50. Parasrampuria, M., White, A.A., Chilamkurthy, R., El-Azzouzi, F., Pater, A.A., Ovington, K.N., Barton, M., Mukhopadhyay, Forrest, G., S., Jensik, P.J., and Gagnon, K.T. (2024) Sequencing-Guided Design of Genetically Encoded Small RNAs Targeting CAG Repeats for Selective Inhibition of Mutant Huntingtin. Mol. Therap. Nucl. Acids, 35:accepted.
49. Adil, O., Eddington, S.B., Gagnon, K.T., Shamsi, M.H. (2023) Microprobes for Label-Free Detection of Short Tandem Repeats: An Insight into Alleviating Secondary Structure Effects. Anal. Chem., 95: 13528-13536.
48. Bosmeny, M.S., White, A.A., Pater, A.A., Crew, J.R., Geltz, J., and Gagnon, K.T. (2023) Global Mpox Lineage Discovery and Rapid Outbreak Tracking with Nanopore Sequencing. Virology J., 20:90. doi: 10.1186/s12985-023-02059-2.
47. Sudhakar, S., Barkau, C.L., Chilamkurthy, R., Barber, H.M., Pater, A.A., Moran, S.D., Damha, M.J., Pradeepkumar, P.I., and Gagnon K.T. (2023) Binding to the Conserved and Stably Folded Guide RNA Pseudoknot Induces Cas12a Conformational Changes During Ribonucleoprotein Assembly. J. Biol. Chem., 104700. doi: 10.1016/j.jbc.2023.104700.
46. Chilamkurthy, R., White, A.A., Pater, A.A., Jensik, P.J., and Gagnon, K.T. (2022) Efficient Cloning and Sequence Validation of Repetitive and High GC-Content shRNAs. Human Gene Therapy, 33:289-839.
45. Pater, A.A., Bosmeny, M.S., Barkau, C.L., Ovington, K.N., Chilamkurthy, R., Parasrampuria, M., Eddington, S.B., Yinusa, A.O., White, A.A., Metz, P.E., Sylvain, R.J., Hebert, M.M., Benzinger, S.W., Sinha, K., and Gagnon, K.T. (2021) Emergence and Evolution of a Prevalent New SARS-CoV-2 Variant in the United States. BioRxiv, https://doi.org/10.1101/2021.01.11.426287.
44. Pater, A.A, Bosmeny, M.S., White, A.A., Sylvain, R.J., Eddington, S.B., Parasrampuria, M., Ovington, K.N., Metz, P.E., Yinusa, A.O., Barkau, C.L., Chilamkurthy, R., Benzinger, S.W., Hebert, M.M., and Gagnon, K.T. (2021) High Throughput Nanopore Sequencing of SARS-CoV-2 Viral Genomes from Patient Samples. J. Biol. Meth., 8:e155.
43. Ageely, E. A., Chilamkurthy, R., Jana, S., Abdullahu, L., O’Reilly, D., Jensik, P., Damha, M.J., and Gagnon, K.T. (2021) Gene Editing with CRISPR-Cas12a Guides Possessing Ribose-Modified Pseudoknot Handles. Nature Commun., 12:6591.
42. Barkau, C.L., O’Reilly, D., Eddington, S., Damha, M.J., and Gagnon, KT. (2021) Small Nucleic Acids and the Path to the Clinic for Anti-CRISPR. Biochem. Pharmacol., 189:114492.
41. Kartje, Z.J., Janis, H.I., Mukhopadhayay, S., and Gagnon, K.T. (2021) Revisiting T7 RNA Polymerase Transcription In Vitro with the Broccoli RNA Aptamer as a Simplified Real-Time Fluorescent Reporter. J. Biol. Chem., 296:100175.
40. Asefifeyzabadi, N., Alkhaldi, R., Qamar, A.Z., Pater, A.A., Patwardhan, M., Gagnon, K.T., Talapatra, S., and Shamsi, M.H. (2020) Label-Free Electrochemical Detection of CGG Repeats on Inkjet Printable 2D Layers of MoS2. ACS Appl. Mater. Interfaces, 12:52156-52165.
