Labelled (e.g., Tagged With Radioactive Tracer, Fluorescent Marker, Intercalator, Etc.) Patents (Class 536/26.6)
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Patent number: 7678542Abstract: The present invention relates to novel phosphoramidites, including positive and neutrally charged compounds. The present invention also provides charge tags for attachment to materials including solid supports and nucleic acids, wherein the charge tags increase or decrease the net charge of the material. The present invention further provides methods for separating and characterizing molecules based on the charge differentials between modified and unmodified materials.Type: GrantFiled: June 3, 2008Date of Patent: March 16, 2010Assignee: Third Wave Technologies, Inc.Inventors: Victor Lyamichev, Zbigniev Skrzypczynski, Hatim T. Allawi, Sarah R. Wayland, Tsetska Y. Takova, Bruce P. Neri, James R. Prudent, Jeff G. Hall
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Patent number: 7678894Abstract: The disclosure provides nucleotide analogs and methods of their use. Analogs of the invention comprise a reporter molecule (label) attached via the N4, N6, O4, or O6 position of the nitrogenous base portion of the analog. In a preferred embodiment, nucleotide analogs of the invention comprise a label attached to the nitrogenous base portion of the analog via a cleavable linker at the N4, O4, N6 or O6 position.Type: GrantFiled: May 18, 2007Date of Patent: March 16, 2010Assignee: Helicos Biosciences CorporationInventor: Suhaib Siddiqi
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Patent number: 7674585Abstract: This invention pertains to the field of combination oligomers, including the block synthesis of combination oligomers in the absence of a template, as well as related methods, kits, libraries and other compositions.Type: GrantFiled: December 22, 2006Date of Patent: March 9, 2010Assignee: Boston Probes, Inc.Inventors: James M. Coull, Mark J. Fiandaca, Mark D. Kristjanson, Jens J. Hyldig-Nielsen, Theresa S. Creasey
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Patent number: 7671218Abstract: Reagents are provided for the introduction of phosphonate groups into fluorescent dyes. Methods are also provided for preparing dye conjugates.Type: GrantFiled: August 12, 2005Date of Patent: March 2, 2010Assignee: Elitech Holdings B.V.Inventors: Eugeny Lukhtanov, Alexei Vorobiev
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Patent number: 7666851Abstract: This invention relates to the field of nucleic acid chemistry, more specifically to the field of compositions and processes that are nucleic acid analogs. More specifically, it relates to purine analogs that contain three rings, where the third ring bridges the exocyclic substituent at position 6 to position 7, using the purine numbering system. Still more specifically it relates to analogs having this structure that are able to form nucleobase pairs having the Watson-Crick geometry with a pyrimidine or pyrimidine analog, where the nucleobase pair is joined by hydrogen bonding patterns that either present a standard hydrogen bonding pattern, or a non-standard hydrogen bonding pattern. Most specifically, it to nucleoside analogs that are analogs of isoguanosine, but where the 5-6 ring system of the purine ring in isoguanosine is fused to another five- or six-membered ring, where the fused ring joins the exocyclic amino group with an atom that is, by analogy, at position 7 of the isoguanine ring system.Type: GrantFiled: May 18, 2006Date of Patent: February 23, 2010Inventor: Steven Albert Benner
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Patent number: 7662550Abstract: The invention provides assays that can detect multiple genetic variants of a gene (e.g., a mycobacterial gene) in a sample using a pool (e.g., 2, 3, 4, or more) of oligonucleotide hybridization probes.Type: GrantFiled: October 13, 2000Date of Patent: February 16, 2010Assignee: PHRI Properties, Inc.Inventors: Sanjay Tyagi, Fred R. Kramer, David Alland
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Patent number: 7662555Abstract: The present invention provides a method for detecting a biomolecule. The method includes reacting a biomolecule sample with an organic EL-dye and measuring the fluorescence of the biomolecule sample labeled with the organic EL-dye. The method provides a highly sensitive method of detecting a biomolecule at lower cost.Type: GrantFiled: December 22, 2004Date of Patent: February 16, 2010Inventor: Shinichiro Isobe
