Publications

Prior to Tufts

2022

31. Melzer, M. E.; Sweedler, J. V.; Clark, K. D.* “Rapid Determination of RNA Modifications in Consensus Motifs by Nuclease Protection with Ion-Tagged Oligonucleotide Probes and Matrix-Assisted Laser Desorption Ionization Mass Spectrometry” Genes 2022, 13, 1008. (*corresponding author)

30. Clark, K. D. “Sample Preparation Strategies for Characterizing RNA Modifications in Small-Volume Samples and Single Cells” LCGC North America, 2022, 40, 270–273.

29. Clark, K. D.; Rubakhin, S. S.; Sweedler, J. V. “Characterizing RNA modifications in Single Neurons using Mass Spectrometry” J. Vis. Exp. JoVE 2022, 182, 63940.

2021

28. Clark, K. D.; Rubakhin, S. S.; Sweedler, J. V. “Single Neuron RNA Modification Analysis by Mass Spectrometry: Characterizing RNA Modification Patterns and Dynamics with Single-Cell Resolution” Anal. Chem. 2021, 93, 14537–14544.

27. Clark, K. D.; Lee, C.; Gillette, R. G.; Sweedler, J. V. “Characterization of Neuronal RNA Modifications during Non-Associative Learning in Aplysia Reveals Key Roles for tRNAs in Behavioral Sensitization” ACS Cent. Sci. 2021, 7, 1183–1190.

2020

26. Clark, K. D.; Philip, M. C.; Tan. Y.; Sweedler, J. V. “Biphasic Liquid Microjunction Extraction for Profiling Neuronal RNA Modifications by Liquid Chromatography−Tandem Mass Spectrometry” Anal. Chem. 2020, 92, 12647–12655.

2019

25. Clark, K. D.; Zhu, C.; Anderson, J. L. “Maximizing Ion-tagged Oligonucleotide Loading on Magnetic Ionic Liquid Supports for the Sequence-Specific Extraction of Nucleic Acids” Anal. Chem. 2019, 91, 5945-5952.

24. Hice, S. A.*; Clark, K. D.*; Anderson, J. L.; Brehm-Stecher, B. F. “Capture, Concentration, and Detection of Salmonella in Foods using Magnetic Ionic Liquids and Recombinase Polymerase Amplification” Anal. Chem. 2019, 91, 1113–1120. *Authors contributed equally to this work.

23. Ding, X.; Clark, K. D.; Varona, M.; Emaus, M. N.; Anderson, J. L. “Magnetic Ionic Liquid-Enhanced Isothermal Nucleic Acid Amplification and its Application to Rapid Visual DNA Analysis” Anal. Chim. Acta 2019, 1045, 132-140.

2018

22. Santra, K.; Clark, K. D.; Maity, N.; Petrich, J. W.; Anderson, J. L. “Exploiting Fluorescence Spectroscopy to Identify Magnetic Ionic Liquids Suitable for the Isolation of Oligonucleotides” J. Phys. Chem. B 2018, 122, 7747-7756.

21. Varona, M.; Ding, X.; Clark, K. D.; Anderson, J. L. “Solid-Phase Microextraction of DNA from Mycobacteria in Artificial Sputum Samples to Enable Visual Detection using Isothermal Amplification” Anal. Chem. 2018, 90, 6922-6928.

20. Anderson, J. L.; Clark, K. D. “Ionic Liquids as Tunable Materials in (Bio)Analytical Chemistry” Anal. Bioanal. Chem. 2018, 410, 4565-4566.

19. Emaus, M. N.; Clark, K. D.; Hinners, P.; Anderson, J. L. “Preconcentration of DNA using Magnetic Ionic Liquids that are Compatible with Real-Time PCR for Rapid Nucleic Acid Quantification” Anal. Bioanal. Chem. 2018, 410, 4135–4144.

18. Peng, X.; Clark, K. D.; Ding, X.; Zhu, C.; Varona, M.; Emaus, M. N.; An, J.; Anderson, J. L. “Coupling Oligonucleotides Possessing a Poly-Cytosine Tag with Magnetic Ionic Liquids for Sequence-Specific DNA Analysis” Chem. Commun. 2018, 73, 10284-10287.

17. Clark, K. D.; Trujillo-Rodríguez, M. J.; Anderson, J. L. “Advances in the Analysis of Biological Samples using Ionic Liquids” Anal. Bioanal. Chem. 2018, 410, 4567–4573.

