Patents by Inventor KUO PING CHIU

KUO PING CHIU 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: 20220228139
    Abstract: The present invention relates to a method for amplifying and detecting ribonucleic acid (RNA) fragments. In particular, the method of the present invention comprises conversion of RNA fragments to cDNA and DNA amplification. The present invention also provides a kit for performing the method as described herein.
    Type: Application
    Filed: May 21, 2020
    Publication date: July 21, 2022
    Applicant: ACADEMIA SINICA
    Inventors: Kuo-Ping CHIU, Hsin-Chieh SHIAU, Zee Hong GOH
  • Publication number: 20210340611
    Abstract: The present invention relates to a method for detecting nucleic acid (NA) molecules in samples. More particularly, the present invention relates to an improved digital PCR-based method for detecting specific nucleic acid sequence(s). The present invention is useful for research and diagnostic applications with increased sensitivity and accuracy. The present invention also provides a kit for performing the method for assessingnucleic acids in samples as described herein.
    Type: Application
    Filed: October 9, 2019
    Publication date: November 4, 2021
    Applicant: ACADEMIA SINICA
    Inventor: Kuo-Ping CHIU
  • Patent number: 10407720
    Abstract: An adaptor for use in amplifying all linear, double-stranded nucleic acid molecules of unknown sequences in a sample is disclosed. The adaptor consists of: (1) the first oligonucleotide (P-oligo) with a phosphate at the 5? end and without an additional thymine nucleotide at the 3? end; and (2) the second oligonucleotide (T˜oligo) with an extra 3?-T and without a 5?-phosphate. The P-oligo and T-oligo are complementary to each other except at the 3?-T (thymine) in the T-oligo. The adaptor is ligated to nucleic acids of unknown sequences which have an extra A in the 3? end (3?˜A overhang) to form adaptor-ligated target nucleic acids. The T-oligo is then employed as a single primer for T-oligo-primed polymerase chain reaction (TOP-PCR) and amplifies the nucleic acids of unknown sequences in full-length.
    Type: Grant
    Filed: December 14, 2014
    Date of Patent: September 10, 2019
    Assignee: Academia Sinica
    Inventors: Kuo Ping Chiu, Yu-Shin Nai
  • Publication number: 20160298172
    Abstract: An adaptor for use in amplifying all linear, double-stranded nucleic acid molecules of unknown sequences in a sample is disclosed. The adaptor consists of: (1) the first oligonucleotide (P-oligo) with a phosphate at the 5? end and without an additional thymine nucleotide at the 3? end; and (2) the second oligonucleotide (T˜oligo) with an extra 3?-T and without a 5?-phosphate. The P-oligo and T-oligo are complementary to each other except at the 3?-T (thymine) in the T-oligo. The adaptor is ligated to nucleic acids of unknown sequences which have an extra A in the 3? end (3?˜A overhang) to form adaptor-ligated target nucleic acids. The T-oligo is then employed as a single primer for T-oligo-primed polymerase chain reaction (TOP-PCR) and amplifies the nucleic acids of unknown sequences in full-length.
    Type: Application
    Filed: December 14, 2014
    Publication date: October 13, 2016
    Applicant: ACADEMIA SINICA
    Inventors: Kuo Ping CHIU, Yu-Shin NAI
  • Patent number: 8829172
    Abstract: A method of generating a barcoded Paired-End Ditag (bPED) nucleic acid fragment is disclosed. The method comprises: a) performing a first ligation by ligating a half-adaptor with one or two 3?-overhanging ends to a target nucleic acid to obtain a nucleic acid fragment with two ends each attached to one of the half-adaptor, the half adaptor comprising a half-barcode and a restriction enzyme (RE) recognition site; b) performing a second ligation by ligating two of the half-adaptor at the two ends of the nucleic acid fragment to form a circularized nucleic acid construct, wherein the circularized nucleic acid construct comprises a full-size barcoded adaptor; and c) digesting the circularized nucleic acid construct with a RE that cleaves at a defined distance from the RE recognition site, and thereby generating the bPED nucleic acid fragment.
