Patents Assigned to The Perkin-Elmer Corporation
  • Publication number: 20010007905
    Abstract: Extended rhodamine compounds exhibiting favorable fluorescence characteristics having the structure 1
    Type: Application
    Filed: February 9, 2001
    Publication date: July 12, 2001
    Applicant: The Perkin-Elmer Corporation
    Inventors: Joe Y.L. Lam, Scott C. Benson, Steven M. Menchen
  • Patent number: 6258569
    Abstract: Provided is a method of nucleic acid amplification. In one embodiment, the method comprises performing nucleic acid amplification on a target polynucleotide using a nucleic acid polymerase having 5′ to 3′ nuclease activity, a primer capable of hybridizing to the target polynucleotide, and an oligonucleotide probe under amplification conditions such that the probe hybridizes to the target polynucleotide 3′ relative to the primer and the probe does not hybridize with itself to form a hairpin structure. The oligonucleotide probe has at one end a fluorescent reporter and at the other end a quencher that quenches the fluorescence of the reporter molecule when both the fluorescent reporter and quencher are attached to the probe. Digestion of the oligonucleotide probe by the polymerase during amplification is effective to separate the reporter from the quencher, whereby a fluorescence signal of the reporter is increased.
    Type: Grant
    Filed: November 8, 1999
    Date of Patent: July 10, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Kenneth J. Livak, Susan J. A. Flood, Jeffrey Mamoro, Khairuzzaman Bashar Mullah
  • Patent number: 6258539
    Abstract: The present invention relate to methods and compositions for simultaneously analyzing multiple different polynucleotides of a polynucleotide composition comprising multiple diverse polynucleotide sequences. The subject methods and compositions may also be applied to analyze or identify single polynucleotides; however, the subject methods and compositions are particularly useful for analyzing large diverse populations of polynucleotides, e.g., cDNA libraries. Most embodiments of the invention involve hybridizing terminus probes (of known base sequence) to adapter-modified restriction fragment generated from polynucleotide for analysis, and subsequently joining the terminus probes and internal fragment probes to each other. The terminus probe hybridizes to bases of restriction endonuclease recognition site present at the terminus of a restriction fragment generated from the polynucleotide for analysis.
    Type: Grant
    Filed: April 30, 1999
    Date of Patent: July 10, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Michael W. Hunkapiller, John H. Richards
  • Patent number: 6248884
    Abstract: Extended rhodamine compounds exhibiting favorable fluorescence characteristics having the structure are disclosed. In addition, novel intermediates for synthesis of these dyes are disclosed, such intermediates having the structure In addition, methods of making and using the dyes as fluorescent labels are disclosed.
    Type: Grant
    Filed: June 3, 1999
    Date of Patent: June 19, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Joe Y. L. Lam, Scott C. Benson, Steven M. Menchen
  • Patent number: 6248568
    Abstract: Propargylethoxyamino nucleosides are disclosed having the structure wherein R1 and R2 are —H, lower alkyl, or label; B is a 7-deazapurine, purine, or pyrimidine nucleoside base; W1 is —H or —OH; W2 is —OH or a moiety which renders the nucleoside incapable of forming a phosphodiester bond at the 3′-position; and W3 is —PO4, —P2O7, —P3O10, phosphate analog, or —OH. Additionaly, a primer extension method is provided employing the above propargylethoxyamino nucleosides.
    Type: Grant
    Filed: June 18, 1998
    Date of Patent: June 19, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Shaheer H. Khan, Steven M. Menchen, Barnett B. Rosenblum
  • Patent number: 6248239
    Abstract: The present invention includes a method of analyzing one or more molecular components in a mixture of components. In the method, a mixture of molecular components, i.e., an analyte mixture, is separated on a capillary liquid chromatography column. The component-containing eluate from the column is deposited as a series of discrete, defined-volume microdrops, along a region of an adsorbent collection layer. During the chromatographic separation, the column eluate may also be monitored to detect the presence of separated components in the eluate. The one or more components deposited in the collection layer are then analyzed by selected analytical techniques. In related aspect, the invention includes a method of collecting one or more molecular components derived from a mixture of components, a blotter apparatus useful in the above method, and a system for analyzing one or more molecular components in a mixture of components.