16. Clark, K. D.; Emaus, M. N.; Varona, M.; Bowers, A. N.; Anderson J. L. “Ionic Liquids: Solvents and Sorbents in Sample Preparation” J. Sep. Sci. 2018, 41, 209-235.

2017

15. Nacham, O.; Clark, K. D.; Varona, M.; Anderson, J. L. “Selective and Efficient RNA Analysis by Solid-Phase Microextraction” Anal. Chem. 2017, 89, 10661-10666.

14. Clark, K. D.; Varona, M.; Anderson, J. L. “Ion-Tagged Oligonucleotides Coupled with a Magnetic Liquid Support for the Sequence-Specific Capture of DNA” Angew. Chem. Int. Ed. 2017, 56, 7630-7633.

13. Clark, K. D.; Purslow, J. A.; Pierson, S. A.; Nacham, O.; Anderson, J. L. “Rapid Preconcentration of Viable Bacteria using Magnetic Ionic Liquids for PCR Amplification and Culture-based Diagnostics” Anal. Bioanal. Chem. 2017, 409, 4983-4991.

12. Pierson, S. A.; Nacham, O.; Clark, K. D.; Nan, H.; Mudryk, Y. Anderson, J. L. “Synthesis and Characterization of Low Viscosity Hexafluoroacetylacetonate-based Magnetic Ionic Liquids” New J. Chem. 2017, 41, 5498-5505.

2016

11. Clark, K. D.; Zhang, C.; Anderson, J. L. “Sample Preparation for Bioanalytical and Pharmaceutical Analysis” Anal. Chem. 2016, 88, 11262-11270.

10. Nacham, O.; Clark, K. D.; Anderson, J. L. “Extraction and Purification of DNA from Complex Biological Sample Matrices using Solid-Phase Microextraction Coupled with Real-Time PCR” Anal. Chem. 2016, 88, 7813-7820.

9. Trujillo-Rodriguez, M. J.; Nacham, O.; Clark, K. D.; Pino, V.; Anderson, J. L.; Ayala, J. H.; Afonso, A. M. “Magnetic Ionic Liquids as Non-conventional Extraction Solvents for the Determination of Polycyclic Aromatic Hydrocarbons” Anal. Chim. Acta 2016, 934, 106-113.

8. Clark, K. D.; Nacham, O.; Purslow, J. A.; Pierson, S. A.; Anderson, J. L. “Magnetic Ionic Liquids in Analytical Chemistry: A Review” Anal. Chim. Acta 2016, 934, 9-21.

7. Clark, K. D.; Sorensen, M.; Nacham, O.; Anderson, J. L. “Preservation of DNA in Nuclease-Rich Samples using Magnetic Ionic Liquids” RSC Adv. 2016, 6, 39846-39851.

6. Nacham, O.; Clark, K. D.; Anderson, J. L. “Synthesis and Characterization of the Physicochemical and Magnetic Properties for Perfluoroalkyl Ester and Fe(III) Carboxylate-based Hydrophobic Magnetic Ionic Liquids” RSC Adv. 2016, 6, 11109-11117.

2015

5. Clark, K. D.; Yamsek, M. M.; Nacham, O.; Anderson, J. L. “Magnetic Ionic Liquids as PCR-compatible Solvents for DNA Extraction from Biological Samples” Chem. Commun. 2015, 51, 16771-16773.

4. Yu, H.; Clark, K. D.; Anderson, J. L. “Rapid and Sensitive Analysis of Microcystins using Ionic Liquid-based in situ Dispersive Liquid-Liquid Microextraction” J. Chromatogr. A 2015, 1406, 10-18.

3. Nacham, O.; Clark, K. D.; Anderson, J. L. “Analysis of Bacterial Plasmid DNA by Solid-Phase Microextraction” Anal. Methods 2015, 7, 7202-7207.

2. Clark, K. D.; Nacham, O.; Yu, H.; Li, T.; Yamsek, M. M.; Ronning, D. R.; Anderson, J. L. “Extraction of DNA by Magnetic Ionic Liquids: Tunable Solvents for Rapid and Selective DNA Analysis” Anal. Chem. 2015, 87, 1552-1559.

1. Nacham, O.; Clark, K. D.; Yu, H.; Anderson, J. L. “Synthetic Strategies for Tailoring the Physicochemical and Magnetic Properties of Hydrophobic Magnetic Ionic Liquids” Chem. Mater. 2015, 27, 923-931.