    Type: Grant
    Filed: March 9, 2012
    Date of Patent: September 9, 2014
    Assignee: Academia Sinica
    Inventors: Kuo Ping Chiu, Yi Chou, Sheng-Chung Chen
  • Patent number: 8481699
    Abstract: Multiplex barcoded Paired-End Ditag (mbPED) library construction for ultra high throughput sequencing is disclosed. The mbPED library comprises multiple types of barcoded Paired-End Ditag (bPED) nucleic acid fragment constructs, each of which comprises a unique barcoded adaptor, a first tag, and a second tag linked to the first tag via the barcoded adaptor. The two tags are the 5?- and 3?-ends of a nucleic acid molecule from which they originate. The barcoded adaptor comprises a barcode, a first polynucleotide sequence comprising a first restriction enzyme (RE) recognition site, and a second polynucleotide sequence comprising a second RE recognition site and covalently linked to the first polynucleotide sequence via the barcode. The two REs lead to cleavage of a nucleic acid at a defined distance from their recognition sites. The length of the adaptor is set so that the bPED nucleic acid fragment fits one-step sequencing.
    Type: Grant
    Filed: November 2, 2009
    Date of Patent: July 9, 2013
    Assignee: Academia Sinica
    Inventor: Kuo Ping Chiu
  • Patent number: 8428882
    Abstract: There is provided a method and system for processing and/or mapping ditag nucleotide sequence(s) to a genome, the ditag sequence comprising the 5? terminal tag and the 3? terminal tag of a nucleic acid molecule or fragment thereof or genomic fragment. The method of processing comprises preparing a database or file comprising at least one ditag sequence. The method of mapping comprises preparing a database or file of ditag(s), and mapping the ditag sequence(s) to the genome, comprising matching the 5? and the 3? terminal tags of the ditag sequence to at least a portion of the genome.
    Type: Grant
    Filed: June 14, 2005
    Date of Patent: April 23, 2013
    Assignee: Agency for Science, Technology and Research
    Inventors: Kuo Ping Chiu, Yijun Ruan, Chia Lin Wei
  • Publication number: 20120231508
    Abstract: A method of generating a barcoded Paired-End Ditag (bPED) nucleic acid fragment is disclosed. The method comprises: a) performing a first ligation by ligating a half-adaptor with one or two 3?-overhanging ends to a target nucleic acid to obtain a nucleic acid fragment with two ends each attached to one of the half-adaptor, the half adaptor comprising a half-barcode and a restriction enzyme (RE) recognition site; b) performing a second ligation by ligating two of the half-adaptor at the two ends of the nucleic acid fragment to form a circularized nucleic acid construct, wherein the circularized nucleic acid construct comprises a full-size barcoded adaptor; and c) digesting the circularized nucleic acid construct with a RE that cleaves at a defined distance from the RE recognition site, and thereby generating the bPED nucleic acid fragment.
    Type: Application
    Filed: March 9, 2012
    Publication date: September 13, 2012
    Applicant: Academia Sinica
    Inventors: Kuo Ping CHIU, Yi Chou, Sheng-Chung Chen
  • Publication number: 20110015096
    Abstract: Multiplex barcoded Paired-End Ditag (mbPED) library construction for ultra high throughput sequencing is disclosed. The mbPED library comprises multiple types of barcoded Paired-End Ditag (bPED) nucleic acid fragment constructs, each of which comprises a unique barcoded adaptor, a first tag, and a second tag linked to the first tag via the barcoded adaptor. The two tags are the 5?- and 3?-ends of a nucleic acid molecule from which they originate. The barcoded adaptor comprises a barcode, a first polynucleotide sequence comprising a first restriction enzyme (RE) recognition site, and a second polynucleotide sequence comprising a second RE recognition site and covalently linked to the first polynucleotide sequence via the barcode. The two REs lead to cleavage of a nucleic acid at a defined distance from their recognition sites. The length of the adaptor is set so that the bPED nucleic acid fragment fits one-step sequencing.
    Type: Application
    Filed: November 2, 2009
    Publication date: January 20, 2011
    Applicant: ACADEMIA SINICA
    Inventor: KUO PING CHIU