US Patent No: 6,007,987

Number of patents in Portfolio can not be more than 2000

Positional sequencing by hybridization

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Abstract

This invention is directed to methods and reagents useful for sequencing nucleic acid targets utilizing sequencing by hybridization technology comprising probes, arrays of probes and methods whereby sequence information is obtained rapidly and efficiently in discrete packages. That information can be used for the detection, identification, purification and complete or partial sequencing of a particular target nucleic acid. When coupled with a ligation step, these methods can be performed under a single set of hybridization conditions. The invention also relates to the replication of probe arrays and methods for making and replicating arrays of probes which are useful for the large scale manufacture of diagnostic aids used to screen biological samples for specific target sequences. Arrays created using PCR technology may comprise probes with 5'- and/or 3'-overhangs.

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First Claim

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Patent Owner(s)

Patent OwnerAddressTotal Patents
TRUSTEES OF BOSTON UNIVERSITYBOSTON, MA468

International Classification(s)

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  • [Patents Count]

Inventor(s)

Inventor Name Address # of filed Patents Total Citations
Cantor, Charles R Boston, MA 89 1481
Przetakiewicz, Marek Boston, MA 2 189
Sano, Takeshi Waltham, MA 124 1006
Smith, Cassandra L Boston, MA 20 492

Cited Art

Patent Info (Count) # Cites Year
 
BIOPROBE SYSTEMS, 33, RUE DE LA BRECHE AUX LOUPS, F-75012 PARIS (FRANCE) (1)
5,073,483 Method of staining nucleic acids detected by non-radioactive labelling and kit of reactants for carrying out the method 14 1989
 
GENE-TRAK SYSTEMS (1)
5,112,734 Target-dependent synthesis of an artificial gene for the synthesis of a replicatable RNA 52 1989
 
GESELLSCHAFT FUER BIOTECHNOLOGISCHE FORSCHUNG MBH (GBF) (1)
5,114,839 Process for DNA sequencing using oligonucleotide bank 24 1990
 
HYSEQ, INC. (1)
5,202,231 Method of sequencing of genomes by hybridization of oligonucleotide probes 436 1991
 
LIFE TECHNOLOGIES, INC. (1)
5,106,727 Amplification of nucleic acid sequences using oligonucleotides of random sequences as primers 83 1990
 
MILES INC. (1)
4,808,520 Labelling of oligonucleotides 15 1985
 
NEDERLANDSE ORGANISATIE VOOR TOEGEPAST-NATUURWETENSCHAPPELIJK ONDERZOEK TNO (1)
5,068,176 Method for the simultaneous determination of DNA sequence variations at a large number of sites, and a kit suitable therefor 23 1989
 
PRESIDENT AND FELLOWS OF HARVARD COLLEGE (1)
5,149,625 Multiplex analysis of DNA 139 1990
 
SBHG CORPORATION (1)
5,002,867 Nucleic acid sequence determination by multiple mixed oligonucleotide probes 314 1988
 
SYNGENTA LIMITED (1)
5,137,806 Methods and compositions for the detection of sequences in selected DNA molecules 76 1989
 
UNIVERSITY OF UTAH (1)
5,112,736 DNA sequencing using fluorescence background electroblotting membrane 79 1989

Patent Citation Ranking

Forward Cites

Patent Info (Count) # Cites Year
 
PROMEGA CORPORATION (11)
6,335,162 Nucleic acid detection 9 1998
6,235,480 Detection of nucleic acid hybrids 56 1999
6,391,551 Detection of nucleic acid hybrids 50 1999
6,703,211 Cellular detection by providing high energy phosphate donor other than ADP to produce ATP 0 1999
6,312,902 Nucleic acid detection 55 1999
6,270,973 Multiplex method for nucleic acid detection 50 1999
6,270,974 Exogenous nucleic acid detection 44 1999
6,268,146 Analytical methods and materials for nucleic acid detection 71 1999
6,653,078 Multiplex method for nucleic acid detection 9 2001
6,730,479 Detection of nucleic acid hybrids 0 2001
7,090,975 Pyrophosphorolysis and incorporation of nucleotide method for nucleic acid detection 23 2001
 
