• Engineered nucleases (ZFNs & TALENs)
  • 1. (human) Lee HJ et al. (2010) Targeted chromosomal deletions in human cells using zinc finger nucleases. Genome Research 20(1):81-9.
    2. (human) Kim HJ et al. (2009) Targeted genome editing in human cells with zinc finger nucleases constructed via modular assembly. Genome Research 19(10):1279-1288.
    3. (human) Urnov, F. D. et al. (2005) Highly efficient endogenous human gene correction using designed zinc-finger nucleases. Nature 435(7042): 646-51.
    4. (zebrafish) Foley JE et al. (2009) Targeted mutagenesis in zebrafish using customized zinc-finger nucleases. Nat Protoc 4(12):1855-67.
    5. (rodent) >Mashimo T et al. (2010) Generation of knockout rats with X-linked severe combined immunodeficiency (X-SCID) using zinc-finger nucleases. PLoS one 5(1):e8870.
    6. (plant) Shukla VK et al. (2009) Precise genome modification in the crop species Zea mays using zinc-finger nucleases. Nature 459(7245):443-5.
    7. (plant) Townsend JA et al. (2009) High-frequency modification of plant genes using engineered zinc-finger nucleases. Nature 459(7245):442-5.
    8. (protocol) Kim S et al. (2010) Analysis of targeted chromosomal deletions induced by zinc finger nucleases. Cold Spring Harb Protoc doi:10.1101/pdb.prot5477.
    9. (protocol) Kim JS et al. (2010) Construction of combinatorial libraries that encode zinc finger-based transcription factors. Methods Mol Biol 649:133-47.
    10. (reporter) Kim H et al. (2011) Surrogate reporters for enrichment of cells with nuclease-induced mutations. Nat Meth 8:941-943.
  • FISH, CO-FISH, Q-FISH and Flow FISH using PNA probes
  • 1. (FISH) Tanemura K et al. (2005) Dynamic rearrangement of telomeres during spermatogenesis in mice. Dev Bio 281:196-207.
    2. (CO-FISH) Goodwin EH and Meyne J (1993) Strand-specific FISH reveals orientation of chromosomal breaks, duplications, deletions, and numerical abnormalities in the sperm of healthy men. Am J Hum Genet 67:862-872.
    3. (Q-FISH) Canela A et al (2007) High-throughput telomere length quantification by FISH and its application to human population studies. Proc Natl Acad Sci USA 104(13):5300-5.
    4. (Q-FISH & Flow FISH) Brind-Amour J and Lansdorp PM (2011) Analysis of repetitive DNA in chromosomes by flow cytometry. Nat Methods 8(6):484-6.
    5. (Q-FISH & Flow FISH) Lee WW et al (2002) Age-related telomere length dynamics in peripheral blood mononuclear cells of healthy cynomolgus monkeys measured by Flow FISH. Immunology 105:458-65.
  • Anti-gene therapy by PNA oligos
  • 1. Kaihatsu K et al. (2005) Intracellular uptake and inhibition of gene expression by PNAs and PNA-peptide conjugates. Biochemistry 43(45):14340-7.
    2. Macadangdang B et al. (2011) Inhibition of multidrug resistance by SV40 pseudovirion delivery of an antigene peptide nucleic acid (PNA) in cultured cells. PLoS One22;6(3):e17981.
    3. Nielsen PE (2010) Gene targeting and expression modulation by peptide nucleic acids (PNA). (review) Curr Pharm Des 16(28):3118-23.
    4. Good L et al (2010) Bactericidal antisense effects of peptide-PNA conjugates. Nature Biotechnology 19:360-364.
  • PNA miRNA inhibitors
  • 1. Oh SY et al. (2010) PNA-based antisense oligonucleotides for micrornas inhibition in the absence of a transfection reagent. Oligonucleotides 20(5):225-30.
