A. Golovchenko, Amit Meller, Eric Brandin, Daniel Branton
  • Patent number: 8986528
    Abstract: The invention relates to a method for characterizing a target polynucleic acid by providing a surface containing a channel of a dimension sufficient to allow sequential monomer-by-monomer passage of a single-stranded polynucleic acid, but not of a double-stranded polynucleic acid; providing a source of hybridized target polynucleic acid at the surface; inducing passage of the target polynucleic acid through the channel, whereby the target polynucleic acid undergoes base pair separation (melts) prior to its passage; and making one or more measurements over time as the target polynucleic acid moves relative to the channel yielding data suitable to determine a monomer-dependent characteristic of the target polynucleic acid.
    Type: Grant
    Filed: March 28, 2013
    Date of Patent: March 24, 2015
    Assignee: President and Fellows of Harvard College
    Inventors: Timothy J. Denison, Alexis Sauer-Budge, Jene A. Golovchenko, Amit Meller, Eric Brandin, Daniel Branton
  • Publication number: 20150060277
    Abstract: There is provided a nanopore system including a nanopore in a support structure. A first reservoir is in fluidic connection with the nanopore and a second reservoir is in fluidic connection with the nanopore. The support structure separates the first and second reservoirs. A pressure source is connected to one of the first and second reservoirs to apply an external pressure to one of the first and second reservoirs. A voltage source is connected between the first and second reservoirs to apply a voltage bias between the first and second reservoirs, across the nanopore. This system enables a method for analysis of species in solution, wherein there is provided to the nanopore a fluidic solution that includes a species for translocation through the nanopore, with an external pressure applied to the species in fluidic solution and a voltage bias applied across the nanopore.
    Type: Application
    Filed: September 12, 2014
    Publication date: March 5, 2015
    Applicants: PEKING UNIVERSITY, PRESIDENT AND FELLOWS OF HARVARD COLLEGE
    Inventors: Jene A. Golovchenko, Bo Lu, David P. Hoogerheide, Dapeng Yu, Qing Zhao
  • Publication number: 20150060276
    Abstract: There is provided a nanopore system including a nanopore in a solid state membrane. A first reservoir is in fluidic connection with the nanopore, the first reservoir being configured to provide, to the nanopore, nucleic acid molecules in an electrolytic solution. A second reservoir is in fluidic connection with the nanopore, with the nanopore membrane separating the first and second reservoirs. A pressure source is connected to the first reservoir to apply an external pressure to the first reservoir to cause nanopore translocation of nucleic acid molecules in the solution in the first reservoir. A voltage source is connected between the second and first reservoirs, across the nanopore, with a voltage bias polarity that applies an electric field counter to the externally applied pressure. Force of the externally applied pressure is greater than force of the electric field during nanopore translocation by the nucleic acid molecules.
    Type: Application
    Filed: September 12, 2014
    Publication date: March 5, 2015
    Applicants: PEKING UNIVERSITY, PRESIDENT AND FELLOWS OF HARVARD COLLEGE
    Inventors: Jene A. Golovchenko, Bo Lu, David P. Hoogerheide, Dapeng Yu, Qing Zhao