Patents by Inventor Muhammad A. Sharaf
Muhammad A. Sharaf 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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Patent number: 10196680Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: GrantFiled: June 5, 2017Date of Patent: February 5, 2019Assignee: APPLIED BIOSYSTEMS, LLCInventors: Muhammad A. Sharaf, Timothy Woudenberg, Khairuzzaman Bashar Mullah
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Publication number: 20170275678Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: ApplicationFiled: June 5, 2017Publication date: September 28, 2017Inventors: Muhammad A. Sharaf, Timothy Woudenberg, Khairuzzaman Bashar Mullah
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Patent number: 9677126Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: GrantFiled: August 19, 2016Date of Patent: June 13, 2017Assignee: APPLIED BIOSYSTEMS, LLCInventors: Muhammad A. Sharaf, Timothy Woudenberg, Khairuzzaman Bashar Mullah
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Publication number: 20160355877Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: ApplicationFiled: August 19, 2016Publication date: December 8, 2016Inventors: Muhammad A. SHARAF, Timothy WOUDENBERG, Khairuzzaman Bashar MULLAH
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Patent number: 9434982Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: GrantFiled: July 2, 2015Date of Patent: September 6, 2016Assignee: Applied Biosystems LLCInventors: Muhammad A. Sharaf, Timothy Woudenberg, Khairuzzaman Bashar Mullah
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Publication number: 20150307925Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: ApplicationFiled: July 2, 2015Publication date: October 29, 2015Inventors: Muhammad A. SHARAF, Timothy WOUDENBERG, Khairuzzaman Bashar MULLAH
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Patent number: 9074252Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: GrantFiled: December 20, 2013Date of Patent: July 7, 2015Assignee: Applied Biosystems, LLCInventors: Muhammad A. Sharaf, Timothy Woudenberg, Khairuzzaman Bashar Mullah
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Publication number: 20140170656Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: ApplicationFiled: December 20, 2013Publication date: June 19, 2014Applicant: LIFE TECHNOLOGIES CORPORATIONInventors: Muhammad A. SHARAF, Timothy WOUDENBERG, Khairuzzaman Bashar MULLAH
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Patent number: 8637247Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: GrantFiled: August 21, 2012Date of Patent: January 28, 2014Assignee: Applied Biosystems, LLCInventors: Muhammad Sharaf, Timothy Woudenberg, Khairuzzaman Bashar Mullah
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Publication number: 20120316083Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: ApplicationFiled: August 21, 2012Publication date: December 13, 2012Applicant: LIFE TECHNOLOGIES CORPORATIONInventors: Muhammad A. Sharaf, Timothy M. Woudenberg, Khairuzzaman Bashar Mullah
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Publication number: 20110223596Abstract: The present invention generally relates to the detection of analytes, particularly biomolecules in samples. The invention also relates to compositions, methods, and kits for detecting the presence of analytes, typically in multiplex detection formats. The invention also relates to methods for determining the presence of at least one analyte in a sample, the methods employing employ single molecule detection techniques to individually detect at least one molecular complex or at least part of a molecular complex.Type: ApplicationFiled: February 18, 2011Publication date: September 15, 2011Applicant: Life Technologies CorporationInventors: Timothy M. WOUDENBERG, Dar Bahatt, Muhammad A. Sharaf, Timothy Z. Liu, Serguei Ermakov, Charles R. Connell, Jens J. Hyldig-Nielsen
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Publication number: 20100291548Abstract: The present disclosure relates to methods of identifying target nucleic acids by using coded molecules and its analysis by translocation through a nanopore. Generally, coded molecules are subject to a target polynucleotide dependent modification. The modified coded molecule is detected by isolating the modified coded molecules from the unmodified coded molecules prior to analysis through the nanopore or by detecting a change in the signal pattern of the coded molecule when analyzed through the nanopore.Type: ApplicationFiled: March 12, 2007Publication date: November 18, 2010Applicant: Applera CorporationInventors: Muhammad A. Sharaf, Timothy M. Woudenberg, Khairuzzaman Bashar Mullah
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Publication number: 20100276580Abstract: Aspects of the present invention provide a method and apparatus of generating a calibration matrix for a spectral detector instrument. A calibration plate contains one or more dye mixtures in each well of the calibration plate at known absolute concentration. From the calibration plate, aspects of the present invention are used to prepare a concentration matrix based on the dyes used in the assay and the different dye mixtures used in the calibration plate. An excitation source exposes the calibration plate causing the spectral species in each of the wells to fluoresce. The emission spectra for the different dye mixtures of dyes as gathered by the spectral detector instrument at different points in the range of spectra is used to generate a spectral matrix. Bilinear calibration is performed on the concentration matrix and the spectral matrix as to determine a calibration matrix relating spectra directly to absolute concentrations.Type: ApplicationFiled: November 3, 2009Publication date: November 4, 2010Applicant: LIFE TECHNOLOGIES CORPORATIONInventors: Muhammad A. Sharaf, Wanli Bi, Kenneth J. Livak