HITACHI, LTD. (5)
6,288,220 DNA probe array 88 1999
6,391,562 DNA probe array 30 2001
6,955,878 Apparatus for analyzing samples using linear probe array 9 2002
7,368,238 Method for manufacturing a DNA probe array 0 2004
7,364,850 DNA probe array 0 2004
 
SEQUENOM, INC. (5)
7,803,529 Solid phase sequencing of biopolymers 0 1999
7,198,893 DNA diagnostics based on mass spectrometry 39 2000
6,991,903 Solid phase sequencing of double-stranded nucleic acids 6 2002
7,501,251 DNA diagnostics based on mass spectrometry 35 2006
7,759,065 Mass spectrometric methods for detecting mutations in a target nucleic acid 0 2008
 
ILLUMINA, INC. (4)
8,361,713 System and apparatus for sequential processing of analytes 0 2007
7,960,119 Combinatorial decoding of random nucleic acid arrays 1 2009
RE43097 Massively parallel signature sequencing by ligation of encoded adaptors 0 2010
8,206,917 Combinatorial decoding of random nucleic acid arrays 0 2011
 
SOMALOGIC, INC. (4)
6,544,776 Nucleic acid ligand diagnostic biochip 12 2000
7,709,192 Nucleic acid ligand diagnostic biochip 2 2003
8,071,288 Methods and reagents for detecting target binding by nucleic acid ligands 0 2008
7,855,054 Multiplexed analyses of test samples 4 2008
 
AFFYMETRIX, INC. (3)
7,056,666 Analysis of surface immobilized polymers utilizing microfluorescence detection 23 2002
7,329,496 Sequencing of surface immobilized polymers utilizing microflourescence detection 5 2006
8,236,493 Methods of enzymatic discrimination enhancement and surface-bound double-stranded DNA 0 2008
 
APPLIED BIOSYSTEMS, LLC (2)
8,431,691 Reagents, methods, and libraries for bead-based sequencing 0 2008
8,329,404 Reagents, methods, and libraries for bead-based sequencing 0 2012
 
TRUSTEES OF BOSTON UNIVERSITY (2)
7,319,003 Arrays of probes for positional sequencing by hybridization 0 1998
6,660,229 Use of nucleotide analogs in the analysis of oligonucleotide mixtures and in highly multiplexed nucleic acid sequencing 8 2001
 
ALERE SAN DIEGO, INC. (1)
7,270,951 Method for direct nucleic acid sequencing 5 2000
 
CALLIDA GENOMICS, INC. (1)
6,297,006 Methods for sequencing repetitive sequences and for determining the order of sequence subfragments 44 1997
 
CAMPASS GENETICS LLC (1)
7,217,522 Genetic analysis by sequence-specific sorting 5 2005
 
KARUBE, ISAO (1)
6,391,546 Method for detecting target nucleotide sequence 2 1998
 
M.G.V.S., LTD (1)
7,767,201 Vascular cells genetically altered to over-express angiogenic proliferation and maturation factors; treatment of atherosclerosis using same 0 2003
 
MERCK & CO., INC. (1)
6,713,257 Gene discovery using microarrays 15 2001
 
NISSHINBO INDUSTRIES, INC. (1)
6,777,181 Method for separating and collecting nucleic acids 2 2001
 
OLYMPUS CORPORATION (1)
7,550,276 Method of detecting nucleic acid 0 2003
 
PICOLITER INC. (1)
6,806,051 Arrays of partially nonhybridizing oligonucleotides and preparation thereof using focused acoustic energy 12 2001
 
POPULATION GENETICS TECHNOLOGIES (1)
7,407,757 Genetic analysis by sequence-specific sorting 0 2005
 
POPULATION GENETICS TECHNOLOGIES LTD. (1)
7,365,179 Multiplexed analytical platform 0 2004
 
SHINKATSU MORISAWA (1)
6,824,980 Isometric primer extension method and kit for detection and quantification of specific nucleic acid 0 2001
 
U.S. GENOMICS, INC. (1)
7,371,520 Methods and apparati using single polymer analysis 11 2003
 
YALE UNIVERSITY (1)
6,403,319 Analysis of sequence tags with hairpin primers 28 2000
 
OTHER [CHECK PATENT PROFILE FOR ASSIGNMENT INFORMATION] (1)
6,379,898 Nucleic acid detection 9 2001