39. Price, D.A., Kartje, Z.J., Hughes, J.A., Hill, T.D., Loth, T.M., Watts, J.K., Gagnon, K.T., Moran, S.D. (2020) Infrared Spectroscopy Reveals the Preferred Motif Size and Local Disorder in Parallel Stranded DNA G-Quadruplexes. Chembiochem, 21:2792-2804.
38. Habibian, M., Harikrishna, S., Fakhoury, J., Barton, M., Ageely, E.A., Cencic, R., Fakih, H.H., Katolik, A., Takahashi, M., Rossi, J., Pelletier, J., Gagnon, K.T., Pradeepkumar, P.I., and Damha, M.J. (2020) Effect of 2'-5'/3'-5' Phosphodiester Linkage Heterogeneity on RNA Interference. Nucl. Acids Res., accepted.
37. Rohilla, K.J., Ovington, K.N., Pater, A.A., Barton, M., Henke, A.J., and Gagnon, K.T. (2020) Systematic Microsatellite Repeat Expansion Cloning and Validation. Hum. Genet., 139:1233-1246.
36. Taki, M., Rohilla, K.J., Barton, M., Funneman, M., Benzabeh, N., Naphade, S., Ellerby, L.M., Gagnon, K.T., and Shamsi, M.H. (2019) Novel Probes for Label-Free Detection of Neurodegenerative GGGGCC Repeats Associated with Amyotrophic Lateral Sclerosis. Anal. Bioanal. Chem., 411:6995-7003.
35. *Barkau, C.L., O'Reilly, D., Rohilla, K.J., and Gagnon, K.T. (2019) Rationally Designed Small Nucleic Acid-Based Inhibitors of CRISPR-Cas9. Nucl. Acid Therap., 29:136-147.
*Commentary in The New England Journal of Medicine
*cited in Nature news article "Kill Switch for CRISPR Could Make Gene Editing Safer"
34. Gagnon, K.T. and Corey, D.R. (2019) Guidelines for Experiments Using Antisense Oligonucleotides and Double-Stranded RNAs. Nucl. Acid Therap., 29:116-122.
33. O'Reilly, D., Kartje, Z.J., Ageely, E.A., Malek-Adamian, E., Habibian, M., Schofield, A., Barkau, C.L., Rohilla, K.J., DeRossett, L.B., Weigle, A.T., Damha, M.J., and Gagnon, K.T. (2019) Extensive CRISPR RNA Modification Reveals Chemical Compatibility and Structure-Activity Relationships for Cas9 Biochemical Activity. Nucl.. Acids Res., 47:546-558.
32. Kartje, Z.J., Barkau, C.L., Rohilla, K.J., Ageely, E.A., and Gagnon, K.T. (2018) Chimeric Guides Probe and Enhance Cas9 Biochemical Activity. Biochemistry, 57:3027-3031.
31. Rohilla, K.J., and Gagnon, K.T. (2017) RNA Biology of Disease-Associated Microsatellite Repeat Expansions. Acta Neuropath. Comm., 5:63.
30. Ageely, E.A., Kartje, Z.J., Rohilla, K.J., Barkau, C.L., and Gagnon, K.T. (2016) Quadruplex-Flanking Stem Structures Modulate the Stability and Metal Ion Preferences of RNA Mimics of GFP. ACS Chem. Biol., 11:2398-2406.
29. Dodd, D.W., Tomchick, D.R., Corey, D.R., and Gagnon, K.T. (2016) Pathogenic C9ORF72 Antisense Repeat RNA Forms a Double Helix with Tandem C:C Mismatches. Biochemistry, 55:1283-1286.
28. Kalantari, R., Hicks, J.A., Li, L., Gagnon, K.T., Sridhara, V., Lemoff, A., Mirzaei, H., and Corey, D.R. (2016) Stable Association of RNAi Machinery is Conserved Between the Cytoplasm and Nucleus of Human Cells. RNA, 22:1-14.
27. Gagnon, K.T. (2016) "Loading of Argonaute Protein with Small Duplex RNA in Cellular Extracts" in Meth. Mol. Biol., Ren-Jang Lin editor, Humana Press, 1421:53-67.
26. Hu, J., Liu, J., Li, L., Gagnon, K.T., and Corey, D.R. (2015) Engineering duplex RNAs for challenging targets: Recognition of GGGGCC/CCCCGG repeats at the ALS/FTD C9orf72 locus. Cell Chem. Biol., 22:1505-1511.
