|
|  Get related patents on CD |
| United States Patent | 7364851 |
| Link to this page | http://www.wikipatents.com/7364851.html |
| Inventor(s) | Berlin; Andrew (San Jose, CA), Kirch; Steven J. (Pleasanton, CA), Neubauer; Gabi (Los Gatos, CA), Rao; Valluri (Saratoga, CA), Yamakawa; Mineo (Campbell, CA) |
| Abstract | The methods, compositions and apparatus disclosed herein are of use for
nucleic acid sequence determination. The methods involve isolation of one
or more nucleic acid template molecules and polymerization of a nascent
complementary strand of nucleic acid, using a DNA or RNA polymerase or
similar synthetic reagent. As the nascent strand is extended one
nucleotide at a time, the disappearance of nucleotide precursors from
solution is monitored by Raman spectroscopy or FRET. The nucleic acid
sequence of the nascent strand, and the complementary sequence of the
template strand, may be determined by tracking the order of incorporation
of nucleotide precursors during the polymerization reaction. Certain
embodiments concern apparatus comprising a reaction chamber and detection
unit, of use in practicing the claimed methods. The methods, compositions
and apparatus are of use in sequencing very long nucleic acid templates
in a single sequencing reaction. |
| |
|
Title Information  |
|
|
|
|
|
|
| Publication Date |
April 29, 2008 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
| Parent Case |
This application is a divisional application of U.S. Ser. No. 09/962,288,
filed Sep. 24, 2001, now U.S. Pat. No. 6,852,492, issued Feb. 8, 2005.
The disclosure of the prior application is considered part of and is
incorporated by reference in the disclosure of this application. |
|
|
|
|
|
|
|
|
|
|
|
|
|
Title Information  |
|
|
References  |
|
|
| *references marked with an asterisk below are user-added references |
|
U.S. References |
|
|
| Add a new US reference: |
| | Reference | Relevancy | Comments | Reference | Relevancy | Comments | 7056661 Korlach et al.
Jun,2006 |      Your vote accepted [0 after 0 votes] | | 6982165 Yamakawa et al.
Jan,2006 |      Your vote accepted [0 after 0 votes] | | 6852492 Berlin et al.
Feb,2005 |      Your vote accepted [0 after 0 votes] | | 2003/0064366 Hardin et al.
Apr,2003 |      Your vote accepted [0 after 0 votes] | | 2002/0102595 Davis
Aug,2002 |      Your vote accepted [0 after 0 votes] | | 6232075 Williams
May,2001 |      Your vote accepted [0 after 0 votes] | | 6225068 Wolfrum
May,2001 |      Your vote accepted [0 after 0 votes] | | 6214246 Craighead
Apr,2001 |      Your vote accepted [0 after 0 votes] | | 6210896 Chan
Apr,2001 |      Your vote accepted [0 after 0 votes] | | 6197503 Vo-Dinh et al.
Mar,2001 |      Your vote accepted [0 after 0 votes] | | 6180372 Franzen et al.
Jan,2001 |      Your vote accepted [0 after 0 votes] | | 6174677 Vo-Dinh
Jan,2001 |      Your vote accepted [0 after 0 votes] | | 6140053 Koster
Oct,2000 |      Your vote accepted [0 after 0 votes] | | 6136543 Anazawa et al.
Oct,2000 |      Your vote accepted [0 after 0 votes] | | 6127120 Graham et al.
Oct,2000 |      Your vote accepted [0 after 0 votes] | | 6090589 Dimond et al.
Jul,2000 |      Your vote accepted [0 after 0 votes] | | 6054263 Danssaert et al.
Apr,2000 |      Your vote accepted [0 after 0 votes] | | 6017742 Takenishi et al.
Jan,2000 |      Your vote accepted [0 after 0 votes] | | 6002471 Quake
Dec,1999 |      Your vote accepted [0 after 0 votes] | | 5986076 Rothschild et al.
Nov,1999 |      Your vote accepted [0 after 0 votes] | | 5945283 Kwok et al.
Aug,1999 |      Your vote accepted [0 after 0 votes] | | 5919622 Macho et al.
Jul,1999 |      Your vote accepted [0 after 0 votes] | | 5867266 Craighead
Feb,1999 |      Your vote accepted [0 after 0 votes] | | 5866336 Nazarenko et al.
