Patents by Inventor JUEXIAO WANG

JUEXIAO WANG 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: 20220090168
    Abstract: The present invention provides an oligonucleotide composition including a blocker and a first primer oligonucleotide. The blocker oligonucleotide includes a first sequence having a target-neutral subsequence and a blocker variable subsequence. The non-target specific subsequence is flanked on its 3? and 5? ends by the target-neutral subsequence and is continuous with the target-neutral subsequence. The first primer oligonucleotide is sufficient to induce enzymatic extension; herein the first primer oligonucleotide includes a second sequence. The second sequence overlaps with the 5? end of the target-neutral subsequence by at least 5 nucleotides; herein the second sequence includes an overlapping subsequence and a non-overlapping subsequence. The second sequence does not include the non-target specific subsequence.
    Type: Application
    Filed: November 29, 2021
    Publication date: March 24, 2022
    Applicant: William Marsh Rice University
    Inventors: David Yu ZHANG, Ruojia WU, Juexiao WANG
  • Publication number: 20210371911
    Abstract: The present disclosure describes the thermodynamic design and concentrations necessary to design probe compositions with desired optimal specificity that enable enrichment, detection, quantitation, purification, imaging, and amplification of rare-allele-bearing species of nucleic acids (prevalence <1%) in a large stoichiometric excess of a dominant-allele-bearing species (wildtype). Being an enzyme-free and homogeneous nucleic acid enrichment composition, this technology is broadly compatible with nearly all nucleic acid-based biotechnology, including plate reader and fluorimeter readout of nucleic acids, microarrays, PCR and other enzymatic amplification reactions, fluorescence barcoding, nanoparticle-based purification and quantitation, and in situ hybridization imaging technologies.
    Type: Application
    Filed: August 2, 2021
    Publication date: December 2, 2021
    Applicant: William Marsh Rice University
    Inventors: David Yu ZHANG, Juexiao WANG
  • Patent number: 11104936
    Abstract: The present disclosure describes the thermodynamic design and concentrations necessary to design probe compositions with desired optimal specificity that enable enrichment, detection, quantitation, purification, imaging, and amplification of rare-allele-bearing species of nucleic acids (prevalence <1%) in a large stoichiometric excess of a dominant-allele-bearing species (wildtype). Being an enzyme-free and homogeneous nucleic acid enrichment composition, this technology is broadly compatible with nearly all nucleic acid-based biotechnology, including plate reader and fluorimeter readout of nucleic acids, microarrays, PCR and other enzymatic amplification reactions, fluorescence barcoding, nanoparticle-based purification and quantitation, and in situ hybridization imaging technologies.
    Type: Grant
    Filed: October 17, 2016
    Date of Patent: August 31, 2021
    Assignee: William Marsh Rice University
    Inventors: David Yu Zhang, Juexiao Wang
  • Publication number: 20210230691
    Abstract: Compositions and methods for highly specific nucleic acid probes and primers are provided. The probe system comprises a complement strand and a protector stand that form a partially double-stranded probe. The reaction standard free energy of hybridization between the probe and target nucleic acid as determined by Expression 1 (?G°rxn=?G°t-TC??G°nh-PC+(?G°v-TC??G°h-PC)) is from about ?4 kcal/mol to about +4 kcal/mol. Alternatively, the reaction standard free energy of hybridization between the probe and target nucleic acid is determined by Expression 1 to be within 5 kcal/mol of the standard free energy as determined by Expression 2 (?R?ln(([P]0?[C]0)/[C]0)]), where the [P]0 term of Expression 2 equals the concentration of the protector strand and the [C]0 term of Expression 2 equals the concentration of the complement strand. In addition, a method for on-the-fly fine tuning of a reaction using the present probe is provided.
    Type: Application
    Filed: December 30, 2020
    Publication date: July 29, 2021
    Applicant: William Marsh Rice University
    Inventors: David Yu ZHANG, Juexiao WANG, Ruojia WU
  • Publication number: 20210164026
    Abstract: This invention describes a method of controlling the hybridization yield of nucleic acid probes by adjusting the relative concentrations of auxiliary oligonucleotides to the probes and the targets. The auxiliary oligonucleotide is partially or fully complementary to either the probe or the target, and is released upon hybridization of the probe to the target.
    Type: Application
    Filed: February 5, 2021
    Publication date: June 3, 2021
    Applicant: William Marsh Rice University
    Inventors: David Yu ZHANG, Ruojia WU, Juexiao WANG
  • Patent number: 10900079
    Abstract: Compositions and methods for highly specific nucleic acid probes and primers are provided. The probe system comprises a complement strand and a protector stand that form a partially double-stranded probe. The reaction standard free energy of hybridization between the probe and target nucleic acid as determined by Expression 1 (?G°rxn=?G°t-TC??G°nh-PC+(?G°v-TC??G°h-PC)) is from about ?4 kcal/mol to about +4 kcal/mol. Alternatively, the reaction standard free energy of hybridization between the probe and target nucleic acid is determined by Expression 1 to be within 5 kcal/mol of the standard free energy as determined by Expression 2 (?R? ln(([P]0?[C]0)/[C]0)]), where the [P]0 term of Expression 2 equals the concentration of the protector strand and the [C]0 term of Expression 2 equals the concentration of the complement strand. In addition, a method for on-the-fly fine tuning of a reaction using the present probe is provided.
