Controlled alignment of nanobarcodes encoding specific...

Details Controlled alignment of nanobarcodes encoding specific... Controlled alignment of nanobarcodes encoding specific...

2008-04-22

2008-04-22

Lu, Frank (Department: 1634)

Nanotechnology

Nanostructure

Integrated with dissimilar structures on a common substrate

C977S728000, C977S734000, C977S742000, C977S773000, C977S774000, C435S006120, C435S091100, C536S023100, C536S024300, C536S025300

Reexamination Certificate

active

10251152

ABSTRACT:
The methods, apparatus and compositions disclosed herein concern the detection, identification and/or sequencing of biomolecules, such as nucleic acids or proteins. In certain embodiments of the invention, coded probes comprising a probe molecule attached to one or more nanobarcodes may be allowed to bind to one or more target molecules. After binding and separation from unbound coded probes, the bound coded probes may be aligned on a surface and analyzed by scanning probe microscopy. The nanobarcodes may be any molecule or complex that is distinguishable by SPM, such as carbon nanotubes, fullerenes, submicrometer metallic barcodes, nanoparticles or quantum dots. Where the probes are oligonucleotides, adjacent coded probes hybridized to a target nucleic acid may be ligated together before alignment and SPM analysis. Compositions comprising coded probes are also disclosed herein. Systems for biomolecule analysis may comprise a scanning probe microscopy (SPM) instrument and at least one coded probe attached to a surface.