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Patent number: 7662942Abstract: Oligonucleotide probes containing two labels are provided and are useful in hybridization assays. The probes can also contain a minor groove binding group.Type: GrantFiled: January 23, 2006Date of Patent: February 16, 2010Assignee: Elitech Holdings, B.V.Inventors: Michael W. Reed, Eugeny Alexander Lukhtanov, Alexander A. Gall, Robert O. Dempcy, Nicolaas M. J. Vermeulen
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Patent number: 7662938Abstract: A class of 2?-fluoro-nucleoside compounds are disclosed which are useful in the treatment of hepatitis B infection, hepatitis C infection, HIV and abnormal cellular proliferation, including tumors and cancer.Type: GrantFiled: November 19, 2007Date of Patent: February 16, 2010Assignees: Emory University, The University of Georgia Research Foundation, Inc.Inventors: Raymond F. Schinazi, Dennis C. Liotta, Chung K. Chu, J. Jeffrey McAtee, Junxing Shi, Yongseok Choi, Kyeong Lee, Joon H. Hong
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Patent number: 7659070Abstract: The present invention provides compounds, methods and systems for sequencing nucleic acid using single molecule detection. Using labeled NPs that exhibit charge-switching behavior, single-molecule DNA sequencing in a microchannel sorting system is realized. In operation, sequencing products are detected enabling real-time sequencing as successive detectable moieties flow through a detection channel. By electrically sorting charged molecules, the cleaved product molecules are detected in isolation without interference from unincorporated NPs and without illuminating the polymerase-DNA complex.Type: GrantFiled: October 26, 2007Date of Patent: February 9, 2010Assignee: Pacific Biosciences of California, Inc.Inventors: John G. K. Williams, Gregory R. Bashford, Jiyan Chen, Dan Draney, Nara Narayanan, Bambi L. Reynolds, Pamela Sheaff
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Patent number: 7655409Abstract: Cyanine dye compounds having a negatively charged substituent that are nucleic acid stains, particularly for fluorescent staining of DNA, including compounds having the formula wherein W forms one or two fused 5- or 6-membered aromatic rings, ? has a value of 0 or 1, n has a value of 0, or 1, X is O, S, or Se, and D is a pyridinium, or quinolinium moiety, provided that the compound has at least one negatively charged substituent.Type: GrantFiled: September 29, 2008Date of Patent: February 2, 2010Assignee: Life Technologies CorporationInventors: Jason Dallwig, David Hagen, Shih-Jung Huang, Gerald Thomas, Stephen Yue
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Patent number: 7645872Abstract: The invention provides a novel method of labeling oligonucleotides, with reporter moieties, including but not limited to, quenchers, fluorophores, biotin, digoxigenin, peptides and proteins. In addition, this invention provides a method of detecting hybridization of oligonucleotides. This invention also provides novel azo quenchers having the general formula shown below. The invention further provides compositions comprising labeled oligonucleotides and solid supports. The invention also provides kits comprising at least one composition of the present invention.Type: GrantFiled: August 4, 2009Date of Patent: January 12, 2010Assignee: Integrated DNA Technologies, Inc.Inventors: Andrei Laikhter, Joseph A. Walder, Mark Behlke, Mikhail Podyminogin, Yawfui Yong
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Patent number: 7642344Abstract: Methods and compounds, including compositions therefrom, are provided for determining the sequence of nucleic acid molecules. The methods permit the determination of multiple nucleic acid sequences simultaneously. The compounds are used as tags to generate tagged nucleic acid fragments which are complementary to a selected target nucleic acid molecule. Each tag is correlative with a particular nucleotide and, in a preferred embodiment, is detectable by mass spectrometry. Following separation of the tagged fragments by sequential length, the tags are cleaved from the tagged fragments. In a preferred embodiment, the tags are detected by mass spectrometry and the sequence of the nucleic acid molecule is determined therefrom. The individual steps of the methods can be used in automated format, e.g., by the incorporation into systems.Type: GrantFiled: June 21, 2007Date of Patent: January 5, 2010Assignee: Operon Biotechnologies, Inc.Inventors: Jeffrey Van Ness, John C Tabone, J Jeffry Howbert, John T Mulligan