25. Gagnon, K.T., and Corey, D.R. (2015) Stepping toward therapeutic CRISPR. Proc. Natl. Acad. Sci, USA, 112:15536-15537.
24. Gagnon, K.T., and Maxwell E.S. (2015) "Assessing Intermolecular RNA:RNA Interactions Within a Ribonucleoprotein Complex Using Heavy Metal Cleavage Mapping." in Meth. Mol. Biol., Frank J. Schmidt editor, Humana Press, 1240:125-134.
23. Gagnon, K.T., Li, L., Janowski, B.A., and Corey, D.R. (2014) Analysis of Nuclear RNA Interference in Human Cells by Subcellular Fractionation and Argonaute Loading. Nat. Protoc., 9:2045-2060.
22. Gagnon, K.T., Li, L., Chu, Y., Janowski, B.A., and Corey, D.R. (2014) RNAi Factors Are Present and Active in Human Cell Nuclei. Cell Reports, 6:211-221.
21. Gagnon, K.T., and Watts, J.K. (2014) 10th Annual Meeting of the Oligonucleotide Therapeutics Society. Nucl. Acid Therap., 24:428-434.
20. Matsui, M., Zhang, H., Chu, J., Gagnon, K.T., Shaikh, S., Kuchimanchi, S., Manoharan, M., Corey, D.R., and Janowski, B.A. (2013) Promoter RNA Links Transcriptional Regulation of Inflammatory Pathway Genes. Nucl. Acids Res., 41:10086-10109.
19. Dodd, D.W., Gagnon, K.T., and Corey, D.R. (2013) Digital Quantitation of Potential Therapeutic Target RNAs. Nucl. Acid Therap., 23:188-194.
18. Gagnon, K.T., and Corey, D.R. (2012) Argonaute and the Nuclear RNAs: New Pathways for Controlling Gene Expression. Nucl. Acid Therap., 1:3-16.
17. Gagnon, K.T., Biswas, S., Zhang, X., Brown, B.A. II, Wollenzien, P., Mattos, C., and Maxwell, E.S. (2012) Structurally Conserved Nop56/58 N-Terminal Domain Facilitates Efficient Box C/D Ribonucleoprotein-guided Methyltransferase Activity. J. Biol. Chem., 287:19418-19428.
16. Gagnon, K.T., Watts, J.K., Pendergraff, H.M., Potier, P., Thai, D., Montaillier, C., and Corey, D.R. (2011) Antisense and Antigene Inhibition of Gene Expression by Cell-Permeable Oligonucleotide-Oligospermine Conjugates. J. Am. Chem. Soc., 133:8404-8407.
15. Hu, J., Gagnon, K.T., Lui, J., Watts, J.K., Syeda-Newaz, J., Bennett, C.F., Swayze, E.E., Randolph, J., Chattopadhyaya, J. and Corey, D.R. (2011) Allele-Selective Inhibition of Ataxin-3 (ATX3) Expression by Antisense Oligomers and Duplex RNAs. Biol. Chem., 392:315-325.
14. Biswas, S., Buhrman, G., Gagnon, K.T., Mattos, C., Brown II, B.A., and Maxwell, E.S. (2011) Comparative Analysis of the 15.5kD Box C/D snoRNP Core Protein in the Primitive Eukaryote Giardia lamblia Reveals Unique Structural and Functional Features. Biochemistry, 50:2907-2918.
13. Gagnon, K.T., and Maxwell, E.S. (2011) “Electrophoretic Mobility Shift Assay for Characterizing RNA-Protein Interaction.” in Meth. Mol. Biol., Henrik Nielsen editor, Humana Press, 703:275-291.
12. Gagnon, K.T. (2010) HD Therapeutics – CHDI 5th Annual Conference. IDrugs, 13:219-223.
11. Gagnon, K.T., Pendergraff, H.M., Deleavey, G.F., Swayze, E.E., Potier, P., Randolph, J., Roesch, E.B., Chattopadhyaya, J., Damha, M.J., Bennett, C.F., Montaillier, C., Lemaitre, M., and Corey, D.R. (2010) Allele-Selective Inhibition of Mutant Huntingtin Expression with Antisense Oligonucleotides Targeting the Expanded CAG Repeat. Biochemistry, 49:10166-10178.
