24. Ellipilli, S.; Phillips, J. D.; Heemstra, J. M. Synthesis of comb-shaped oligonucleotides using a non-nucleosidic branching phosphoramidite. Org. Biomol. Chem. 2018 in press.

23. Waterman, R.; Heemstra, J., eds. Expanding the Cure Model: Course-based Undergraduate Research Experience. Research Corporation for Science Advancement, Tucson, AZ, 2018.

22. Haas, K. L.; Heemstra, J. M.; Medema, M. H.; Charkoudian, L. K. Collaborating with Undergraduates to Contribute to Biochemistry Community Resources. Biochemistry 2017 in press.

Abstract Image

21. Heemstra, J. M.; Waterman, R.; Antos, J. M.; Beuning, P. J.; Bur, S. K.; Columbus, L.; Feig, A. L.; Fuller, A. A.; Gillmore, J. G.; Leconte, A. M.; Londergan, C. H.; Pomerantz, W. C. K.; Prescher, J. A.; Stanley, L. M. Throwing away the cookbook: implementing course-based undergraduate research experiences (CUREs) in chemistry. ACS Symp. Series 2017 1248, 33-63.

20. Hanson, W. M.; Chen, Z.; Jackson, L. K.; Attaf, M.; Sewell, A. K.; Heemstra, J. M.; Phillips, J. D. Reversible Oligonucleotide Chain Blocking Enables Bead Capture and Amplification of T-Cell Receptor α and β Chain mRNAs J. Am. Chem. Soc. 2016 138, 11073-11076.for publication 20

19. Price, E. K.; Davis, D. L.; Aderibigbe, S. O.; Larkin, M. X.-H.; Barlow, E. D.; Chen, R.; Ford, L. C.; Gray, Z. T.; Gren, S. H.; Jin, Y.; Keddington, K. S.; Kent, A. D.; Kim, D.; Lewis, A.; Marrouche, R. S.; O’Dair, M. K.; Powell, D. R.; Scadden, M. H. C.; Session, C. B.; Tao, J.; Trieu, J.; Whiteford, K. N.; Yuan, Z.; Yun, G.; Zhu, J.; Heemstra, J. M. Effect of Buffer Conditions and Organic Co-Solvents on the Rate of Strain-Promoted Azide-Alkyne Cycloaddition. J. Org. Chem. 2016 81, 6816-6819
.Publication 19

18. Chen, Z.; Meek, K. N.; Rangel, A. E.; Heemstra, J. M. Synthesis and Polymerase Incorporation of β,γ-Modified α-L-Threofuranosyl Thymine Triphosphate Mimics. Bioorg. Med. Chem. Lett. 2016 26, 3958-3962.TOC graphic BMCL

17. Tan, Z.; Feagin, T. A.; Heemstra, J. M. Temporal Control of Aptamer Biosensors Using Covalent Self-Caging to Shift Equilibrium. J. Am. Chem. Soc. 2016138, 6328-6331.

graphic for publication 17

16. Meek, K. N.; Rangel, A. E.; Heemstra, J. M. Enhancing aptamer function via in vitro selection using modified nucleic acids. Methods 2016 29-36.

abstract graphic from Methods publication

15. Perera, R. T.; Fleming, A. M.; Peterson, A. M.; Heemstra, J. M.; Burrows, C. J.; White, H. S. Size-dependent unzipping of duplexes of A-form DNA-RNA, A-form DNA-PNA, and B-form DNA-DNA in the alpha-hemolysin nanopore. Biophys. J. 2016110, 306-314

Abstract Graphic

14. Heemstra, J. M. Learning from the Unexpected in Life and DNA Self-Assembly. Beil. J. Org. Chem. 2015 11, 2713-2720.

TOC Graphic

13. Peterson, A. M.; Jahnke, F. M.; Heemstra, J. M. Modulating the Substrate Selectivity of DNA Aptamers Using Surfactants. Langmuir 2015 31, 11769-11773.

Langmuir TOC Graphic

12. Peterson, A. M.; Tan, Z.; Kimbrough, E. M.; Heemstra, J. M. 3,3’-Dioctadecyloxacarbocyanine Perchlorate (DiO) as a Fluorogenic Probe for Measurement of Critical Micelle Concentration. Anal. Methods 2015 7, 6877-6882.

Analytical Chemistry Publication Graphic

11. Anderton, G. I.; Bangerter, A. S.; Davis, T. C.; Feng, Z.; Furtak, A. J.; Larsen, J. O.; Scroggin, T. L.;  Heemstra, J. M. Accelerating Strain-Promoted Azide-Alkyne Cycloaddition using Micellar Catalysis. Bioconjugate Chem2015 26, 1687-1691.

TOC graphic 06_15

10. Feagin, T. A.; Olsen, D. P. V.; Headman, Z. C.; Heemstra, J. M. High-Throughput Enantiopurity Analysis using Enantiomeric DNA-Based Sensors. J. Am. Chem. Soc2015 137, 4198-4206.