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Publication number: 20090325260Abstract: The present invention provides methods and compositions for performing illuminated reactions, particularly sequencing reactions, while mitigating and/or preventing photodamage to reactants that can result from prolonged illumination. In particular, the invention provides methods and compositions for incorporating photoprotective agents into conjugates comprising reporter molecules and nucleoside polyphosphates.Type: ApplicationFiled: February 6, 2009Publication date: December 31, 2009Applicant: Pacific Biosciences of California, Inc.Inventors: Geoffrey Otto, Gene Shen, Xiangxu Kong, Robin Emig
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Patent number: 7638279Abstract: This invention pertains to the field of combination oligomers, including the block synthesis of combination oligomers in the absence of a template, as well as related methods, kits, libraries and other compositions.Type: GrantFiled: December 22, 2006Date of Patent: December 29, 2009Assignee: Boston Probes, Inc.Inventors: James M. Coull, Mark J. Fiandaca, Mark D. Kristjanson, Jens J. Hyldig-Nielsen, Theresa S. Creasey
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Patent number: 7635578Abstract: This invention provides methods for attaching a nucleic acid to a solid surface and for sequencing nucleic acid by detecting the identity of each nucleotide analogue after the nucleotide analogue is incorporated into a growing strand of DNA in a polymerase reaction. The invention also provides nucleotide analogues which comprise unique labels attached to the nucleotide analogue through a cleavable linker, and a cleavable chemical group to cap the —OH group at the 3?-position of the deoxyribose.Type: GrantFiled: August 20, 2007Date of Patent: December 22, 2009Assignee: The Trustees of Columbia University in the City of New YorkInventors: Jingyue Ju, Zengmin Li, John Robert Edwards, Yasuhiro Itagaki
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Patent number: 7629448Abstract: Methods, compositions and articles of manufacture for assaying a sample for a target polynucleotide are provided. A sample suspected of containing the target polynucleotide is contacted with a polycationic multichromophore and a sensor polynucleotide complementary to the target polynucleotide. The sensor polynucleotide comprises a signaling chromophore to receive energy from the excited multichromophore and increase emission in the presence of the target polynucleotide. The methods can be used in multiplex form. Kits comprising reagents for performing such methods are also provided.Type: GrantFiled: September 12, 2007Date of Patent: December 8, 2009Assignee: The Regents of the University of CaliforniaInventors: Guillermo C. Bazan, Brent S. Gaylord, Shu Wang
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Patent number: 7625701Abstract: The present invention provides compounds, methods and systems for sequencing nucleic acid using single molecule detection. Using labeled NPs that exhibit charged-switching behavior, single-molecule DNA sequencing in a microchannel sorting system is realized. In operation, sequencing products are detected enabling real-time sequencing as successive detectable moieties flow through a detection channel. By electrically sorting charged molecules, the cleaved product molecules are detected in isolation without interference from unincorporated NPs and without illuminating the polymerase-DNA complex.Type: GrantFiled: June 15, 2005Date of Patent: December 1, 2009Assignee: Pacific Biosciences of California, Inc.Inventors: John G. K. Williams, Gregory Bashford, Jiyan Chen, Dan Draney, Nara Narayanan, Bambi Reynolds, Pamela Sheaff
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Patent number: 7615348Abstract: The present disclosure provides methods and compositions for conducting an assay to detect a polynucleotide. In particular, ruthenium complexes having reduction potentials that do not coincide with the reduction potential of molecular oxygen are disclosed and amperometric techniques for their use are described. In preferred embodiments, the ruthenium complex is ruthenium (III) pentaamine pyridine and the polynucleotide that is detected is DNA. Further, techniques for enhancing detectable contrast between hybridized and unhybridized nucleic acids are disclosed. In particular, the use of elongated target strands as well as the use of uncharged probe strands are discussed.Type: GrantFiled: August 8, 2007Date of Patent: November 10, 2009Assignee: Genohm SciencesInventors: Donald M. Crothers, R. Erik Holmlin, Honghua Zhang, Chunnian Shi