10. Yue, X., Schwartz, J. C., Chu, Y., Younger, S. T., Gagnon, K.T., Elbashir, S., Janowski, B. A., and Corey, D. R. (2010) Transcriptional Regulation by Small RNAs at Sequences Downstream From 3' Gene Termini. Nat. Chem. Biol., 6:621-629.
9. Gagnon, K.T., Zhang, X., Qu, G., Biswas, S., Suryadi, J., Brown II, B.A., and Maxwell, E.S. (2010) Signature Amino Acids Enable the Archaeal L7Ae Box C/D RNP Core Protein to Recognize and Bind the K-loop RNA Motif. RNA, 16:79-90.
8. Franzen, S., and Gagnon, K.T. (2010) Advertising Science for High Impact Publication. The Open Ethics J., 4:1-9.
7. Hu, J., Matsui, M., Gagnon, K.T., Schwartz, J.C., Gabillet, S., Arar, K., Wu, J., Bezprozvanny, I., and Corey, D.R. (2009) Allele-Specific Silencing of Mutant Huntingtin and Ataxin-3 Genes by Targeting Expanded CAG Repeats in mRNAs. Nat. Biotechnol., 27:478-484.
6. Gagnon, K.T., Qu, G., and Maxwell, E.S. (2009) “Multicomponent 2’-O Ribose Methylation Machines: Evolving Box C/D RNP Structure and Function.” in DNA and RNA Modification Enzymes: Structure, Function, Mechanism and Evolution, H. Grosjean editor, LANDES BioScience, 436-449.
5. Bleichert, F., Gagnon, K.T., Brown II, B.A., Maxwell, E.S., Leschziner, A.E., Unger, V.M., and Baserga, S.J. (2009) A Dimeric Structure for Archaeal Box C/D Small Ribonucleoproteins. Science, 325:1384-1387.
4. Gagnon, K.T., Ju, S.Y., Goshe, M.B., Maxwell, E.S., and Franzen, S. (2009) A Role for Hydrophobicity in a Diels-Alder Reaction Catalyzed by Pyridyl-Modified RNA. Nucl. Acids Res., 37:3074-3082.
3. Gagnon, K.T., Zhang, X., and Maxwell, E.S. (2008) “The Box C/D RNPs: Evolutionarily Ancient Nucleotide Modification Complexes.” in RNA and DNA Editing: Molecular Mechanisms and their Integration into Biological Systems, H. Smith editor, John Wiley and Sons, Inc., p.313-339.
2. Gagnon, K.T., Zhang, X., and Maxwell E.S. (2007) In Vitro Reconstitution and Affinity Purification of Catalytically Active Archaeal Box C/D sRNP Complexes. Meth. Enzym., 425:263-282.
1. Gagnon, K.T., Zhang, X., Agris, P.F., and Maxwell, E.S. (2006) Assembly of the Archaeal Box C/D sRNP Can Occur Via Alternative Pathways and Requires Temperature-Facilitated sRNA Remodeling. J. Mol. Biol., 362:1025-1042.
49. Adil, O., Eddington, S.B., Gagnon, K.T., Shamsi, M.H. (2023) Microprobes for Label-Free Detection of Short Tandem Repeats: An Insight into Alleviating Secondary Structure Effects. Anal. Chem., 95: 13528-13536.
48. Bosmeny, M.S., White, A.A., Pater, A.A., Crew, J.R., Geltz, J., and Gagnon, K.T. (2023) Global Mpox Lineage Discovery and Rapid Outbreak Tracking with Nanopore Sequencing. Virology J., 20:90. doi: 10.1186/s12985-023-02059-2.
47. Sudhakar, S., Barkau, C.L., Chilamkurthy, R., Barber, H.M., Pater, A.A., Moran, S.D., Damha, M.J., Pradeepkumar, P.I., and Gagnon K.T. (2023) Binding to the Conserved and Stably Folded Guide RNA Pseudoknot Induces Cas12a Conformational Changes During Ribonucleoprotein Assembly. J. Biol. Chem., 104700. doi: 10.1016/j.jbc.2023.104700.
