Publications

2022

• Usta, H. M., Forough, M., & Persil Çetinkol, Ö. (2022). Coumarin 6H-fused fluorescent probe for highly sensitive detection of coralyne using oligonucleotide-modified silver nanoparticles. Analytical and Bioanalytical Chemistry, 1-15.

2021

• Yaşar, P., Kars, G., Yavuz, K., Ayaz, G., Oğuztüzün, Ç., Bilgen, E., Suvacı, Z., Çetinkol, Ö.P., Can, T. & Muyan, M. (2021). A CpG island promoter drives the CXXC5 gene expression. Scientific Reports, 11(1), 1-20.

• Kouzegaran, V. J., Farhadi, K., Forough, M., Bahram, M., & Çetinkol, Ö. P. (2021). Highly-sensitive and fast detection of human telomeric G-Quadruplex DNA based on a hemin-conjugated fluorescent metal-organic framework platform. Biosensors and Bioelectronics, 178, 112999.

2020

• Bilgen, E., Forough, M., & Persil Çetinkol, Ö. (2020). A conjugated gold nanoparticle-azacyanine off-on-off fluorescence probe for sensitive and selective detection of G-quadruplexes. Talanta, 121076.

• Bilgen, E., & Persil Çetinkol, Ö. (2020). Doxorubicin exhibits strong and selective association with VEGF Pu22 G-quadruplex. Biochimica et Biophysica Acta – General Subjects, 1864(12), 129720.

• Doğan, K., Gülkaya, A., Forough, M., & Persil Çetinkol, Ö. (2020). Novel Fluorescent Azacyanine Compounds: Improved Synthesis and Optical Properties. ACS Omega.

2019

• Guloglu, S., Kirmaci, F. N., Çetinkol, Ö. P., Forough, M., & Gulkaya, A. (2019). Azacyanines as novel topoisomerase II alpha inhibitors. Letters in Drug Design & Discovery, 17(5), 666–671.

• Küçükakdağ Doğu, A., & Persil Çetinkol, Ö. (2019). Targeting human telomeric DNA with azacyanines. Turkish Journal of Chemistry, 43(4), 1040–1051.

• Usta, H. M., Forough, M., & Persil Çetinkol, Ö. (2019). A DNA-free colorimetric probe based on citrate-capped silver nanoparticles for sensitive and rapid detection of coralyne. Sensors and Actuators, B: Chemical, 298, 126823.

2018

• Tutuncu, S., Guloglu, S., Kucukakdag, A., & Cetinkol, O. P. (2018). Selective High Binding Affinity of Azacyanines to polyd(A) polyd(T)⋅polyd(T) Triplex: The Effect of Chain Length and Branching on Stabilization, Selectivity and Affinity. ChemistrySelect, 3(45), 12878–12887.

2015

• Sathitsuksanoh, N., Sawant, M., Truong, Q., Tan, J., Canlas, C. G., Sun, N., Zhang, W., Renneckar, S., Prasomsri, T., Shi, J., Çetinkol, Ö., Singh, S., Simmons, B. A., & George, A. (2015). How Alkyl Chain Length of Alcohols Affects Lignin Fractionation and Ionic Liquid Recycle During Lignocellulose Pretreatment. Bioenergy Research.

2014

• Persil Çetinkol, Ö. (2014). Small Molecule Recognition of Poly (A). In Polyadenylation (pp. 81–108). Humana Press, Totowa, NJ.

2012

• Çetinkol, Ö. P., Smith-Moritz, A. M., Cheng, G., Lao, J., George, A., Hong, K., Henry, R., Simmons, B. A., Heazlewood, J. L., & Holmes, B. M. (2012). Structural and chemical characterization of hardwood from tree species with applications as bioenergy feedstocks. PLoS ONE, 7.

• Eudes, A., George, A., Mukerjee, P., Kim, J. S., Pollet, B., Benke, P. I., Yang, F., Mitra, P., Sun, L., Çetinkol, Ö. P., Chabout, S., Mouille, G., Soubigou-Taconnat, L., Balzergue, S., Singh, S., Holmes, B. M., Mukhopadhyay, A., Keasling, J. D., Simmons, B. A., … Loqué, D. (2012). Biosynthesis and incorporation of side-chain-truncated lignin monomers to reduce lignin polymerization and enhance saccharification. Plant Biotechnology Journal, 10, 609–620.

• Torr, K. M., Love, K. T., Çetinkol, Ö. P., Donaldson, L. A., George, A., Holmes, B. M., & Simmons, B. A. (2012). The impact of ionic liquid pretreatment on the chemistry and enzymatic digestibility of Pinus radiata compression wood. Green Chemistry, 14, 778–787.

2011

• Dibble, D. C., Li, C., Sun, L., George, A., Cheng, A., Çetinkol, Ö. P., Benke, P., Holmes, B. M., Singh, S., & Simmons, B. A. (2011). A facile method for the recovery of ionic liquid and lignin from biomass pretreatment. Green Chemistry, 13, 3255–3264.

2010

• Çetinkol, Ö. P., Dibble, D. C., Cheng, G., Kent, M. S., Knierim, B., Auer, M., Wemmer, D. E., Pelton, J. G., Melnichenko, Y. B., Ralph, J., Simmons, B. A., & Holmes, B. M. (2010). Understanding the impact of ionic liquid pretreatment on eucalyptus. Biofuels, 1(1), 33–46.

2009

• Çetinkol, Ö. P., & Hud, N. V. (2009). Molecular recognition of poly(A) by small ligands: An alternative method of analysis reveals nanomolar, cooperative and shape-selective binding. Nucleic Acids Research, 37(2), 611–621.

• Engelhart, A. E.; Plavec, J.; Persil, Ö. and Hud, N. V. (2009). Metal Ion Interactions with G-Quadruplex Structures. In Nucleic Acid–Metal Ion Interactions (pp. 118–154). RSC Cambridge.

• Joung, I. S., Persil Çetinkol, Ö., Hud, N. V., & Cheatham, T. E. (2009). Molecular dynamics simulations and coupled nucleotide substitution experiments indicate the nature of A·A base pairing and a putative structure of the coralyne-induced homo-adenine duplex. Nucleic Acids Research, 37(22), 7715–7727.

2008

• Çetinkol, Ö. P., Engelhart, A. E., Nanjunda, R. K., Wilson, W. D., & Hud, N. V. (2008). Submicromolar, selective G-quadruplex ligands from one pot: Thermodynamic and structural studies of human telomeric DNA binding by azacyanines. ChemBioChem, 9(12), 1889–1892.

2007

• Persil, Ö., & Hud, N. V. (2007). Harnessing DNA intercalation. Trends in Biotechnology, 25(10), 433–436.

2004

• Persil, Ö., Santai, C. T., Jain, S. S., & Hud, N. V. (2004). Assembly of an antiparallel homo-adenine DNA duplex by small-molecule binding. Journal of the American Chemical Society, 126(28), 8644–8645.

2003

• Carrillo-Cabrera, W., Cardoso Gil, R., Somer, M., Persil, Ö., & Von Schnering, H. G. (2003). Na₁₂Ge₁₇: A Compound with the Zintl Anions [Ge₄]^4— and [Ge₉]^4— — Synthesis, Crystal Structure, and Raman Spectrum. Zeitschrift fur Anorganische und Allgemeine Chemie, 629(4), 601–608.