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Patent number: 7605243Abstract: The invention provides a novel method of labeling oligonucleotides, with reporter moieties, including but not limited to, quenchers, fluorophores, biotin, digoxigenin, peptides and proteins. In addition, this invention provides a method of detecting hybridization of oligonucleotides. This invention also provides novel azo quenchers having the general formula shown below. The invention further provides compositions comprising labeled oligonucleotides and solid supports. The invention also provides kits comprising at least one composition of the present invention.Type: GrantFiled: January 12, 2009Date of Patent: October 20, 2009Assignee: Integrated DNA Technologies, Inc.Inventors: Andrei Laikhter, Joseph A. Walder, Mark Behlke, Mikhail Podyminogin, Yawfui Yong
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Patent number: 7595162Abstract: Novel linkers for linking a donor dye to an acceptor dye in an energy transfer fluorescent dye are provided. These linkers faciliate the efficient transfer of energy between a donor and acceptor dye in an energy transfer dye. One of these linkers for linking a donor dye to an acceptor dye in an energy transfer fluorescent dye has the general structure R21Z1C(O)R22R28 where R21 is a C1-5 alkyl attached to the donor dye, C(O) is a carbonyl group, Z1 is either NH, sulfur or oxygen, R22 is a substituent which includes an alkene, diene, alkyne, a five and six membered ring having at least one unsaturated bond or a fused ring structure which is attached to the carbonyl carbon, and R28 includes a functional group which attaches the linker to the acceptor dye.Type: GrantFiled: December 29, 2006Date of Patent: September 29, 2009Assignee: Applied Biosystems, LLCInventors: Linda G. Lee, Sandra L. Spurgeon, Barnett Rosenblum
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Patent number: 7592435Abstract: The invention is directed to modified guanine-containing nucleosides and nucleotides and uses thereof. More specifically, the invention relates to modified fluorescently labelled guanine-containing nucleosides and nucleotides which exhibit enhanced fluorophore intensity by virtue of reduced quenching effects.Type: GrantFiled: July 27, 2006Date of Patent: September 22, 2009Assignee: Illumina Cambridge LimitedInventors: John Milton, Xiaohai Liu
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Patent number: 7585624Abstract: A cryogenic detector is used for detection in a biological assay.Type: GrantFiled: March 5, 2004Date of Patent: September 8, 2009Assignee: University of LeicesterInventors: George William Fraser, Andrew David Holland, Gertrude Maria Schwarzacher, John Seymour Heslop-Harrison
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Patent number: 7566420Abstract: This invention pertains to the field of combination oligomers, including the block synthesis of combination oligomers in the absence of a template, as well as related methods, kits, libraries and other compositions.Type: GrantFiled: December 26, 2006Date of Patent: July 28, 2009Assignee: Boston Probes, Inc.Inventors: James M. Coull, Mark J. Fiandaca, Mark D. Kristjanson, Jens J. Hyldig-Nielsen, Theresa S. Creasey
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Patent number: 7566538Abstract: Nucleotides and nucleotide analogs are used in various sequencing by incorporation/sequencing by synthesis methods. Nucleotide analogs comprising 3?-blocking groups are used to provide reversible chain-termination for sequencing by synthesis. Typical blocking groups include phosphate groups and carbamate groups. Fluorescent nucleotides are used to perform sequencing by synthesis with detection by incorporation of the fluorescently labeled nucleotide, optionally followed by photobleaching and intercalating dyes are used to detect addition of a non-labeled nucleotide in sequencing by synthesis with detection by intercalation. Microfluidic devices, including particle arrays, are used in the sequencing methods.Type: GrantFiled: January 22, 2008Date of Patent: July 28, 2009Assignee: Caliper Lifesciences Inc.Inventors: J. Wallace Parce, Theo T. Nikiforov, Tammy Burd Mehta, Anne R. Kopf-Sill, Andrea W. Chow, Michael R. Knapp
