Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2010-09-28
2011-12-06
Horlick, Kenneth R. (Department: 1637)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C435S091100, C435S091200
Reexamination Certificate
active
08071312
ABSTRACT:
The present invention concerns preparation of DNA molecules, such as a library, using a stem-loop oligonucleotide. In particular embodiments, the invention employs a single reaction mixture and conditions. In particular, at least part of the inverted palindrome is removed during the preparation of the molecules to facilitate amplification of the molecules. Thus, in specific embodiments, the DNA molecules are suitable for amplification and are not hindered by the presence of the palindrome.
REFERENCES:
patent: 5043272 (1991-08-01), Hartley
patent: 5104792 (1992-04-01), Silver et al.
patent: 5106727 (1992-04-01), Hartley et al.
patent: 5405760 (1995-04-01), Raleigh et al.
patent: 5470724 (1995-11-01), Ahern
patent: 5514545 (1996-05-01), Eberwine
patent: 5714318 (1998-02-01), Sagner et al.
patent: 5731171 (1998-03-01), Bohlander
patent: 5759821 (1998-06-01), Teasdale
patent: 5759822 (1998-06-01), Chenchik et al.
patent: 5932451 (1999-08-01), Wang et al.
patent: 5948649 (1999-09-01), Stewart et al.
patent: 5968743 (1999-10-01), Matsunaga et al.
patent: 5994058 (1999-11-01), Senapathy
patent: 6045994 (2000-04-01), Zabeau et al.
patent: 6060245 (2000-05-01), Sorge et al.
patent: 6107023 (2000-08-01), Reyes et al.
patent: 6114149 (2000-09-01), Fry et al.
patent: 6124120 (2000-09-01), Lizardi
patent: 6214556 (2001-04-01), Olek et al.
patent: 6261774 (2001-07-01), Pagratis et al.
patent: 6280949 (2001-08-01), Lizardi
patent: 6300071 (2001-10-01), Vuylsteke et al.
patent: 6365375 (2002-04-01), Dietmaier et al.
patent: 6379932 (2002-04-01), Arnold et al.
patent: 6383754 (2002-05-01), Kaufman et al.
patent: 6451563 (2002-09-01), Wittig et al.
patent: 6498023 (2002-12-01), Abarzua
patent: 6509160 (2003-01-01), Sapolsky et al.
patent: 6521428 (2003-02-01), Senapathy
patent: 6537757 (2003-03-01), Langmore et al.
patent: 6576448 (2003-06-01), Weissman et al.
patent: 6605432 (2003-08-01), Huang
patent: 6621782 (2003-09-01), Nakane et al.
patent: 6632611 (2003-10-01), Su et al.
patent: 6638722 (2003-10-01), Ji et al.
patent: 6677121 (2004-01-01), Lizardi et al.
patent: 6692915 (2004-02-01), Nallur
patent: 6692918 (2004-02-01), Kurn
patent: 6762022 (2004-07-01), Makarov et al.
patent: 6773886 (2004-08-01), Kaufman et al.
patent: 6787308 (2004-09-01), Balasubramanian et al.
patent: 6808888 (2004-10-01), Zhang et al.
patent: 6825010 (2004-11-01), Spier et al.
patent: 6974141 (2005-12-01), Kim
patent: 2001/0021518 (2001-09-01), Goudsmit et al.
patent: 2001/0046669 (2001-11-01), McCobmie et al.
patent: 2002/0058250 (2002-05-01), Firth
patent: 2002/0192769 (2002-12-01), Park et al.
patent: 2003/0013671 (2003-01-01), Mineno et al.
patent: 2003/0064393 (2003-04-01), Bass et al.
patent: 2003/0099997 (2003-05-01), Bestor
patent: 2003/0129602 (2003-07-01), Huang
patent: 2003/0143599 (2003-07-01), Makarov et al.
patent: 2003/0165885 (2003-09-01), Arnold et al.
patent: 2003/0186237 (2003-10-01), Ginsberg et al.
patent: 2003/0232371 (2003-12-01), Bestor
patent: 2004/0043416 (2004-03-01), Ji et al.
patent: 2004/0063144 (2004-04-01), Lizardi
patent: 2004/0115616 (2004-06-01), Holton
patent: 2004/0209298 (2004-10-01), Kamberov et al.
patent: 2004/0209299 (2004-10-01), Pinter et al.
patent: 2005/0202490 (2005-09-01), Makarov et al.
patent: 2006/0110745 (2006-05-01), Hayashizaki et al.
patent: 2006/0166250 (2006-07-01), Brenner et al.
patent: 2006/0216724 (2006-09-01), Christians et al.