TOC graphic Feagin_03-15_2

9. Peterson, A. M.; Heemstra, J. M. Controlling Self-Assembly of DNA-Polymer Conjugates for Applications in Imaging and Drug Delivery.WIREs Nanomed. Nanobiotechnol.2015 7, 282-297.

Nanotech Architecture Figure 1

8. Sharma, A. K.; Plant, J. J.; Rangel, A. E.; Khoe, K. N.; Anamisis, A. J.; Hollien, J.; Heemstra, J. M. Fluorescent RNA Labeling Using Self-Alkylating Ribozymes. ACS Chem. Biol2014 9, 1680-1684.

2014 Chem Bio TOC Graphic

7. De Costa, N. T. S.; Heemstra, J. M. Differential DNA and RNA Sequence Discrimination by PNA Having Charged Side Chains. Bioorg. Med. Chem. Lett. 2014 24, 2360-2363.

6. Kent, A. D.; Spiropulos, N. G.; Heemstra, J. M. General Approach for Engineering Small-Molecule-Binding DNA Split Aptamers. Anal. Chem2013 85, 9916-9923.

5. De Costa, N. T. S.; Heemstra, J. M. Evaluating the Effect of Ionic Strength on Duplex Stability for PNA Having Negatively or Positively Charged Side Chains. PLOS ONE 2013 8, e58670.


4. Spiropulos, N. G.; Heemstra, J. M. Templating Effect in DNA Proximity Ligation Enables use of Non-Bioorthogonal Chemistry in Biological Fluids. Artificial DNA: PNA & XNA 2012 3, 123-128.


3. Sharma, A. K.; Kent, A. D.; Heemstra, J. M. Enzyme-Linked Small-Molecule Detection using Split Aptamer Ligation. Anal. Chem2012 84, 6104-6109.


2. Feagin, T. A.; Shah, N. I.; Heemstra, J. M. Convenient and Scalable Synthesis of Fmoc-Protected Peptide Nucleic Acid Backbone. J. Nucleic Acids. 2012 354549.


1.Sharma, A. K.; Heemstra, J. M. Small Molecule-Dependent Split Aptamer Ligation. J. Am. Chem. Soc2011 133, 12426-12429.

Small Molecule-Dependent split aptamer ligation image

Undergraduate, Graduate, and Postdoctoral:

12. Heemstra, J. M.; Liu, D. R. Templated Synthesis of Peptide Nucleic Acids via Sequence-Selective Base-Filling Reactions. J. Am. Chem. Soc2009 131, 11347-11349.

11. Kowtoniuk, W. E.; Shen, Y.; Heemstra, J. M.; Agarwal, I.; Liu, D. R. A chemical screen for biological small molecule-RNA conjugates reveals CoA-linked RNA. Proc. Nat. Acad. Sci. U.S.A. 2009 106, 7768-7773.

10. Heemstra, J. M.; Kerrigan, S. A.; Doerge, D. R.; Helferich, W. G.; Boulanger, W. A. Total Synthesis of (S)-Equol.Org. Lett. 2006 8, 5441-5443.

9. Stone, M. T.; Heemstra, J. M.; Moore, J. S. The Chain Length Dependence Test. Acc. Chem. Res2006 39, 11-20.

8. Heemstra, J. M.; Moore, J. S. Enhanced Methylation Rate within a Foldable Molecular Receptor. J. Org. Chem. 2004 69, 9234-9237

7. Heemstra, J. M.; Moore, J. S. Helix stabilization through pyridinium-? interactions. Chem. Commun. 2004 1480-1481.

6. Heemstra, J. M.; Moore, J. S. A novel indicator series for measuring pKa values in acetonitrile. Tetrahedron2004, 60, 7287-7292.

5. Goto, H.; Heemstra, J. M.; Hill, D. J.; Moore, J. S. Single-Site Modifications and Their Effect on the Folding Stability of m-Phenylene Ethynylene Oligomers. Org. Lett. 2004 6, 889-892.

4. Heemstra, J. M.; Moore, J. S. Pyridine-Containing m-Phenylene Ethynylene Oligomers Having Tunable Basicities.Org. Let. 2004 6, 659-662.

3. Heemstra, J. M.; Moore, J. S. Folding-Promoted Methylation of a Helical DMAP Analog. J. Am. Chem. Soc. 2004 126, 1648-1649.

2. Cary (Heemstra), J. M.; Moore, J. S. Hydrogen Bond Stabilized Helix Formation of a m-Phenylene Ethynylene Oligomer. Org. Lett. 2002 4, 4663-4666.

1. Nowick, J. S.; Cary (Heemstra), J. M.; Tsai, J. H. A Triply Templated Artificial β-Sheet. J. Am. Chem. Soc. 2001 123, 5176-5180.