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Patent number: 7553959Abstract: This invention provides for labeling reagents, labeled targets and processes for preparing labeling reagents. The labeling reagents can take the form of cyanine dyes, xanthene dyes, porphyrin dyes, coumarin dyes or composite dyes. These labeling reagents are useful for labeling probes or targets, including nucleic acids and proteins. These reagents can be usefully applied to protein and nucleic acid probe based assays. They are also applicable to real-time detection processes.Type: GrantFiled: January 23, 2004Date of Patent: June 30, 2009Assignee: Enzo Life Sciences, Inc.Inventors: Jannis G. Stavrianopoulos, Elazar Rabbani
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Patent number: 7553949Abstract: Disclosed herein a reversible terminator nucleotides and methods of use.Type: GrantFiled: June 14, 2007Date of Patent: June 30, 2009Assignee: Applied Biosystems, LLCInventors: Linda G. Lee, Gerald Zon
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Patent number: 7553624Abstract: The present invention provides a method of analyzing the physiological function of a target substance by inactivating the physiological function of the target substance, comprising the steps of: (a) binding to the target substance a photoactive compound represented by formula (I): (in the formula, Q is a group for binding this compound with the target substance) to form a composite comprising the target substance and the photoactive compound; and (b) irradiating the obtained composite with light to inactivate the function of the target substance to which the photoactive compound has been bound, or to inactivate the function of the target substance at the site where the photoactive compound has been bound.Type: GrantFiled: May 20, 2004Date of Patent: June 30, 2009Assignee: Japan Science & Technology AgencyInventors: Takeharu Nagai, Atsushi Miyawaki
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Patent number: 7550570Abstract: A set of 4,7-dichlororhodamine compounds useful as fluorescent dyes are disclosed having the structures wherein R1-R6 are hydrogen, fluorine, chlorine, lower alkyl, lower alkene, lower alkyne, sulfonate, sulfone, amino, amido, nitrile, lower alkoxy, linking group, or, when taken together, R1 and R6 is benzo, or, when taken together, R4 and R5 is benzo; R7-R10, R12-R16 and R18 may be hydrogen, fluorine, chlorine, lower alkyl, lower alkene, lower alkyne, sulfonate, sulfone, amino, amido, nitrile, lower alkoxy, linking group; R11 and R17 may be hydrogen, lower alkyl, lower alkene, lower alkyne, phenyl, aryl, linking group; Y1-Y4 are hydrogen, lower alkyl, or cycloalkyl, or, when taken together, Y1 and R2, Y2 and R1 Y3 and R3, and/or Y4 and R4 is propano, ethano, or substituted forms thereof; and X1-X3 taken separately are hydrogen, chlorine, fluorine, lower alkyl, carboxylate, sulfonate, hydroxymethyl, and linking group, or any combinations thereof.Type: GrantFiled: February 26, 2004Date of Patent: June 23, 2009Assignee: Applied Biosystems, LLC.Inventors: Linda G. Lee, Scott C. Benson, Barnett B. Rosenblum, Sandra L. Spurgeon, Ronald J. Graham
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Patent number: 7547775Abstract: The present invention provides massively parallel oligonucleotide synthesis and purification for applications that utilize large collections of defined high-fidelity oligonucleotides (e.g., from about 101 to about 105 different sequences, generally between 25-160 bases in length).Type: GrantFiled: January 3, 2006Date of Patent: June 16, 2009Assignee: Affymetrix, Inc.Inventors: Robert G. Kuimelis, Glenn H. McGall
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Patent number: 7547530Abstract: Labelled nucleotides and polynucleotides useful in the sequencing of nucleic acids are described. Methods of preparing photocleavable marker nucleotides and photocleavable marker-polynucleotide conjugates are described. Such photocleavable markere nucleotides can be incorporated into nucleic acid so as to create photocleavable marker-polynucleotide conjugates.Type: GrantFiled: February 9, 2006Date of Patent: June 16, 2009Assignee: AmberGen, Inc.Inventors: Jerzy Olejnik, Edyta Krzymanska-Olejnik, Kenneth J. Rothschild
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Patent number: 7541448Abstract: The invention is directed to an oligonucleotide comprising a molecular rod, wherein preferentially the molecular rod covalently connects the 3? end of a first nucleotide residue with the 5? end of a second nucleotide residue. Such oligonucleotides are highly advantageous for real time PCR melting curve analysis.Type: GrantFiled: December 2, 2004Date of Patent: June 2, 2009Assignee: Roche Diagnostis Operations, Inc.Inventors: Dieter Heindl, Astrid Reiser, Karim Tabiti, Martina Junius, Alexander Hauber