patent: 0 466 520 (1992-01-01), None
patent: 0 684 315 (1995-11-01), None
patent: 0 976 835 (2000-02-01), None
patent: 1 275 738 (2003-01-01), None
patent: 8173164 (1996-07-01), None
patent: WO-93/24654 (1993-12-01), None
patent: WO-96/15264 (1996-05-01), None
patent: WO-97/30062 (1997-08-01), None
patent: WO-98/02575 (1998-01-01), None
patent: WO-98/15652 (1998-04-01), None
patent: WO-98/39485 (1998-09-01), None
patent: WO-99/28498 (1999-06-01), None
patent: WO-00/17390 (2000-03-01), None
patent: WO-01/09384 (2001-02-01), None
patent: WO-01/51661 (2001-07-01), None
patent: WO-01/57248 (2001-09-01), None
patent: WO-02/06533 (2002-01-01), None
patent: WO-02/20571 (2002-03-01), None
patent: WO-02/060318 (2002-08-01), None
patent: WO-02/072772 (2002-09-01), None
patent: WO-02/101022 (2002-12-01), None
patent: WO-02/103054 (2002-12-01), None
patent: WO-03/012118 (2003-02-01), None
patent: WO-03/016546 (2003-02-01), None
patent: WO-03/025215 (2003-03-01), None
patent: WO-03/027259 (2003-04-01), None
patent: WO-03/035860 (2003-05-01), None
patent: WO-03/050242 (2003-06-01), None
patent: WO-03/087774 (2003-10-01), None
Adam et al., “Cross-linking of the p55 Tumor Necrosis Factor Receptor cytoplasmic Domain by a dimeric Ligand Induces Nuclear Factor-kB and Mediates Cell Death,” J. Biol. Chem., 270(29): 17482-17487, 1995.
Ailenberg et al., “Controlled Hot Start and Improved Specificity in Carrying Out PCR Utilizing Touch-Up and Loop Incorporated Primers (TULIPS),” BioTechniques, 29: 1018-1024, 2000.
Badal et al., “CpG Methylation of Human Papillomavirus Type 16 DnNAin Cervical Cancer Cell Lines and in Clinical Specimens: Genomic Hypomethylation Correlates with Carcinogenic Progression,” Journal of Virology, 77(11): 6227-6234, 2003.
Baldini et al., “Chromosomal assignment of human YAC clones by fluorescence in situ hybridization: use of single-yeast-colony PCR and multiple labeling,” Genomics, 14: 181-184, 1992.
Barbaux et al., “Use of degenerate oligonucleotide primed PCR (DOP-PCR) for the genotyping of low-concentration DNA samples,” J Mol Med, 79: 329-332, 2001.
Beekman et al., “A powerful and rapid approach to human genome scanning using small quantities of genomic DNA,” Genet. Res. Camb., 77: 129-134, 2001.
Bellizzi et al., “A procedure for cloning genomic DNA fragments with increasing thermoresistance,” Gene, 219: 63-71, 1998.
Bohlander et al., “A Method for the Rapid Sequence-Independent Amplification of Microdissected Chromosomal Material,”Genomics , 13:1322-1324, 1992.
Breen et al., “YAC mapping by FISH using Alu-PCR-generated probes,” Genomics, 13: 726730, 1992.
Broude, “Stem-loop oligonucleotides: a robust tool for molecular biology and biotechnology,” Trends in Biotechnology, 20: 249-256, 2002.
Buchanan et al., “Long DOP-PCR of rare archival anthropological samples,” Hum. Biol., 72(6): 911-25, 2000.
Campbell et al., “The effect of divalent cations on the mode of action DNase 1. The initial reaction products produced from covalently closed circular DNA,” J. Biol. Chem., 255: 37263735, 1980.
Champoux, “DNA Topoisomerases: Structure, Function, and Mechanism,” Annu. Rev. Biochem., 369-413, 2001.
Chang et al., “PCR amplification of chromosome-specific DNA isolated from flow cytometry-sorted chromosomes,” Genomics, 12:307-312, 1992.
Chen et al., “Methylation Target Array for Rapid Analysis of CpG Island Hypermethylation in Multiple Tissue Genomes,” Am. J. Pathol., 163(1): 37-45, 2003.
Cheng et al., “Degenerate oligonucleotide primed-polymerase chain reaction and capillary electrophoretic analysis of human DNA on microchip-based devices,” Anal. Biochem., 257(2): 101-6, 1998.
Cheung et al., “Whole genome amplification using a degenerate oligonucleotide primer allows hundreds of genotypes to be performed on less than one nanogram of genomic DNA,” Proc. Natl. Acad. Sci. USA, 93: 14676-14679, 1996.
Chotai et al., “A rapid, PCR based test for differential molecular diagnosis of Prader-Willi and Angelman syndromes,” J. Med. Genet., 35: 472-475, 1998.
Clay et al., “Using analytical ultracentrifugation to study compositional variation in vertebrate genomes,” Eur. Biophys. J., 32: 418-426, 2003.
Cross et al., “CpG island libraries from human chromosomes 18 and 22: landmarks for novel genes,” Mammalian Genome, 11: 373-383, 2000.
Cross et al., “Isolation of CpG islands from large genomic clones,” Nucleic Acid Res., 27: 2099-2107, 1999.
Dean et al., “
Kamberov Emmanuel
Makarov Vladimir L.
Tarrier Brendan J.
Fulbright & Jaworski L.L.P.
Horlick Kenneth R.
Rubicon Genomics, Inc.
LandOfFree
Methods for producing and using stem-loop oligonucleotides does not yet have a rating. At this time, there are no reviews or comments for this patent.
If you have personal experience with Methods for producing and using stem-loop oligonucleotides, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Methods for producing and using stem-loop oligonucleotides will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-4313437