Publications

Kumari A, Meher N, Dey A, Awasthi S, Saraf SA, Srivastava N. Unmasking the role of tumor microenvironment in the advanced stage of cancer treatment to mitigate risks during chemotherapy. Biochemical Pharmacology. 2026 Jan 27:117754. doi.org/10.1016/j.bcp.2026.117754 

Saha S, Rathour SP, Nair GG, Dey A, Srivastava N. Breaking resistance: strategies for novel antibacterial therapeutic interventions. Molecular Biology Reports. 2026 Dec;53(1):318. doi.org/10.1007/s11033-025-11402-5 

Mastoli SY, Saraf SA, Dey A. RNA nanoparticles: Emerging biomolecular scaffolds for precision diagnostics and targeted therapeutics. International Journal of Biological Macromolecules. 2025 Sep 23:147854.  doi.org/10.1016/j.ijbiomac.2025.147854  

Nishad S, Dongare D, Saha S, Anil RD, Srivastava N, Dey A. Current perspectives on gene therapy and its involvement in curing genetic disorders. Human Genetics. 2025 Jun 18:1-9. doi.org/10.1007/s00439-025-02757-7 

Verma V, Rao L, Chaudhary M, Jain S, Pinapati KK, Dey A, Sharma S, Srivastava N. Spirilloxanthin from Verbesina encelioides Flower Extract has Neuroprotective Benefits in Scopolamine-Induced Memory Impaired Rats that Resemble Alzheimer’s Disease. Molecular Neurobiology. 2025 May 28:1-4. doi.org/10.1007/s12035-025-05056-4 

Chaudhran PA, Mastoli SY, Dey A, Saraf SA, Sharma A. Dual-State Emissive and Substituent-Tunable pH-Sensitive Bis-Heterocyclic Fluorescent Probes. The Journal of Organic Chemistry. 2025 Apr 11. doi.org/10.1021/acs.joc.4c02563 

Lee S, Yan S, Dey A, Laederach A, Schlick T. A Cascade of Conformational Switches in SARS-CoV-2 Frameshifting: Coregulation by Upstream and Downstream Elements. Biochemistry. 2025 Feb. doi.org/10.1021/acs.biochem.4c00641 

Dongare DB, Nishad SS, Mastoli SY, Saraf SA, Srivastava N, Dey A. High-throughput sequencing: a breakthrough in molecular diagnosis for precision medicine. Functional & Integrative Genomics. 2025 Dec;25(1):1-23. doi.org/10.1007/s10142-025-01529-w 

Lee S, Yan S, Dey A, Laederach A, Schlick T. An intricate balancing act: Upstream and downstream frameshift co-regulatory elements. bioRxiv. 2024 Jun 27. doi.org/10.1101/2024.06.27.599960 

Dey A, Yan S, Schlick T, Laederach A. Abolished frameshifting for predicted structure-stabilizing SARS-CoV-2 mutants: Implications to alternative conformations and their statistical structural analyses. RNA. 2024 Jul 31:rna-080035. 10.1261/rna.080035.124 

Dey A. Structural Modifications and Novel Protein-Binding Sites in Pre-miR-675—Explaining Its Regulatory Mechanism in Carcinogenesis. Non-coding RNA. 2023 Aug 10;9(4):45. doi.org/10.3390/ncrna9040045 

Dey A. Comprehensive structural and interactome analysis reveals novel interactions and protein binding sites in miR-675: a non-coding RNA critically involved in multiple diseases. bioRxiv. 2023 May 20:2023-05. doi.org/10.1101/2023.05.20.541577 

Kumar J, Lackey L, Waldern JM, Dey A, Mathews DH, Laederach A. Quantitative prediction of variant effects on alternative splicing using endogenous pre-messenger RNA structure probing. Biorxiv. 2021 Sep 13:2021-09. doi.org/10.1101/2021.09.13.460117 

Redmon IC, Ardizzone M, Hekimoğlu H, Hatfield BM, Waldern JM, Dey A, Montgomery SA, Laederach A, Ramos SB. Sequence and tissue targeting specificity of ZFP36L2 reveals Elavl2 as a novel target with co-regulation potential. Nucleic Acids Research. 2022 Apr 22;50(7):4068-82. doi.org/10.1093/nar/gkac209 

Dey A, Monroy-Eklund A, Klotz K, Saha A, Davis J, Li B, Laederach A, Chakrabarti K. In vivo architecture of the telomerase RNA catalytic core in Trypanosoma brucei. Nucleic Acids Research. 2021 Dec 2;49(21):12445-66. doi.org/10.1093/nar/gkab1042 

Schlick T, Zhu Q, Dey A, Jain S, Yan S, Laederach A. To knot or not to knot: multiple conformations of the SARS-CoV-2 frameshifting RNA element. Journal of the American Chemical Society. 2021 Jul 20;143(30):11404-22. doi.org/10.1021/jacs.1c03003 

Alvarez DR, Ospina A, Barwell T, Zheng B, Dey A, Li C, Basu S, Shi X, Kadri S, Chakrabarti K. The RNA structurome in the asexual blood stages of malaria pathogen plasmodium falciparum. RNA biology. 2021 Dec 2;18(12):2480-97. doi.org/10.1080/15476286.2021.1926747 

Fessler AB, Dey A, Finis DS, Fowler AJ, Chakrabarti K, Ogle CA. Innately Water-Soluble Isatoic Anhydrides with Modulated Reactivities for RNA SHAPE Analysis. Bioconjugate Chemistry. 2020 Feb 10;31(3):884-8.  doi.org/10.1021/acs.bioconjchem.0c00024