46. Chilamkurthy, R., White, A.A., Pater, A.A., Jensik, P.J., and Gagnon, K.T. (2022) Efficient Cloning and Sequence Validation of Repetitive and High GC-Content shRNAs. Human Gene Therapy, 33:289-839.
45. Pater, A.A., Bosmeny, M.S., Barkau, C.L., Ovington, K.N., Chilamkurthy, R., Parasrampuria, M., Eddington, S.B., Yinusa, A.O., White, A.A., Metz, P.E., Sylvain, R.J., Hebert, M.M., Benzinger, S.W., Sinha, K., and Gagnon, K.T. (2021) Emergence and Evolution of a Prevalent New SARS-CoV-2 Variant in the United States. BioRxiv, https://doi.org/10.1101/2021.01.11.426287.
44. Pater, A.A, Bosmeny, M.S., White, A.A., Sylvain, R.J., Eddington, S.B., Parasrampuria, M., Ovington, K.N., Metz, P.E., Yinusa, A.O., Barkau, C.L., Chilamkurthy, R., Benzinger, S.W., Hebert, M.M., and Gagnon, K.T. (2021) High Throughput Nanopore Sequencing of SARS-CoV-2 Viral Genomes from Patient Samples. J. Biol. Meth., 8:e155.
43. Ageely, E. A., Chilamkurthy, R., Jana, S., Abdullahu, L., O’Reilly, D., Jensik, P., Damha, M.J., and Gagnon, K.T. (2021) Gene Editing with CRISPR-Cas12a Guides Possessing Ribose-Modified Pseudoknot Handles. Nature Commun., 12:6591.
42. Barkau, C.L., O’Reilly, D., Eddington, S., Damha, M.J., and Gagnon, KT. (2021) Small Nucleic Acids and the Path to the Clinic for Anti-CRISPR. Biochem. Pharmacol., 189:114492.
41. Kartje, Z.J., Janis, H.I., Mukhopadhayay, S., and Gagnon, K.T. (2021) Revisiting T7 RNA Polymerase Transcription In Vitro with the Broccoli RNA Aptamer as a Simplified Real-Time Fluorescent Reporter. J. Biol. Chem., 296:100175.
40. Asefifeyzabadi, N., Alkhaldi, R., Qamar, A.Z., Pater, A.A., Patwardhan, M., Gagnon, K.T., Talapatra, S., and Shamsi, M.H. (2020) Label-Free Electrochemical Detection of CGG Repeats on Inkjet Printable 2D Layers of MoS2. ACS Appl. Mater. Interfaces, 12:52156-52165.
39. Price, D.A., Kartje, Z.J., Hughes, J.A., Hill, T.D., Loth, T.M., Watts, J.K., Gagnon, K.T., Moran, S.D. (2020) Infrared Spectroscopy Reveals the Preferred Motif Size and Local Disorder in Parallel Stranded DNA G-Quadruplexes. Chembiochem, 21:2792-2804.
38. Habibian, M., Harikrishna, S., Fakhoury, J., Barton, M., Ageely, E.A., Cencic, R., Fakih, H.H., Katolik, A., Takahashi, M., Rossi, J., Pelletier, J., Gagnon, K.T., Pradeepkumar, P.I., and Damha, M.J. (2020) Effect of 2'-5'/3'-5' Phosphodiester Linkage Heterogeneity on RNA Interference. Nucl. Acids Res., accepted.
37. Rohilla, K.J., Ovington, K.N., Pater, A.A., Barton, M., Henke, A.J., and Gagnon, K.T. (2020) Systematic Microsatellite Repeat Expansion Cloning and Validation. Hum. Genet., 139:1233-1246.
36. Taki, M., Rohilla, K.J., Barton, M., Funneman, M., Benzabeh, N., Naphade, S., Ellerby, L.M., Gagnon, K.T., and Shamsi, M.H. (2019) Novel Probes for Label-Free Detection of Neurodegenerative GGGGCC Repeats Associated with Amyotrophic Lateral Sclerosis. Anal. Bioanal. Chem., 411:6995-7003.
35. *Barkau, C.L., O'Reilly, D., Rohilla, K.J., and Gagnon, K.T. (2019) Rationally Designed Small Nucleic Acid-Based Inhibitors of CRISPR-Cas9. Nucl. Acid Therap., 29:136-147.