Feb,1999 |      Your vote accepted [0 after 0 votes] | | 5814516 Vo-Dinh
Sep,1998 |      Your vote accepted [0 after 0 votes] | | 5814454 Ju
Sep,1998 |      Your vote accepted [0 after 0 votes] | | 5783389 Vo-Dinh
Jul,1998 |      Your vote accepted [0 after 0 votes] | | 5776674 Ulmer
Jul,1998 |      Your vote accepted [0 after 0 votes] | | 5721102 Vo-Dinh
Feb,1998 |      Your vote accepted [0 after 0 votes] | | 5707804 Mathies et al.
Jan,1998 |      Your vote accepted [0 after 0 votes] | | 5705018 Hartley
Jan,1998 |      Your vote accepted [0 after 0 votes] | | 5674743 Ulmer
Oct,1997 |      Your vote accepted [0 after 0 votes] | | 5610287 Nikiforov et al.
Mar,1997 |      Your vote accepted [0 after 0 votes] | | 5603872 Margalit
Feb,1997 |      Your vote accepted [0 after 0 votes] | | 5405766 Kallury et al.
Apr,1995 |      Your vote accepted [0 after 0 votes] | | 5405747 Jett et al.
Apr,1995 |      Your vote accepted [0 after 0 votes] | | 5401411 Andersson
Mar,1995 |      Your vote accepted [0 after 0 votes] | | 5306403 Vo-Dinh
Apr,1994 |      Your vote accepted [0 after 0 votes] | | 5277556 Van Lintel
Jan,1994 |      Your vote accepted [0 after 0 votes] | | 5271724 Van Lintel
Dec,1993 |      Your vote accepted [0 after 0 votes] | | 5171132 Miyazaki et al.
Dec,1992 |      Your vote accepted [0 after 0 votes] | | 5126022 Soane et al.
Jun,1992 |      Your vote accepted [0 after 0 votes] | | 5038853 Callaway et al.
Aug,1991 |      Your vote accepted [0 after 0 votes] | | 4962037 Jett et al.
Oct,1990 |      Your vote accepted [0 after 0 votes] | | 4800159 Mullis et al.
Jan,1989 |      Your vote accepted [0 after 0 votes] | | 4683202 Mullis
Jul,1987 |      Your vote accepted [0 after 0 votes] | | July 1987
Jul,1987 |      Your vote accepted [0 after 0 votes] | | | | | |
|
|
|
|
U.S. References |
|
|
Foreign References |
|
|
|
|
|
|
Foreign References |
|
|
Other References |
|
|
| Add a new Other reference: |
| Post related web sites and other references in this section |
| | Reference | Relevancy | Comments | Machara, N. et al., Efficient Detection of Single Molecules Eluting Off an Optically Trapped Microsphere, Bioimaging 6 (1998), 33-42, 1998. cited by other. May,2008 |      Your vote accepted [0 after 0 votes] | | Szollosi et al. (1998). "Application of Fluorescence Resonance Energy Transfer in the Clinical Laboratory: Routine and Research," Cytometry (Communications in Clinical Cytometry) 34:159-179. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Sambrook et al. eds. (1989). Molecular Cloning: A Labratory Manual. Cold Spring Harbor Laboratory Press: Cold Spring Harbor, NY, xi-xxxviii Table of Contents. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Russell et al. (1995). "Design and Performance of an Ultraviolet Resonance Raman Spectrometer for Proteins and Nucleic Acids," Biophysical Journal 68:1607-1612. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Running and Urdea. (1990). "A Procedure for Productive Coupling of Synthetic Oligonucleotides to Polystrene Microtiter Wells for Hybridization Capture," BioTechniques 8(3):276-277. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Richter et al. (1991). "A micromachined electrohydrodynamic (EHD) pump," Sensors and Actuators A 29:159-168. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Rasmussen et al. (1991). "Covalent Immobilization of DNA onto Polystyrene Microwells: The Molecules are only Bound to the 5' Side," Analytical Biochemistry 198: 138-142. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Rao et al. (2001). "Four Color Fret Dye Nucleotide Terminators for DNA Sequencing," Nucleosides, Nucleotides, & Nucleic Acids 20(4-7):673-676. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Ni et al. (1990). "Flow Injection Analysis and Real-Time Detection of RNA Bases of Surface-Enhanced Raman Spectroscopy," Anal. Chem. 62:1958-1963. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Newton et al. (1993). "The production of PCR products with 5' single-stranded tails using primers that incorporate novel phosphoramide intermediates," Nucleic Acids Research 21(5):115-1162. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Neoh et al. (1999). "Rapid detection of the factor V Leiden (1691 G>A) and haemochromatosis (845G>A) mutation by fluorescence resonance energy transfer (FRET) and real time PCR," Journal of Clinical Pathology 52:766-769. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Nampalli et al. (2001). "Fluorescence Resonance Energy Transfer Dye Nucleotide Terminators: A New Synthetic Approach for High-Throughput DNA Sequencing," Nucleosides, Nucleotides, & Nucleic Acids 20(4-7): 361-367. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Mansy and Peticolas. (1976). "Detection of the Sites of Alkylation in DNA and Polynucleotides by Laser Raman Spectroscopy," Biochemistry 15(12):2650-2655. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Ju et al. (1995). "Fluorescence energy transfer dye-labeled primers for DNA sequencing and analysis," Procedures of the National Academy of Sciences of USA 92:4347-4351. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Holmstrom et al. (1993). "A Highly Sensitive and Fast Nonradioactive Method for Detection of Polymerase Chain Reaction Products," Analytical Biochemistry 209:278-283. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Graham et al. (2000). "Detection and Identification of Labeled DNA by Surface Enhanced Resonance Raman Scattering," Biopolymers (Biospectroscopy) 57:85-91. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Goodwin et al. (1996). "Single-Molecule Detection in Liquids by Laser-Induced Fluorescence," Acc. Chem. Res. 29:607-613. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Goodman and Tippin. (2000). "The Expanding Polymerase Universe," National Review of Molecular Cell Biology 1:101-109. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Craighead, H.G. (2000). "Nanoelectromechanical Systems," Science 290:1532-1535. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Berger and Kimmel, eds. (1987). Methods in Enzymology vol. 152: Guide to Molecular Cloning Techniques. Academic Press, Inc.: New York, NY, v-x Table of Contents. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Benevides and Thomas. (1983). "Characterization of DNA structures by Raman spectroscopy: high-salt and low-salt forms of double helical poly(dG-dC) in H20 and D20 solutions and applications to B, Z, and A-DNA," Nucleic Acids Research
11(16):5747-5761. cited by other
. May,2008 |      Your vote accepted [0 after 0 votes] | | Syvanen, A.-C., "Detection of sequence variation using primer extension", in "Mutation Detection. A Practical Approach", Cotto R.G.H., editor, Oxford University Press (1998). cited by examiner
. May,2008 |      Your vote accepted [0 after 0 votes] | | Vo-Dinh, T. et al., "Surface-Enhanced Raman Gene Probes", Anal. Chem., vol. 66, pp. 3379-3383 (1994). cited by examiner
. May,2008 |      Your vote accepted [0 after 0 votes] | | Thomas, G. J. Jr et al., "Studies of Virus Structure by Laser-Raman Spectroscopy", J Mol. Biol., vol. 102, pp. 103-124 (1976). cited by examiner
. May,2008 |      Your vote accepted [0 after 0 votes] | | Cotton, T. M. et al., "Application of Surface-Enhanced Raman Spectroscopy to Biological Systems", J. Raman Spectroscopy, vol. 22, pp. 729-742 (1991). cited by examiner
. May,2008 |      Your vote accepted [0 after 0 votes] | | Kneipp, K. et al., "Near-Infrared Surface-enhanced Raman Scattering (NIR SERS) on Colloidal Silver and Gold", Applied Spectroscopy, vol. 48, pp. 951-955 (1994). cited by examiner
. May,2008 |      Your vote accepted [0 after 0 votes] | | Furey, W.S. et al., Biochemistry, vol. 37, pp. 2979-2990 (1998). cited by examiner
. May,2008 |      Your vote accepted [0 after 0 votes] | | |
|
|
|
|
Other References |
|
|
|
|
|
References  |
|