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Patent number: 7541444Abstract: The invention provides modified nucleotide or nucleoside molecule comprising a purine or pyrimidine base and a ribose or deoxyribose sugar moiety having a removable 3?-OH blocking group covalently attached thereto, such that the 3? carbon atom has attached a group of the structure —O-Z wherein Z is any of —C(R?)2-O—R?, —C(R?)2-N(R?)2, —C(R?)2-N(H)R?, —C(R?)2-S—R? and —C(R?)2-F, wherein each R? is or is part of a removable protecting group; each R? is independently a hydrogen atom, an alkyl, substituted alkyl, arylalkyl, alkenyl, alkynyl, aryl, heteroaryl, heterocyclic, acyl, cyano, alkoxy, aryloxy, heteroaryloxy or amido group, or a detectable label attached through a linking group; or (R?)2 represents an alkylidene group of formula ?C(R??)2 wherein each R?? may be the same or different and is selected from the group comprising hydrogen and halogen atoms and alkyl groups; and wherein said molecule may be reacted to yield an intermediate in which each R? is exchanged for H or, where Z is —C(R?)2-F, the F is exType: GrantFiled: August 22, 2003Date of Patent: June 2, 2009Assignee: Illumina Cambridge LimitedInventors: John Milton, Xiaolin Wu, Mark Smith, Joseph Brennan, Colin Barnes, Xiaohai Liu, Silke Ruediger
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Patent number: 7537751Abstract: This invention provides for labeling reagents, labeled targets and processes for preparing labeling reagents. The labeling reagents can take the form of cyanine dyes, xanthene dyes, porphyrin dyes, coumarin dyes or composite dyes. These labeling reagents are useful for labeling probes or targets, including nucleic acids and proteins. These reagents can be usefully applied to protein and nucleic acid probe based assays. They are also applicable to real-time detection processes.Type: GrantFiled: January 22, 2004Date of Patent: May 26, 2009Assignee: Enzo Life Science, Inc.Inventors: Jannis G. Stavrianopoulos, Elazar Rabbani
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Patent number: 7524942Abstract: Embodiments of labeled nucleotide compositions are described. Methods are described in which a sample containing RNA is contacted with an enzyme having an RNA ligation activity in the presence of a labeled nucleotide composition to provide labeled RNA. Methods of performing an array analysis of a labeled RNA sample are also described.Type: GrantFiled: July 31, 2006Date of Patent: April 28, 2009Assignee: Agilent Technologies, Inc.Inventors: Hui Wang, Jeffrey R. Sampson
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Patent number: 7517646Abstract: A process for producing a functional molecule includes a forming step which forms a modified nucleotide n-mer (where, n represents an integer) containing a modified nucleoside prepared by introducing a substituent into a nucleoside composing a nucleic acid; and a producing step which produces a modified oligonucleotide sequence by randomly polymerizing the modified nucleotide n-mer. A preferable embodiment thereof includes a selecting step which selects a sequence having an affinity to a target from the modified oligonucleotide sequence, a determining step which amplifies the selected modified oligonucleotide sequence and determines the base sequence thereof, and a translating step which translates the sequence of the modified oligonucleotide sequence on the basis of a relation table prepared by relating at least one of 4n kinds of nucleotide n-mers, which are presented in the relation table prepared by the one-to-one combination of 4 kinds of nucleosides, to a modified nucleotide n-mer.Type: GrantFiled: September 17, 2004Date of Patent: April 14, 2009Assignee: Fujitsu LimitedInventors: Tsuyoshi Fujihara, Shozo Fujita, Shunsaku Takeishi
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Patent number: 7514551Abstract: The present invention provides multisignal labeling reagents and these are useful in a number of biochemical applications, including the manufacture of biomolecular probes and their use in detecting or amplifying analyte-specific moieties.Type: GrantFiled: April 3, 2003Date of Patent: April 7, 2009Assignee: Enzo Life Sciences, Inc.Inventors: Elazar Rabbani, Jannis G. Stavrianopoulos, James J. Donegan