    Type: Grant
    Filed: July 2, 1997
    Date of Patent: June 19, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Kuo-Liang Hsi, Jindong Zhao, Michael Kochersperger, William E. Werner, Pau-Miau Yuan
  • Patent number: 6231739
    Abstract: A multi-channel capillary electrophoresis apparatus is disclosed. The apparatus includes a capillary array assembly comprising a plurality of capillaries, each capillary having a capillary outlet, and an outlet support for supporting the capillary outlets. The apparatus further includes a cuvette defining a receiving slot, a gap region, and a detection zone, where the receiving slot is adapted to removably receive the outlet support, and wherein when the outlet support is inserted into the receiving slot, the capillary outlets are positioned in the gap region in proximity to the detection zone, and a flow channel is formed by the outlet support and the receiving slot such that the flow channel is in fluid communication with the gap region. In addition, the apparatus includes a front plumbing block in fluid communication with the flow channel for supplying a fluid flow through the gap region sufficient to transport material downstream from the capillary outlets to the detection zone.
    Type: Grant
    Filed: July 21, 2000
    Date of Patent: May 15, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Eric S. Nordman, John Shigeura, Albert L. Carrillo, David M. Demorest, Philip J. Wunderle
  • Patent number: 6232067
    Abstract: The present invention relate to methods and compositions for simultaneously analyzing multiple different polynucleotides of a polynucleotide composition comprising multiple diverse polynucleotide sequences. The subject methods and compositions may also be applied to analyze or identify single polynucleotides; however, the subject methods and compositions are particularly useful for analyzing large diverse populations of polynucleotides, e.g., cDNA libraries. Most embodiments of the invention involve hybridizing terminus probes (of known base sequence) and internal fragment probes (of known base sequence) at adjacent positions on an adapter-modified restriction fragment generated from polynucleotide for analysis, and subsequently joining the terminus probes and internal fragment probes to each other. The terminus probe hybridizes to bases of restriction endonuclease recognition site present at the terminus of a restriction fragment generated from the polynucleotide for analysis.
    Type: Grant
    Filed: August 17, 1998
    Date of Patent: May 15, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Michael W. Hunkapiller, John H. Richards
  • Patent number: 6221606
    Abstract: Dibenzorhodamine compounds having the structure are disclosed, including nitogen- and aryl-substituted forms thereof. In addition, two intermediates useful for synthesizing such compounds are disclosed, a first intermediate having the structure including nitrogen- and aryl-substituted forns thereof, and a second intermediate having the structure including nitrogen- and aryl-substituted forms thereof, wherein substituents at positions C-14 to C18 taken separately are selected from the group consisting of hydrogen, chlorine, fluorine, lower alky, carboxylic acid, sulfonic acid, —CH2OH, alkoxy, phenoxy, linking group, and substituted forms thereof. The invention further includes energy transfer dyes comprising the dibenzorhodamine compounds, nucleosides labeled with the dibenzorhodamine compounds, and nucleic acid analysis methods employing the dibenzorhodamine compounds.
    Type: Grant
    Filed: April 20, 2000
    Date of Patent: April 24, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Scott C. Benson, Joe Y. L. Lam, Steven Michael Menchen
  • Patent number: 6197555
    Abstract: A nucleoside/tide compound having the structure NUC-L-S-LB/LG is described wherein NUC is a nucleoside/tide having a nucleobase portion B, L is a rigid linkage, S is a spacer; and LB/LG is a member of a linkage pair or a label. NUC is attached to L through B such that when B is a purine, L is attached to the 8-position of the purine, when B is 7-deazapurine, L is attached to the 7-position of the 7-deazapurine, and when B is pyrimidine, L is attached to the 5-position of the pyrimidine. In an important aspect of the invention, L has the structure wherein each of n, o and p are integers ranging from 0 to 3, and the sum of n, o and p is at least 2, and each of W, X, Y and Z is selected from the group consisting of carbon and nitrogen. The invention further includes polynucleotide compounds comprising the nucleoside/tide, and primer extension methods utilizing the nucleoside/tide, particularly when used in combination with certain mutant polymerase enzymes.
    Type: Grant
    Filed: December 14, 1999
    Date of Patent: March 6, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Shaheer H. Khan, Barnett B. Rosenblum, Weiguo Zhen, Steven M. Menchen
  • Patent number: 6176991
    Abstract: A serpentine electrophoresis channel, e.g., for a microchip format, is disclosed. The channel includes pairs of linear segments, e.g., parallel or right-angle segments, each joined by an angled channel region having a first curved channel portion subtending an angle &agr;f>&agr;, where &agr; is the angle between segments in a pair, and a second curved channel portion subtending an angle &agr;s=&agr;f−&agr;. The angles and cross-sections of the two channel portions are such that &dgr;tf, the time differential of analyte migration at inner and outer tracks in the first curved portion is equal to &dgr;ts, the time differential of analyte migration at outer and inner tracks in the second curved portion, respectively.
