Chemistry: molecular biology and microbiology – Vector – per se
Reexamination Certificate
2011-03-15
2011-03-15
McGarry, Sean R (Department: 1635)
Chemistry: molecular biology and microbiology
Vector, per se
C435S006120, C536S023100, C536S024100, C536S024310, C536S024500
Reexamination Certificate
active
07906326
ABSTRACT:
The present invention relates to a first group of novel oligonucleotides, here identified as genomic address messenger or GAM oligonucleotides, and a second group of novel operon-like polynucleotides, here identified as genomic record or GR polynucleotides. GAM oligonucleotides selectively inhibit translation of known target genes, many of which are known to be involved in various diseases. Nucleic acid molecules are provided respectively encoding 1708 GAM oligonucleotides, and 246 GR polynucleotides as are vectors and probes both comprising the nucleic acid molecules, and methods and systems for detecting GAM oligonucleotides and GR polynucleotide and specific functions and utilities thereof, for detecting expression of GAM oligonucleotides and GR polynucleotides and for selectively enhancing and selectively inhibiting translation of the respective target genes thereof.
REFERENCES:
patent: 5541308 (1996-07-01), Hogan et al.
patent: 6573099 (2003-06-01), Graham
patent: 6582908 (2003-06-01), Fodor et al.
patent: 6812339 (2004-11-01), Venter et al.
patent: 2002/0086356 (2002-07-01), Tuschl et al.
patent: 2003/0108923 (2003-06-01), Tuschl et al.
patent: 2003/0228691 (2003-12-01), Lewis et al.
patent: 2005/0059005 (2005-03-01), Tuschl et al.
patent: 2006/0105360 (2006-05-01), Croce et al.
patent: WO 01/75164 (2003-02-01), None
patent: WO 03/029459 (2003-04-01), None
patent: WO 03029459 (2003-04-01), None
patent: WO 2004/009779 (2004-01-01), None
Krutzfeldt et al. (2006) Nature Genetics 38:514-519.
New England Biolabs 1998/99 Catalog, cover page, p. 121 and 284.
Bentwich (2005) FEBS Lett. 579:5904-5910.
Bentwich et al. (2005) FEBS Lett. 579:5904-5910.
Martin et al. (2007) J. Biosci. 32:1049-1052.
Maziere et al. (2007) Drug Discovery Today 12:452-458.
Smalheiser et al. (2006) Methods Mol. Biol. 342:115-127.
Zhao et al. (1997) GenBank Acc. No. AQ420078.
Buck et al. (Biotechniques (1999) 27(3): 526-538).
Lagos-Quintana et al. (2002) Curr. Biol. 12:735-739.
Kim et al. (2004) PNAS 101:360365, including Table 2.
Cullen (2004) “Derivation and function of small interfering RNAs and microRNAs” Viral Res. 102:3-9.
Brown (1998) “In situ hybridization with riboprobes: An overview for veterinary pathologists” Vet. Pathol. 35:159-1.
Ashrafi, K., F. Y. Chang, J. L. Watts, A. G. Fraser, R. S. Kamath, J. Ahringer and G. Ruvkun. Genome-wide RNAi analysis ofCaenorhabditis elegansfat regulatory genes Nature Jan. 16, 2003 268-272 421.
Kamath, R. S., A. G. Fraser, Y. Dong, G. Poulin, R. Durbin, M. Gotta, A. Kanapin, N. Le Bot, S. Moreno, M. Sohrmann, D. P. Welchman, P. Zipperlen and J. Ahringer. Systematic functional analysis of theCaenorhabditis elegansgenome using RNAi Nature Jan. 16, 2003 231-237 421.
Tuschl, T. Functional genomics: RNA sets the standard Nature Jan. 16, 2003 220-221 421.
Iyer, L. M., E. V. Koonin and L. Aravind. Evolutionary connection between the catalytic subunits of DNA-dependent RNA polymerases and eukaryotic RNA-dependent RNA polymerases and the origin of RNA polymerases BMC Struct Biol Jan. 28, 2003 1 3.
Kawasaki, H., E. Suyama, M. Iyo and K. Taira. siRNAs generated by recombinant human Dicer induce specific and significant but target site-independent gene silencing in human cells Nucleic Acids Res Feb. 1, 2003 981-987 31.
Reiner, A., D. Yekutieli and Y. Benjamini. Identifying differentially expressed genes using false discovery rate controlling procedures Bioinformatics Feb. 12, 2003 368-375 19.
Doench, J. G., C. P. Petersen and P. A. Sharp. siRNAs can function as miRNAs Genes Dev Feb. 15, 2003 438-442 17.
Carmichael, G. G. Antisense starts making more sense Nat Biotechnol Apr. 2003 371-372 21.
