1. Senavirathne G, Deriving the isoelectric point of amino acids from acid-base equilibria. ChemRxiv.

2025 (preprint); doi:10.26434/chemrxiv-2025-ms4fs-v2.

2. Senavirathne G, On the thermodynamic feasibility of acid-base equilibria. ChemRxiv. 2024 (preprint);

doi:10.26434/chemrxiv-2024-ms4fs-v2.

3. Senavirathne G, London J, Gardner A, Fishel R, Yoder KE. DNA strand breaks and gaps target

retroviral intasome binding and integration. Nature Communications. 2023; 14(1): 7072.

4. Shang R, Lee S, Senavirathne G, Lai EC. MicroRNAs in action: biogenesis, function and regulation.

Nature Reviews Genetics. 2023; 1-18.

5. Kotlar RM, Jones ND, Senavirathne G, Gardner AM, Messer RK, Tan YY, Rabe AJ, Fishel R, Yoder

KE. Retroviral prototype foamy virus intasome binding to a nucleosome target does not determine

integration efficiency. Journal of Biological Chemistry. 2021; 296.

6. Jones ND, Mackler RM, Lopez Jr. MA, Baltierra-Jasso LE, Altman MP, Senavirathne G, Yoder KE.

Prototype foamy virus intasome aggregation is mediated by outer protein domains and prevented by

protocatechuic acid. Scientific Reports. 2019; 9(1): 132.

7. Messer RK, Lopez Jr. MA, Senavirathne G, Yoder KE. Expression and purification of nuclease-free

oxygen scavenger protocatechuate 3, 4-dioxygenase. Journal of Visualized Experiments. 2019; (153):

e59599.

8. Senavirathne G*, Lopez Jr. MA*, Messer R, Fishel R, Yoder KE. Expression and purification of

nuclease-free protocatechuate 3, 4-dioxygenase for prolonged single-molecule fluorescence imaging.

Analytical Biochemistry. 2018; 556: 78-84. (*Equal contribution)

9. Senavirathne G, Mahto SK, Hanne J, O’Brian D, Fishel R. Dynamic unwrapping of nucleosomes by

HsRAD51 that includes sliding and rotational motion of histone octamers. Nucleic Acids Research.

2016; 45(2): 685-698.

10. Senavirathne G*, Liu J*, Lopez Jr. MA, Hanne J, Martin-Lopez J, Lee JB, Yoder KE, Fishel R.

Widespread nuclease contamination in commonly used oxygen-scavenging systems. Nature Methods.

2015; 12(10): 901-902. (*Equal contribution)

11. Senavirathne G*, Bertram JG*, Jaszczur M*, Chaurasiya KR*, Pham P, Mak CH, Goodman MF,

Rueda D. Activation-induced deoxycytidine deaminase (AID) co-transcriptional scanning at single-

molecule resolution. Nature Communications. 2015; 6(1): 10209. (*Equal contribution)

12. Senavirathne G*, Bertram JG*, Jaszczur M*, Pham P, Mak C, Goodman MF, Rueda D. Watching AID

scanning single-stranded and transcribed DNA with single-molecule resolution. Biophysical Journal.

2014; 106(2): 692a. (*Equal contribution)

13. Senavirathne G*, Jaszczur M*, Auerbach PA*, Upton TG, Chelico L, Goodman MF, Rueda D. Single-

Stranded DNA Scanning and Deamination by APOBEC3G with Single-Molecule Resolution.

Biophysical Journal. 2013; 104(2): 177a. (*Equal contribution)

14. Senavirathne G*, Jaszczur M*, Auerbach PA*, Upton TG, Chelico L, Goodman MF, Rueda D. Single-

Stranded DNA Scanning and Deamination by APOBEC3G Cytidine Deaminase at Single Molecule

Resolution. Journal of Biological Chemistry. 2012; 287(19): 15826-15835. (Selected JBC paper of the

week, *Equal contribution)

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