    Type: Grant
    Filed: November 12, 1998
    Date of Patent: January 23, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventor: Eric S. Nordman
  • Patent number: 6175006
    Abstract: A method and system for polynucleotide synthesis are provided which employ solid phase synthesis on a nonswellable porous polystyrene support by phosphoramidite or hydrogen phosphonate chemistries. The polystyrene support gives rise to fewer tritylated failure sequences caused by chain growth from extraneous support sites, and allows lower amounts of monomer reactants to be used to achieve equal or better coupling efficiencies as those achieveable with CPG. The method and system also employ nucleoside intermediates whose exocyclic amines are protected by base-labile groups which permit simultaneous cleavage and deprotection of the completed polynucleotide chain in the presence of the solid phase support. This latter feature allows practical automation of both the synthesis and purification of polynucleotides.
    Type: Grant
    Filed: March 30, 1999
    Date of Patent: January 16, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: William A. Andrus, Christie D. McCollum, Gerald Zon
  • Patent number: 6171463
    Abstract: The present invention relates to the electrophoretic separation of bio-organic molecules using a slab gel electrophoresis apparatus having a pair of spaced, confronting plates defining a multi-lane separation zone adapted to hold a separation medium and an upper loading zone. In one aspect of the invention, at least one of the plates is shaped to provide an expanded loading zone. The plate-to-plate distance within the expanded loading zone is greater than the plate-to-plate width within the separation zone. In another aspect of the invention, a comb is provided with each tooth having a gradual taper beginning at a support member and extending along most of the tooth's longitudinal axis, and a sharp taper beginning immediately beyond the gradual taper and extending to the end of the tooth.
    Type: Grant
    Filed: April 28, 1999
    Date of Patent: January 9, 2001
    Assignee: The Perkin-Elmer Corporation
    Inventors: Barton G. Selby, Johan Goudberg, Binh Vo, David Clark, Thomas Sch{grave over (e)}fer, Munechika Sakabe
  • Patent number: 6168701
    Abstract: The invention relates to improved methods and compositions for loading samples into an analytical instrument having a plurality of sample receiving loading ports. In a principle embodiment of the invention, first and second sample markers are added to sample to be loaded onto an analytical instrument having a plurality of sample receiving loading ports. The first and second samples are compounds are selected so as to produce a distinctive signal upon combination thus a sample containing a first sample marker and a sample containing a second marker are mistakenly loaded into the same sample receiving loading port, a detectable signal indicative of the misloading is produced.
    Type: Grant
    Filed: April 30, 1999
    Date of Patent: January 2, 2001
    Assignee: The Perkins-Elmer Corporation
    Inventors: Shiaw-Min Chen, Cheryl R. Heiner, Adam L. Lowe
  • Patent number: 6162341
    Abstract: A multi-channel capillary electrophoresis apparatus is disclosed. The apparatus includes a capillary array assembly comprising a plurality of capillaries, each capillary having a capillary outlet, and an outlet support for supporting the capillary outlets. The apparatus further includes a cuvette defining a receiving slot, a gap region, and a detection zone, where the receiving slot is adapted to removably receive the outlet support, and wherein when the outlet support is inserted into the receiving slot, the capillary outlets are positioned in the gap region in proximity to the detection zone, and a flow channel is formed by the outlet support and the receiving slot such that the flow channel is in fluid communication with the gap region. In addition, the apparatus includes a front plumbing block in fluid communication with the flow channel for supplying a fluid flow through the gap region sufficient to transport material downstream from the capillary outlets to the detection zone.
    Type: Grant
    Filed: September 11, 1998
    Date of Patent: December 19, 2000
    Assignee: The Perkin-Elmer Corporation
    Inventors: Eric S. Nordman, John Shigeura, Albert L. Carrillo, David M. Demorest, Philip J. Wunderle
  • Patent number: 6159368
    Abstract: The present invention provides multi-well plates and column arrays in which samples (e.g., cell lysates containing nucleic acids of interest, such as RNA) can be analyzed and/or processed. In one embodiment, the microfiltration arrangement is a multilayer structure, including (i) a column plate having an array of minicolumns into which samples can be placed, (ii) a discrete filter element disposed in each minicolumn, (iii) a drip-director plate having a corresponding array of drip directors through which filtrate may egress, and (iv) a receiving-well plate having a corresponding array of receiving wells into which filtrate can flow. The invention provides multi-well microfiltration arrangements that are relatively simple to manufacture and that overcome many of the problems associated with is the prior arrangements relating to (i) cross-contamination due to wicking across a common filter sheet or (ii) individual filter elements entrapping sample constituents within substantial dead volumes.