*Commentary in The New England Journal of Medicine
*cited in Nature news article "Kill Switch for CRISPR Could Make Gene Editing Safer"
34. Gagnon, K.T. and Corey, D.R. (2019) Guidelines for Experiments Using Antisense Oligonucleotides and Double-Stranded RNAs. Nucl. Acid Therap., 29:116-122.
33. O'Reilly, D., Kartje, Z.J., Ageely, E.A., Malek-Adamian, E., Habibian, M., Schofield, A., Barkau, C.L., Rohilla, K.J., DeRossett, L.B., Weigle, A.T., Damha, M.J., and Gagnon, K.T. (2019) Extensive CRISPR RNA Modification Reveals Chemical Compatibility and Structure-Activity Relationships for Cas9 Biochemical Activity. Nucl.. Acids Res., 47:546-558.
32. Kartje, Z.J., Barkau, C.L., Rohilla, K.J., Ageely, E.A., and Gagnon, K.T. (2018) Chimeric Guides Probe and Enhance Cas9 Biochemical Activity. Biochemistry, 57:3027-3031.
31. Rohilla, K.J., and Gagnon, K.T. (2017) RNA Biology of Disease-Associated Microsatellite Repeat Expansions. Acta Neuropath. Comm., 5:63.
30. Ageely, E.A., Kartje, Z.J., Rohilla, K.J., Barkau, C.L., and Gagnon, K.T. (2016) Quadruplex-Flanking Stem Structures Modulate the Stability and Metal Ion Preferences of RNA Mimics of GFP. ACS Chem. Biol., 11:2398-2406.
29. Dodd, D.W., Tomchick, D.R., Corey, D.R., and Gagnon, K.T. (2016) Pathogenic C9ORF72 Antisense Repeat RNA Forms a Double Helix with Tandem C:C Mismatches. Biochemistry, 55:1283-1286.
28. Kalantari, R., Hicks, J.A., Li, L., Gagnon, K.T., Sridhara, V., Lemoff, A., Mirzaei, H., and Corey, D.R. (2016) Stable Association of RNAi Machinery is Conserved Between the Cytoplasm and Nucleus of Human Cells. RNA, 22:1-14.
27. Gagnon, K.T. (2016) "Loading of Argonaute Protein with Small Duplex RNA in Cellular Extracts" in Meth. Mol. Biol., Ren-Jang Lin editor, Humana Press, 1421:53-67.
26. Hu, J., Liu, J., Li, L., Gagnon, K.T., and Corey, D.R. (2015) Engineering duplex RNAs for challenging targets: Recognition of GGGGCC/CCCCGG repeats at the ALS/FTD C9orf72 locus. Cell Chem. Biol., 22:1505-1511.
25. Gagnon, K.T., and Corey, D.R. (2015) Stepping toward therapeutic CRISPR. Proc. Natl. Acad. Sci, USA, 112:15536-15537.
24. Gagnon, K.T., and Maxwell E.S. (2015) "Assessing Intermolecular RNA:RNA Interactions Within a Ribonucleoprotein Complex Using Heavy Metal Cleavage Mapping." in Meth. Mol. Biol., Frank J. Schmidt editor, Humana Press, 1240:125-134.
23. Gagnon, K.T., Li, L., Janowski, B.A., and Corey, D.R. (2014) Analysis of Nuclear RNA Interference in Human Cells by Subcellular Fractionation and Argonaute Loading. Nat. Protoc., 9:2045-2060.
22. Gagnon, K.T., Li, L., Chu, Y., Janowski, B.A., and Corey, D.R. (2014) RNAi Factors Are Present and Active in Human Cell Nuclei. Cell Reports, 6:211-221.
21. Gagnon, K.T., and Watts, J.K. (2014) 10th Annual Meeting of the Oligonucleotide Therapeutics Society. Nucl. Acid Therap., 24:428-434.
20. Matsui, M., Zhang, H., Chu, J., Gagnon, K.T., Shaikh, S., Kuchimanchi, S., Manoharan, M., Corey, D.R., and Janowski, B.A. (2013) Promoter RNA Links Transcriptional Regulation of Inflammatory Pathway Genes. Nucl. Acids Res., 41:10086-10109.