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Patent number: 7504496Abstract: The present invention provides novel, water-soluble, red-emitting fluorescent rhodamine dyes and red-emitting fluorescent energy-transfer dye pairs, as well as labeled conjugates comprising the same and methods for their use. The dyes, energy-transfer dye pairs and labeled conjugates are useful in a variety of aqueous-based applications, particularly in assays involving staining of cells, protein binding, and/or analysis of nucleic acids, such as hybridization assays and nucleic acid sequencing.Type: GrantFiled: February 14, 2005Date of Patent: March 17, 2009Inventors: Linda G. Lee, Ronald J. Graham, William E. Werner, Elana Swartzman, Lily Lu
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Patent number: 7504215Abstract: In one aspect of the invention, a method is provided for end-labeling RNA (total RNA, mRNA, cRNA or fragmented RNA). In one aspect of the present invention, T4 RNA ligase is used to attach a 3?-labeled AMP or CMP donor to an RNA acceptor molecule. In another embodiment, a pyrophosphate molecule 3?-AppN-3?-linker-detectable moiety is used as donor molecule.Type: GrantFiled: November 4, 2004Date of Patent: March 17, 2009Assignee: Affymetrix, Inc.Inventors: Kyle B. Cole, Vivi Truong, Glenn H. McGall, Anthony D. Barone
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Patent number: 7504495Abstract: The present invention provides novel quencher composition comprising anthraquinone quencher moieties. The anthraquinone quencher moieties are useful as quencher labels when attached to biomolecules such as natural or modified polynucleotides, oligonucleotides, nucleosides, nucleotides, carbohydrates and peptides. For example, polynucleotides can be labeled at the 3? terminus with fluorescence quencher solid support compositions, and polynucleotides can be labeled at internally or at the 5? terminus. The detectable probes may have a format like molecular beacons, scorpion probes, sunrise probes, conformationally assisted probes and TaqMan probes.Type: GrantFiled: November 19, 2004Date of Patent: March 17, 2009Assignee: Exiqon A/SInventors: Christian Lomholt, Henrik M. Pfundheller, Michael Meldgaard
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Patent number: 7504499Abstract: Disclosed are methods of attaching biologically active compounds to a solid surface, comprising modifying the solid surface using triazine chloride and attaching the biologically active compound to the triazine moiety.Type: GrantFiled: November 10, 2005Date of Patent: March 17, 2009Assignee: Illumina, Inc.Inventors: Chanfeng Zhao, Igor Kozlov, Galina Steinberg-Tatman
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Patent number: 7501504Abstract: The invention relates to detectable labels useful for detection of nucleotide sequences. Specifically, the invention relates to labeled-imidazole-PEG compounds, such as nucleosides, nucleotides, and nucleic acids incorporating such compounds, and methods utilizing such compounds. The invention further relates to kits comprising labeled imidazole-PEG compounds.Type: GrantFiled: April 30, 2007Date of Patent: March 10, 2009Assignee: Roche Molecular Systems, Inc.Inventors: Veeraiah Bodepudi, Amar Gupta, Stephen Gordon Will
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Publication number: 20090061437Abstract: The invention provides for nucleotide analogs and methods of using the same, e.g., for sequencing nucleic acids.Type: ApplicationFiled: April 4, 2008Publication date: March 5, 2009Applicant: HELICOS BIOSCIENCES CORPORATIONInventors: J. William Efcavitch, Suhaib Siddiqi, Philip R. Buzby, Judith Mitchell, Edyta Krzymanska-Olejnik, Subramanian Marappan, Xiaopeng Bai, Atanu Roy, Mirna Jarosz, Jayson Bowers
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Patent number: 7485442Abstract: Oligonucleotide probes/conjugates are provided along with method for their use in assays to monitor amplification wherein the signal produced does not rely on 5? nuclease digestion.Type: GrantFiled: June 19, 2006Date of Patent: February 3, 2009Assignee: Epoch Biosciences, Inc.Inventors: Irina A. Afonina, Yevgeniy S. Belousov, Robert O. Dempcy, Igor V. Kutyavin, Sergey G. Lokhov, Eugeny A. Lukhtanov