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Publication number: 20100112572Abstract: The teachings herein generally relates to probes comprising fabricated coded molecular tags for detecting analytes. The teachings also relate to compositions, methods, and kits for fabricating coded molecular tags comprising a multiplicity or reporter groups in an ordered pattern.Type: ApplicationFiled: July 21, 2009Publication date: May 6, 2010Applicant: LIFE TECHNOLOGIES CORPORATIONInventors: Timothy M. Woudenberg, Dar Bahatt, Muhammad A. Sharaf, Timothy Z. Liu, Serguei Ermakov, Charles R. Connell, Jens J. Hyldig-Nielsen, Benjamin Schroeder, Paolo Vatta
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Publication number: 20100105886Abstract: The present teachings generally relate to probes and probes sets for detecting analytes. The teachings also relates to compositions, methods, and kits for assembling probes comprising at least one coded molecular tag.Type: ApplicationFiled: July 21, 2009Publication date: April 29, 2010Applicant: LIFE TECHNOLOGIES CORPORATIONInventors: Timothy M. Woudenberg, Dar Bahatt, Muhammad A. Sharaf, Timothy Z. Liu, Serguei Ermakov, Charles R. Connell
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Publication number: 20100096548Abstract: The invention relates to methods, compositions, and systems for calibrating a fluorescent polynucleotide separation apparatus. One aspect of the invention is multiple color calibration standards and their use. A multiple color calibration standard is a mixture of at least two polynucleotides of different length, wherein each of the polynucleotides is labeled with a spectrally distinct fluorescent dye. Another aspect of the invention is to produce total emission temporal profiles of multiple color calibration standards for use in calibrating fluorescent polynucleotide separation apparatus. The peaks corresponding to the fluorescently labeled polynucleotides in the total emission temporal profile may be detected using a peak detector that is driven by changes in the slopes of the total emission temporal profile.Type: ApplicationFiled: December 22, 2009Publication date: April 22, 2010Applicant: Applied Biosystems, LLCInventors: Muhammad A. Sharaf, Maria C. Roque-Biewer
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Publication number: 20090280497Abstract: The present invention generally relates to the detection of analytes, particularly biomolecules in samples. The invention also relates to compositions, methods, and kits for detecting the presence of analytes, typically in multiplex detection formats. The invention also relates to methods for determining the presence of at least one analyte in a sample, the methods employing employ single molecule detection techniques to individually detect at least one molecular complex or at least part of a molecular complex.Type: ApplicationFiled: June 26, 2009Publication date: November 12, 2009Applicant: LIFE TECHNOLOGIES CORPORATIONInventors: Timothy M. Woudenberg, Dar Bahatt, Muhammad A. Sharaf, Timothy Z. Liu, Serguei Ermakov, Charles R. Connell, Jens J. Hyldig-Nielsen
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Publication number: 20080001099Abstract: Aspects of the present invention provide a method and apparatus of generating a calibration matrix for a spectral detector instrument. A calibration plate contains one or more dye mixtures in each well of the calibration plate at known absolute concentration. From the calibration plate, aspects of the present invention are used to prepare a concentration matrix based on the dyes used in the assay and the different dye mixtures used in the calibration plate. An excitation source exposes the calibration plate causing the spectral species in each of the wells to fluoresce. The emission spectra for the different dye mixtures of dyes as gathered by the spectral detector instrument at different points in the range of spectra is used to generate a spectral matrix. Bilinear calibration is performed on the concentration matrix and the spectral matrix as to determine a calibration matrix relating spectra directly to absolute concentrations.Type: ApplicationFiled: July 1, 2006Publication date: January 3, 2008Inventors: MUHAMMAD A. SHARAF, Wanli Bi, Kenneth J. Livak
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Publication number: 20070249001Abstract: The present invention generally relates to the detection of analytes, particularly biomolecules in samples. The invention also relates to compositions, methods, and kits for detecting the presence of analytes, typically in multiplex detection formats. The invention also relates to methods for determining the presence of at least one analyte in a sample, the methods employing employ single molecule detection techniques to individually detect at least one molecular complex or at least part of a molecular complex.Type: ApplicationFiled: March 23, 2007Publication date: October 25, 2007Applicant: Applera CorporationInventors: Timothy Woudenberg, Dar Bahatt, Muhammad Sharaf, Timothy Liu, Serguei Ermakov, Charles Connell, Jens Hyldig-Nielsen
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Patent number: 7198900Abstract: The present invention generally relates to the detection of analytes, particularly biomolecules in samples. The invention also relates to compositions, methods, and kits for detecting the presence of analytes, typically in multiplex detection formats. The invention also relates to methods for determining the presence of at least one analyte in a sample, the methods employing employ single molecule detection techniques to individually detect at least one molecular complex or at least part of a molecular complex.Type: GrantFiled: August 29, 2003Date of Patent: April 3, 2007Assignee: Applera CorporationInventors: Timothy M. Woudenberg, Dar Bahatt, Muhammad A. Sharaf, Timothy Z. Liu, Serguei Ermakov, Charles R. Connell, Jens J. Hyldig-Nielsen