REFERENCES:
patent: 3772200 (1973-11-01), Livesay
patent: 4053433 (1977-10-01), Lee
patent: 4683195 (1987-07-01), Mullis
patent: 4683202 (1987-07-01), Mullis
patent: 4800159 (1989-01-01), Mullis
patent: 5401511 (1995-03-01), Margalit
patent: 5405766 (1995-04-01), Kallury
patent: 5427930 (1995-06-01), Birkenmeyer et al.
patent: 5451505 (1995-09-01), Dollinger
patent: 5472881 (1995-12-01), Beebe
patent: 5538898 (1996-07-01), Wickramasinghe et al.
patent: 5603872 (1997-02-01), Margalit
patent: 5610287 (1997-03-01), Nikiforov
patent: 5620854 (1997-04-01), Holzrichter et al.
patent: 5776674 (1998-07-01), Ulmer
patent: 5840862 (1998-11-01), Bensimon et al.
patent: 5986076 (1999-11-01), Rothschild
patent: 6013456 (2000-01-01), Akhavan-Tafti
patent: 6054327 (2000-04-01), Bensimon et al.
patent: 6060237 (2000-05-01), Nygren et al.
patent: 6187823 (2001-02-01), Haddon
patent: 6225055 (2001-05-01), Bensimon et al.
patent: 6225068 (2001-05-01), Wolfrum
patent: 6248537 (2001-06-01), Bensimon et al.
patent: 6258401 (2001-07-01), Crowley
patent: 6265153 (2001-07-01), Bensimon et al.
patent: 6280939 (2001-08-01), Allen
patent: 6283812 (2001-09-01), Jin
patent: 6297592 (2001-10-01), Goren
patent: 6303094 (2001-10-01), Kusunoki et al.
patent: 6303296 (2001-10-01), Bensimon et al.
patent: 6319670 (2001-11-01), Sigal et al.
patent: 6344319 (2002-02-01), Bensimon et al.
patent: 6358375 (2002-03-01), Schwob
patent: 6361944 (2002-03-01), Mirkin et al.
patent: 6432715 (2002-08-01), Nelson et al.
patent: 6459758 (2002-10-01), Lee et al.
patent: 6537755 (2003-03-01), Drmanac
patent: 2002/0034827 (2002-03-01), Singh et al.
patent: 2003/0148289 (2003-08-01), Sundararajan et al.
patent: 2003/0165935 (2003-09-01), Vann et al.
patent: WO 92/15709 (1992-09-01), None
patent: WO97/15390 (1997-05-01), None
patent: WO 98/04740 (1998-02-01), None
patent: WO 00/29617 (2000-05-01), None
patent: WO 00/68692 (2000-11-01), None
patent: WO 01/25002 (2001-04-01), None
patent: WO 02/32404 (2002-04-01), None
Attached definition for “barcode”.
Blondel, et al., “Giant Magnetoresistance of Nanowires of Multilayers”,Am Inst of Phys. 65(23):3018-3021, (Dec. 5, 1994).
Martin, et al., “Orthogonal Self-Assembly on Colloidal Gold-Platinum Nanorods”,Adv Mat. 11(12)1021-1025, (1999).
Martin, Charles, “Membrane-Based Synthesis of Nanomaterials”,Chem. Mater. 8:1739-1746, (1996).
Piraux, et al., “Giant Magnetorsistance in Magnetic Multilayered Nanowires”,Appl. Phys. Lett. 65(19):2484-2486, (1994).
Boutorine, Alexandre S. et al., “Fullerene-Oligionucleotide Conjugates: Photo-Induced Sequence-Specific DNA Cleavage”,Angewandte Chemie. 33(23/24):2462-2465, 1995.
Ando, Toshio, et al., “A High-Speed Atomic Force Microscope for Studying Biological Macromolecules,”PNAS, vol. 98, No. 22, pp. 12468-12472, Oct. 2001.
Huang, Yu, et al., “Directed Assembly of One-Dimensional Nanostructures into Functional Networks,”Science, vol. 291, pp. 630-633, Jan. 2001.
Ajdari, et al., “Free-flow Electrophoresis with Trapping by a Transverse Inhomogeneous Field,”Proc. Natl. Acad. Sci., vol. 88, pp. 4468-4471, May 1991.
Ando, et al., “A High-Speed Atomic Force Microscope for Studying Biological Macromolecules,”PNAS, vol. 98, No. 22, pp. 12468-12472, Oct. 2001.
Bensimon, et al., “Alignment and Sensitive Detection of DNA by a Moving Interface,”Science, vol. 265, pp. 2096-2098, Sep. 1994.
Bensimon, et al, “Stretching DNA with a Receding Meniscus: Experiments and Models,”Physical Review Letters, vol. 74, No. 23, pp. 4754-4757, Jun. 1995.
Clauss, et al., “Atomic Resolution STM Imaging of a Twisted Single-Wall Carbon Nanotube,”Physical Review B, vol. 58, No. 8, pp. 4266-4269, Aug. 1998.
Clauss, et al., “Electron Backscattering on Single-Wall Carbon Nanotubes Observed by Scanning Tunneling Microscopy,”Europhys. Lett.., 47(5), pp. 601-607, 1999.
Freitag, et al., “Local Electronic Properties of Single-Wall Nanotube Circuits Measured by Conducting-Tip AFM,”Physical Review B, vol. 62, No. 4, pp. 2307-2310, Jul. 2000.
Frisbie, et al, “Functional Group Imaging by Chemical Force Microscopy,”Science, vol. 265, pp. 2071-2074, Sep. 1994.
Gerdes, et al., “Combing a Carbon Nanotube on a Flat Metal-Insulator-Metal Nanojunction,”Europhys. Lett., 48 (3), pp. 292-298, 1999. Retrieved from the Internet on Apr. 1, 2002: URL://<http://www.edpsciences.com/articles/euro/abs/1999/a48309/a48309.html> 1 page.
Herrick, et al., “Quantifying Single Gene Copy No. by Measuring Fluorescent Probe Lengths on Combed Genomic DNA,”PNAS, vol. 97, No. 1, pp. 222-227, Jan. 2000.
Hirahara, et al., “One-Dimensional Metallofullerene Crystal Generated Inside Single-Walled Carbon Nanotubes,”Physical Review Letters, vol. 85, No. 25, pp. 5384-5387, Dec. 2000.
Hu, et al., “Imaging of Single Extended DNA Molecules on Flat (Aminopropyl)triethoxysilane Mica by Atomic Force Microscopy,”Langmuir, vol. 12, No. 7, pp. 1697-1700, Apr. 1996.
Huang, et al., “Directed Assembly of One-Dimensional Nanostructures into Functional Networks,”Science, vol. 291, pp. 630-633, Jan. 2001.
Kaczorowski, et al., “Co-Operativity of Hexamer Ligation,”Gene, 179, (1996), pp. 189-193.
Kim, et al., “AFM Study of Surface Phenomena Based on C60Film Growth,”Applied Surface Science, 130-132, pp. 602-609, 1998.
Klein, et al., “Ordered Stretching of Single Molecules of Deoxyribose Nucleic Acid Between Microfabricated Polystyrene Lines,”Applied Physics Letters, vol. 78, No. 16, pp. 2396-2398, Apr. 2001.
Kobayashi, et al., “ Imaging of Fullerene Molecules on Si(111)-7 7 Surface with NC-AFM,”Applied Surface Science, 157, pp. 228-232, 2000.
Kotler, et al., “DNA Sequencing: Modular Primers Assembled from a Library of Hexamers or Pentamers,”Proc. Natl. Acad. Sci., vol. 90, pp. 4241-4245, May 1993.
Liu, et al., “Fullerene Pipes,”Science, vol. 280, pp. 1253-1256, May 1998.
Michalet, et al., “Dynamic Molecular Combing: Stretching the Whole Human Genome for High-Resolution Studies,”Science, vol. 277, pp. 1518-1523, Sep. 1997.
Nicewarmer-Peńa, “Submicrometer Metallic Barcodes,”Science, vol. 294, pp. 137-141, Oct. 2001.
Odom, et al., “Single-Walled Carbon Nanotubes,”Ann. N.Y. Acad. Sci., 960: 203-215, (2002). Retrieved from the Internet on Jul. 2, 2002, URL://<http://annalsnyas.org/cgi/content/full/960/1/203> 10 pages.
Ondarçuhu, et al. “Parallel Fabrication and Electrical Characterisation of Carbon Nanotube Hybrid Molecular Devices,” 2 pages, Oct. 2000.
Schoenfeld, et al., “Formation of Si Quantum Dots in Nanocrystalline Silicon,”Solid-State Electronics, vol. 40, Nos. 1-8, pp. 605-608, 1996.
Uchihashi, et al, “Application of Noncontact-Mode Atomic Force Microscopy to M

Affiliated with

Also associated with

Rating

Controlled alignment of nanobarcodes encoding specific... does not yet have a rating. At this time, there are no reviews or comments for this patent.

If you have personal experience with Controlled alignment of nanobarcodes encoding specific..., we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Controlled alignment of nanobarcodes encoding specific... will most certainly appreciate the feedback.

Rate now

Comments { 0 }

Profile ID: LFUS-PAI-O-3915847