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Patent number: 7485427Abstract: This invention relates to agents and conjugates that can be used to detect and isolate target components from complex mixtures such as nucleic acids from biological samples, cells from bodily fluids, and nascent proteins from translation reactions. Agents comprise a detectable moiety bound to a photoreactive moiety. Conjugates comprise agents coupled to substrates by covalent bounds which can be selectively cleaved with the administration of electromagnetic radiation. Targets substances labeled with detectable molecules can be easily identified and separated from a heterologous mixture of substances. Exposure of the conjugate to radiation releases the target in a functional form and completely unaltered. Using photocleavable molecular precursors as the conjugates, label can be incorporated into macromolecules, the nascent macromolecules isolated and the label completely removed.Type: GrantFiled: July 16, 2007Date of Patent: February 3, 2009Assignee: The Trustees of Boston UniversityInventors: Kenneth J. Rothschild, Sanjay M. Sonar, Jerzy Olejnik
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Patent number: 7482444Abstract: This invention concerns novel terminating substrates for DNA polymerases. The substrates are nucleoside triphosphates labeled with lanthanide chelates.Type: GrantFiled: February 26, 2007Date of Patent: January 27, 2009Assignee: Wallac OyInventor: Jari Hovinen
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Publication number: 20090023594Abstract: The present invention relates to labelling kits containing novel non-natural nucleotide monomers and to methods of making and using such compounds. The invention further relates to a method of detecting the presence of a nucleic acid, e.g., RNA, of interest in a sample, the method having the following steps: providing the sample; ligating a nucleic acid of interest with a labelling reagent according to the instant invention; providing a nucleic acid array having probes directed to the nucleic acid of interest; hybridizing the labelled nucleic acid fragments to said nucleic acid array; and determining the extent of hybridization to said probes to determine the presence of the nucleic acid of interest.Type: ApplicationFiled: November 29, 2007Publication date: January 22, 2009Applicant: EXIQON A/SInventors: Peter Mouritzen, Christian Lomholt, Soren Morgenthaler Echwald, Mikkel Noerholm
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Patent number: 7476735Abstract: The invention provides a novel method of labeling oligonucleotides, with reporter moieties, including but not limited to, quenchers, fluorophores, biotin, digoxigenin, peptides and proteins. In addition, this invention provides a method of detecting hybridization of oligonucleotides. This invention also provides novel azo quenchers having the general formula shown below. The invention further provides compositions comprising labeled oligonucleotides and solid supports. The invention also provides kits comprising at least one composition of the present invention.Type: GrantFiled: May 22, 2006Date of Patent: January 13, 2009Assignee: Integrated DNA Technologies, Inc.Inventors: Andrei Laikhter, Joseph A. Walder, Mark Behlke, Mikhail Podyminogin, Yawful Yong
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Publication number: 20090012282Abstract: Compositions and methods for detecting 5-methylcytosine in a nucleic acid are disclosed. A 5-methylcytosine discriminator, which is a deoxyribonucleosidetriphosphate comprising a cytosine-pairing moiety such as a guanosine and a moiety which hinders hydrogen bonding between the cytosine-pairing moiety and a 5-methylcytosine is described. The discriminator is able to base pair with a cytosine but not a 5-methylcytosine. A 5-methylcytosine comprised by a target nucleotide can be detected in a reaction using a DNA polymerase and a primer hybridized immediately adjacent to the target nucleotide. In the reaction, pyrophosphate released upon incorporation of a dNTP complementary to a target nucleotide is detected. Lack of incorporation of the discriminator, but incorporation of a dGTP, can indicate that the target nucleotide is a 5-methylcytosine.Type: ApplicationFiled: June 10, 2008Publication date: January 8, 2009Applicant: APPLERA CORPORATIONInventor: GERALD ZON
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Patent number: 7468432Abstract: The invention provides cobalamin compounds linked to a neutron capture therapy target (e.g. Boron-10 or Gadolinium-157), and optionally linked to a detectable moiety, as well as pharmaceutical compositions comprising the compounds, and methods for using the compounds in medical diagnosis and therapy.Type: GrantFiled: February 12, 2004Date of Patent: December 23, 2008Assignees: Mayo Foundation for Medical Education and Research, Regents of the University of MinnesotaInventors: Douglas A. Collins, Henricus P. C. Hogenkamp