    2. Fabbri E et al. (2011) Modulation of the Biological Activity of microRNA-210 with Peptide Nucleic Acids (PNAs). Chem Med Chem 6(12):2192-2202.
    3. Jiang L et al. (2011) Identification and experimental validation of G protein alpha inhibiting activity polypeptide 2(GNAI2) as a microRNA-138 target in tongue squamous cell carcinoma. Hum Genet 129(2):189-97.
    4. Gaglione M et al. (2011) PNA-based artificial nucleases as antisense and anti-miRNA oligonucleotide agents. Mol Biosyst 7(8):2490-9.
  • Double strand DNA invasion by bis-PNA and gamma-PNA
  • 1. (bis PNA) Rebuffat AG et al. (2010) Gene delivery by a steroid-peptide nucleic acid conjugate. FASEB J 16:1426-1428.
    2. (bis PNA) KuhnH et al. (1999) An experimental study of mechanism and specificity of peptide nucleic acid (PNA) binding to duplex DNA. J Mol Bio 286 (5):1337-1345.
    3. (gamma PNA) Sahu B et al. (2011) Synthesis and characterization of conformationally preorganized, (R)-diethylene glycol-containing peptide nucleic acids with superior hybridization properties and water solubility. J Org Chem 76(14):5614-27.
    4. (gamma PNA) Venugopal C et al. (2011) A Simple cytosine to G-clamp nucleobase substitution enables chiral g-PNAs to invade mixed-sequence double-helical B-form DNA. Chem Biochem 9 (15):2388-2391.
  • PNA Clamp for SNP genotyping
  • 1. Taback B et al. (2004) Peptide nucleic acid clamp PCR: a novel K-ras mutation detection assay for colorectal cancer micrometastases in lymph nodes. Int J Cancer 111(3):409-14.
    2. Nagai Y et al. (2005) Genetic Heterogeneity of the Epidermal Growth Factor Receptor in Non-Small Cell Lung Cancer Cell Lines Revealed by a Rapid and Sensitive Detection System, the Peptide Nucleic Acid-Locked Nucleic Acid PCR Clamp. Cancer Res 65:7276-82.
    3. Petersen KA. et al. (2004) Short PNA molecular beacons for real-time PCR allelic discrimination of single nucleotide polymorphisms. Mololecular and Cellular Probes 18:117-122.
    4. Ren B. et al. (2004) High-throughput SNP genotyping by combining exonuclease III, nuclease S1, and acridine-bearing PNA. Nucleic Acids Symp Ser (Oxf) 48:183-4.
    5. Ye S. et al. (2002) Detection of single nucleotide polymorphisms by the combination of nuclease S1 and PNA. Nucleic Acids Res Suppl. 2: 235-6.
    6. Rockenbauer E. et al. 2005. SNP Genotyping Using Microsphere-Linked PNA and Flow Cytometric Detection. Cytometry A 64(2):80-86.
  • PNA in microarray and chip
  • 1. Liu ZC. et al. (2007) Light-directed synthesis of peptide nucleic acids (PNAs) chips. Biosensors and Bioelectronics 22:2891-2897.
    2. Raymond FR et al. (2005) Detection of target DNA using fluorescent cationic polymer and peptide nucleic acid probes on solid support. BMC Biotechnol. 5:10.
    3. Brandt O. et al. (2003) PNA microarrays for hybridization of unlabelled DNA samples. Nucleic Acids Res 31(19):e119.
    4. Liu CG et al. (2004) An oligonucleotide microchip for genome-wide microRNA profiling in human and mouse tissues. Proc Natl Acad Sci USA 101(26):9740-9744.
    5. Singha RP et al. (2010) Application of peptide nucleic acid towards development of nanobiosensor arrays. Bioelectrochemistry 79(2):153-161.
  • PNA synthesis
  • 1. Zelphati O et al. (2000) PNA-dependent gene chemistry: stable coupling of peptides and oligonucleotides to plasmid DNA. Biotechniques 28(2):304-10:312-4.