19. Dodd, D.W., Gagnon, K.T., and Corey, D.R. (2013) Digital Quantitation of Potential Therapeutic Target RNAs. Nucl. Acid Therap., 23:188-194.
18. Gagnon, K.T., and Corey, D.R. (2012) Argonaute and the Nuclear RNAs: New Pathways for Controlling Gene Expression. Nucl. Acid Therap., 1:3-16.
17. Gagnon, K.T., Biswas, S., Zhang, X., Brown, B.A. II, Wollenzien, P., Mattos, C., and Maxwell, E.S. (2012) Structurally Conserved Nop56/58 N-Terminal Domain Facilitates Efficient Box C/D Ribonucleoprotein-guided Methyltransferase Activity. J. Biol. Chem., 287:19418-19428.
16. Gagnon, K.T., Watts, J.K., Pendergraff, H.M., Potier, P., Thai, D., Montaillier, C., and Corey, D.R. (2011) Antisense and Antigene Inhibition of Gene Expression by Cell-Permeable Oligonucleotide-Oligospermine Conjugates. J. Am. Chem. Soc., 133:8404-8407.
15. Hu, J., Gagnon, K.T., Lui, J., Watts, J.K., Syeda-Newaz, J., Bennett, C.F., Swayze, E.E., Randolph, J., Chattopadhyaya, J. and Corey, D.R. (2011) Allele-Selective Inhibition of Ataxin-3 (ATX3) Expression by Antisense Oligomers and Duplex RNAs. Biol. Chem., 392:315-325.
14. Biswas, S., Buhrman, G., Gagnon, K.T., Mattos, C., Brown II, B.A., and Maxwell, E.S. (2011) Comparative Analysis of the 15.5kD Box C/D snoRNP Core Protein in the Primitive Eukaryote Giardia lamblia Reveals Unique Structural and Functional Features. Biochemistry, 50:2907-2918.
13. Gagnon, K.T., and Maxwell, E.S. (2011) “Electrophoretic Mobility Shift Assay for Characterizing RNA-Protein Interaction.” in Meth. Mol. Biol., Henrik Nielsen editor, Humana Press, 703:275-291.
12. Gagnon, K.T. (2010) HD Therapeutics – CHDI 5th Annual Conference. IDrugs, 13:219-223.
11. Gagnon, K.T., Pendergraff, H.M., Deleavey, G.F., Swayze, E.E., Potier, P., Randolph, J., Roesch, E.B., Chattopadhyaya, J., Damha, M.J., Bennett, C.F., Montaillier, C., Lemaitre, M., and Corey, D.R. (2010) Allele-Selective Inhibition of Mutant Huntingtin Expression with Antisense Oligonucleotides Targeting the Expanded CAG Repeat. Biochemistry, 49:10166-10178.
10. Yue, X., Schwartz, J. C., Chu, Y., Younger, S. T., Gagnon, K.T., Elbashir, S., Janowski, B. A., and Corey, D. R. (2010) Transcriptional Regulation by Small RNAs at Sequences Downstream From 3' Gene Termini. Nat. Chem. Biol., 6:621-629.
9. Gagnon, K.T., Zhang, X., Qu, G., Biswas, S., Suryadi, J., Brown II, B.A., and Maxwell, E.S. (2010) Signature Amino Acids Enable the Archaeal L7Ae Box C/D RNP Core Protein to Recognize and Bind the K-loop RNA Motif. RNA, 16:79-90.
8. Franzen, S., and Gagnon, K.T. (2010) Advertising Science for High Impact Publication. The Open Ethics J., 4:1-9.
7. Hu, J., Matsui, M., Gagnon, K.T., Schwartz, J.C., Gabillet, S., Arar, K., Wu, J., Bezprozvanny, I., and Corey, D.R. (2009) Allele-Specific Silencing of Mutant Huntingtin and Ataxin-3 Genes by Targeting Expanded CAG Repeats in mRNAs. Nat. Biotechnol., 27:478-484.
6. Gagnon, K.T., Qu, G., and Maxwell, E.S. (2009) “Multicomponent 2’-O Ribose Methylation Machines: Evolving Box C/D RNP Structure and Function.” in DNA and RNA Modification Enzymes: Structure, Function, Mechanism and Evolution, H. Grosjean editor, LANDES BioScience, 436-449.
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