Colciaghi, F., E. Marcello, B. Borroni, M. Zimmermann, C. Caltagirone, F. Cattabeni, A. Padovani and M. Di Luca. Platelet APP, ADAM 10 and BACE alterations in the early stages of Alzheimer disease Neurology Feb. 10, 2004 498-501 62.
Boden, D., O. Pusch, R. Silbermann, F. Lee, L. Tucker and B. Ramratnam. Enhanced gene silencing of HIV-1 specific siRNA using microRNA designed hairpins Nucleic Acids Res Feb. 13, 2004 1154-1158 32.
Bohnsack, M. T., K. Czaplinski and D. Gorlich. Exportin 5 is a RanGTP-dependent dsRNA-binding protein that mediates nuclear export of pre-miRNAs Rna Feb. 2004 185-191 10.
Demidov, V. V. and M. D. Frank-Kamenetskii. Two sides of the coin: affinity and specificity of nucleic acid interactions Trends Biochem Sci Feb. 2004 62-71 29.
Maquat, L. E. Nonsense-mediated mRNA decay: splicing, translation and mRNP dynamics Nat Rev Mol Cell Biol Feb. 2004 89-99 5.
Nijholt, I., N. Farchi, M. Kye, E. H. Sklan, S. Shoham, B. Verbeure, D. Owen, B. Hochner, J. Spiess, H. Soreq and T. Blank. Stress-induced alternative splicing of acetylcholinesterase results in enhanced fear memory and long-term potentiation Mol Psychiatry Feb. 2004 174-183 9.
Sengupta, P. Taking sides in the nervous system with miRNA Nat Neurosci Feb. 2004 100-102 7.
Zerhouni, B., J. A. Nelson and K. Saha. Isolation of CD4-independent primary human immunodeficiency virus type 1 isolates that are syncytium inducing and acutely cytopathic for CD8+ lymphocytes J Virol Feb. 2004 1243-1255 78.
Jin, P., D. C. Zarnescu, S. Ceman, M. Nakamoto, J. Mowrey, T. A. Jongens, D. L. Nelson, K. Moses and S. T. Warren. Biochemical and genetic interaction between the fragile X mental retardation protein and the microRNA pathway Nat Neurosci Feb. 2004 113-117 7.
Lai, E. C., C. Wiel and G. M. Rubin. Complementary miRNA pairs suggest a regulatory role for miRNA:miRNA duplexes Rna Feb. 2004 171-175 10.
Metzler, M., M. Wilda, K. Busch, S. Viehmann and A. Borkhardt. High expression of precursor microRNA-155/BIC RNA in children with Burkitt lymphoma Genes Chromosomes Cancer Feb. 2004 167-169 39.
Ohno K, et al. Choline acetyltransferase mutations cause myasthenia syndrome associated with episodic apnea in humans. PNAS, 2001;98(4):2017-22.
Doench JG and Sharp PA. Genes Dev, 2004;18(5):504-11.
Lai EC, Predicting and validating microRNA targets, Genome Biology 2004;5:115.
Vella MC, Architecture of a validated microRNA::target interaction, Chemistry & Biology 2004;11:1619-23.
Brennecke J, Principles of MicroRNA-target recognition, PLoS Biology 2005;3(3):e85.
Lim LP, Microarray analysis shows that some micro RNAs downregulate large numbers of target mRNAs, Nature 2005;433(7027):769-73.
Ikari Y, a1-Proteinase Inhibitor, a1-Antichymotrypsin, and a2-Macroglobulin Are theAntiapoptotic Factors of Vascular Smooth Muscle Cells, J Biol Chem 2001;276(15):11798-803.
Inui, T et al. Cathepsin K Antisense Oligodeoxynucleotide Inhibits Osteoclastic Bone Resorption. J Biol Chem, 1997;272(13):8109-12.
Morin, R.D. et al., “Application of massively parallel sequencing to microRNA profiling and discovery of human embryonic stem cells,” Genome Res., 2008;18:610-21.
Zamore, P.D., et al., “RNAi: Double-Stranded RNA Directs the ATP-Dependent Cleavage of mRNA at 21 to 23 Nucleotide Intervals,” Cell, 2000;101:25-33.
Elbashir, S.M. et al., “RNA interference is mediated by 21- and 22-nucleotide RNAs”, Genes and Development, 2001;15:188-200.
Lim, L.P. et al., “The microRNAs ofCaenorhabditis elegans,” Genes & Dev., 2003;17:991-1008.
Bartel, D.P., “MicroRNAs: Genomics, Biogenesis, Mechanism, and Function,” Cell, 2004;116:281-97.
Galant Ron
McGarry Sean R
Polsinelli Shughart PC
Rosetta Genomics Ltd.
Scott, Jr. Teddy C.
LandOfFree
Bioinformatically detectable group of novel regulatory... does not yet have a rating. At this time, there are no reviews or comments for this patent.
If you have personal experience with Bioinformatically detectable group of novel regulatory..., we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Bioinformatically detectable group of novel regulatory... will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-2679440