Abraham Punnoose, J.; Kam, C. S.; Melfi, T.; Vangaveti, S.; Chen, A. A.; Halvorsen, K. Investigating Polarity Effects in DNA Base Stacking. JACS Au 2025, 5 (12), 5924–5931.
Abraham Punnoose, J.; Cole, D.; Melfi, T.; Morya, V.; Madhanagopal, B.R.; Chen, A.; Vangaveti, S.; Chandrasekaran, A.R.; Halvorsen, K. Tuning the stability of DNA tetrahedra with base-stacking interactions. Nano Lett. 2025, 25, 3605.
Abraham Punnoose, J.; Kam, C.; Hayden, A.; Halvorsen, K. A DIY guide to building and using a bench top centrifuge force microscope. Nat. Protoc.2024 .
Todkari, I.; Chandrasekaran, A.R.; Abraham Punnoose, J.; Mao, S.; Haruehanroengra, P.; Beckles, C.; Sheng, J.; Halvorsen, K. Resolving altered base-pairing of RNA modifications with DNA nanoswitches. Nucleic Acids Res.2023, 51, 11291.
Abraham Punnoose, J.; Thomas, K.J.; Chandrasekaran, A.R.; Vilcapoma, J.; Hayden, A.; Kilpatrick, K.; Vangaveti, S.; Chen, A.; Banco, T.; Halvorsen, K. High-throughput single-molecule quantification of individual base stacking energies in nucleic acids. Nat. Commun. 2023, 14, 631.
Abraham Punnoose, J.; Halvorsen, K.; Chandrasekaran, A.R. DNA Nanotechnology in the Undergraduate Laboratory: Analysis of Molecular Topology Using DNA Nanoswitches. Chem. Educ. 2020, 97 (5), 1448.
Abraham Punnoose, J.; Hayden, A.; Zhou, L.; Halvorsen, K. A Wi-Fi live streaming Centrifuge Force Microscope for benchtop single-molecule experiments. Biophys. J. 2020, 119 (11), 2231-2239.
Zhou, L.; Chandrasekaran, A. R.; Abraham Punnoose, J.; Bonenfant, G.; Charles, S.; Levchenko, O.; Badu, P.; Cavaliere, C.; Pager, C. T.; Halvorsen, K. Programmable low-cost DNA-based platform for viral RNA detection. Sci Adv. 2020, eabc6246.
Chandrasekaran, A.R.; Abraham Punnoose, J.; Zhou, L.; Dey, P.; Dey, B.K.; Halvorsen, K. DNA nanotechnology approaches for microRNA detection and diagnosis. Nucleic Acids Res. 2019, 47 (20), 10489.
Chandrasekaran, A.R.; Abraham Punnoose, J.; Valsangkar, V.; Sheng, J.; Halvorsen, K. Integration of a photocleavable element into DNA nanoswitches. Chem. Commun. 2019, 55 (46), 6587.
Abraham Punnoose, J.; Ma, Y.; Hoque, M. E.; Cui, Y.; Sasaki, S.; Guo, A. H.; Nagasawa, Kazuo.; Mao, H. Random formation of G-quadruplexes in the full-length human telomere overhangs leads to a kinetic folding pattern with targetable vacant G-tracts. Biochemistry. 2018, 57 (51), 6946.
Abraham Punnoose, J.; Ma, Y.; Li, Y.; Sakuma, M.; Nagasawa, K.; Mao, H. Adaptive and Specific Recognition of Telomeric G-quadruplexes via Polyvalency Induced Unstacking of Binding Units. J. Am. Chem. Soc. 2017, 139(22), 7476.
Jiang, H. X.; Cui, Y.; Zhao, T.; Fu, H. W.; Koirala, D.; Abraham Punnoose, J.; Kong, D. M.; Mao, H. Divalent cations and molecular crowding buffers stabilize G-triplex at physiologically relevant temperatures. Sci. Rep. 2015, 5, 9255.
Abraham Punnoose, J.; Cui, Y.; Koirala, D.; Yangyuoru, P. M.; Ghimire, C.; Shrestha, P.; Mao, H. Interaction of G-quadruplexes in the full-length 3′ human telomeric overhang. J. Am. Chem. Soc. 2014, 136 (52), 18062.
Koirala, D.; Abraham Punnoose, J.; Shrestha, P.; Mao, H. Yoctoliter Thermometry for Single‐Molecule Investigations: A Generic Bead‐on‐a‐Tip Temperature‐Control Module. Angew. Chem Int Ed Engl. 2014, 53(13), 3470.