    Type: Grant
    Filed: October 29, 1998
    Date of Patent: December 12, 2000
    Assignee: The Perkin-Elmer Corporation
    Inventors: Stephen E. Moring, Kevin S. Bodner, Jason H. Halsey, Jon Hoshizaki, Joseph Jackson, Alfred P. Madden, Mark F. Oldham, Mark T. Reed
  • Patent number: 6146511
    Abstract: An electrophoretic method for purifying a nucleic acid sample is disclosed. The method generally comprises the steps of (1) providing a nucleic acid sample comprising a desired nucleic acid and one or more contaminants, (2) providing an electrophoresis matrix having a loading well and a recovery well formed therein, (3) placing the nucleic acid sample into the loading well, (4) performing a first electrophoresis comprising electrophoresing the nucleic acid sample for a first time effective to transport the desired nucleic acid out of the loading well and into the electrophoresis matrix; and (5) performing a second electrophoresis comprising electrophoresing the nucleic acid sample for a second time effective to transport the desired nucleic acid out of the electrophoresis matrix and into the recovery well.
    Type: Grant
    Filed: January 30, 1998
    Date of Patent: November 14, 2000
    Assignees: The Perkin-Elmer Corporation, The University of Ottawa
    Inventors: Gary Slater, J. William Efcavitch, Guy Drouin, Pascal Mayer, Jean Rousseau, Hong Yan Zhou, Claudia Chiesa, Robert Ruhfel, Roger O'Neill
  • Patent number: 6143252
    Abstract: A pipetting device for use with a pipette tip containing a solid phase reaction support, comprising a cylinder, a plunger movable within the cylinder between a retracted and an extended position, and a seal disposed between the plunger and cylinder for holding the plunger as it moves. The plunger has a central passageway within an upper portion of the plunger communicating with a side egress port on the plunger, the plunger movable between a retracted position, for aspirating and dispensing liquid reagent wherein the port remains above the seal, and an inserted position wherein the port is positioned below the seal for allowing fluid (e.g., washing solution or inert gas) to be introduced into the cylinder and tip. In an apparatus and method, an array of such devices is used, each fitted with a pipette tip having a solid support retained therein, for performing high-throughput and parallel chemical synthesis of biopolymers (e.g., oligonucleotides or peptides).
    Type: Grant
    Filed: April 12, 1999
    Date of Patent: November 7, 2000
    Assignee: The Perkin-Elmer Corporation
    Inventors: Francis Theodore Haxo, Jr., Liang Boon Hoe
  • Patent number: 6138082
    Abstract: For conversion of spectral information of an FTIR spectrometric instrument for comparison with that of a dispersion instrument, a first standard function is selected for spectral line shape for the first instrument, and a second standard function for line shape is selected for the second instrument. A conversion factor is computed for converting the first standard function to the second standard function. In ordinary operations, first spectral information is obtained with the first instrument for a first sample, and second spectral information is obtained with the second instrument for a second sample. The conversion factor is applied to the first spectral information to effect converted information, and the converted information is compared with the second spectral information. Such conversion also is applied between chromatographic instruments.
    Type: Grant
    Filed: December 18, 1997
    Date of Patent: October 24, 2000
    Assignee: The Perkin Elmer Corporation
    Inventors: Yongdong Wang, Alan M. Ganz, David H. Tracy, David A. Huppler, John P. Coates
  • Patent number: 6132582
    Abstract: A sample handling system in a multi-channel capillary electrophoresis apparatus is disclosed. The sample handling system includes a work surface for supporting a plurality of samples located at a plurality of work surface coordinates and a sample loading assembly comprising a plurality of loading wells. At least one of the loading wells includes a capillary fixedly positioned therein. The system further includes a programmable sample transfer device for automatically transferring a sample from a work surface coordinate to a loading well. The invention further includes methods for using the sample handling system.
    Type: Grant
    Filed: September 14, 1998
    Date of Patent: October 17, 2000
    Assignee: The Perkin-Elmer Corporation
    Inventors: Howard Gregg King, John Shigeura, Eric S. Nordman, Sean Matthew Desmond