    Type: Grant
    Filed: June 6, 2016
    Date of Patent: January 26, 2021
    Assignee: William Marsh Rice University
    Inventors: David Yu Zhang, Juexiao Wang, Ruojia Wu
  • Publication number: 20200080136
    Abstract: This present disclosure describes hybridization probes modularly constructed from several oligonucleotides with a pattern of designed complementary interactions, allowing the probes to sequence-specifically capture or analyze nucleic acid target sequences that are long and/or complex.
    Type: Application
    Filed: September 22, 2017
    Publication date: March 12, 2020
    Applicant: WILLIAM MARSH RICE UNIVERSITY
    Inventors: David ZHANG, Juexiao WANG, Yan YAN
  • Publication number: 20190185933
    Abstract: This disclosure describes methods for enabling accurate detection and quantitation of rare alleles within a DNA sample using low-depth sequencing, through the use of allele-specific enrichment and/or depletion hybridization probes. For example, methods are provided for using competitive probes to apply allele-specific enrichment or depletion to amplicons from multiplex PCR on a biological DNA sample.
    Type: Application
    Filed: December 20, 2018
    Publication date: June 20, 2019
    Applicant: WILLIAM MARSH RICE UNIVERSITY
    Inventors: David Zhang, Juexiao Wang
  • Publication number: 20180179588
    Abstract: This invention describes a method of controlling the hybridization yield of nucleic acid probes by adjusting the relative concentrations of auxiliary oligonucleotides to the probes and the targets. The auxiliary oligonucleotide is partially or fully complementary to either the probe or the target, and is released upon hybridization of the probe to the target.
    Type: Application
    Filed: October 16, 2017
    Publication date: June 28, 2018
    Inventors: David Yu Zhang, Ruojia Wu, Juexiao Wang
  • Publication number: 20170067090
    Abstract: The present invention provides an oligonucleotide composition including a blocker and a first primer oligonucleotide. The blocker oligonucleotide includes a first sequence having a target-neutral subsequence and a blocker variable subsequence. The non-target specific subsequence is flanked on its 3? and 5? ends by the target-neutral subsequence and is continuous with the target-neutral subsequence. The first primer oligonucleotide is sufficient to induce enzymatic extension; herein the first primer oligonucleotide includes a second sequence. The second sequence overlaps with the 5? end of the target-neutral subsequence by at least 5 nucleotides; herein the second sequence includes an overlapping subsequence and a non-overlapping subsequence. The second sequence does not include the non-target specific subsequence.
    Type: Application
    Filed: November 18, 2016
    Publication date: March 9, 2017
    Inventors: David Yu Zhang, Ruojia Wu, Juexiao Wang
  • Publication number: 20170029875
    Abstract: The present disclosure describes the thermodynamic design and concentrations necessary to design probe compositions with desired optimal specificity that enable enrichment, detection, quantitation, purification, imaging, and amplification of rare-allele-bearing species of nucleic acids (prevalence <1%) in a large stoichiometric excess of a dominant-allele-bearing species (wildtype). Being an enzyme-free and homogeneous nucleic acid enrichment composition, this technology is broadly compatible with nearly all nucleic acid-based biotechnology, including plate reader and fluorimeter readout of nucleic acids, microarrays, PCR and other enzymatic amplification reactions, fluorescence barcoding, nanoparticle-based purification and quantitation, and in situ hybridization imaging technologies.
    Type: Application
    Filed: October 17, 2016
    Publication date: February 2, 2017
    Inventors: David Yu Zhang, Juexiao Wang
  • Publication number: 20160340727
    Abstract: Compositions and methods for highly specific nucleic acid probes and primers are provided. The probe system comprises a complement strand and a protector stand that form a partially double-stranded probe. The reaction standard free energy of hybridization between the probe and target nucleic acid as determined by Expression 1 (?G°rxn=?G°t-TC??G°nh-PC+(?G°v-TC??G°h-PC)) is from about ?4 kcal/mol to about +4 kcal/mol. Alternatively, the reaction standard free energy of hybridization between the probe and target nucleic acid is determined by Expression 1 to be within 5 kcal/mol of the standard free energy as determined by Expression 2 (?R? ln(([P]0?[C]0)/[C]0)]), where the [P]0 term of Expression 2 equals the concentration of the protector strand and the [C]0 term of Expression 2 equals the concentration of the complement strand. In addition, a method for on-the-fly fine tuning of a reaction using the present probe is provided.
    Type: Application
    Filed: June 6, 2016
    Publication date: November 24, 2016
    Inventors: David Yu Zhang, Juexiao Wang, Ruojia Wu
  • Publication number: 20160326600
    Abstract: Nucleic acid probes are described comprising a universal component and a target dependent component. The universal component provides an economical advantage in that the universal component can retain any desired functional moiety, such as a fluorophore or other label which can be used with any target dependent component. Thus, the cost of designing target specific functionalized probes is significantly reduced with this probe system by limiting de novo synthesis to only the target dependent component of the probe for each desired target nucleic acid. Furthermore, the probe design of the present disclosure provides high target specificity demonstrating selective binding of the target in a 1% target load sample.
    Type: Application
    Filed: July 21, 2016
    Publication date: November 10, 2016
    Inventors: DAVID YU ZHANG, JUEXIAO WANG