Publications since joining Drexel University
1. Sarfaraz, N., et al., The Liver-Enriched Long Non-Coding RNA FAM99A Suppresses Tumorigenesis Through Negative Regulation of Protein Synthesis. J Mol Biol, 2026. 438(6): p. 169653. 2. Oh, M., B.L. Lee, and S. Somarowthu, Decoding the lncRNA World: Comprehensive Approaches to lncRNA Structure and Interactome Studies. Cells, 2026. 15(2). 3. Oh, M., et al., LncRNA SChLAP1 Promotes Cancer Cell Proliferation and Invasion Via Its Distinct Structural Domains and Conserved Regions. J Mol Biol, 2025. 437(19): p. 169350. 4. Yankey, A., et al., A novel partnership between lncTCF7 and SND1 regulates the expression of the TCF7 gene via recruitment of the SWI/SNF complex. Sci Rep, 2024. 14(1): p. 19384. 5. Sarfaraz, N., S. Somarowthu, and M.J. Bouchard, The interplay of long noncoding RNAs and hepatitis B virus. J Med Virol, 2023. 95(1): p. e28058. 6. Yankey, A., et al., Purification and Structural Characterization of the Long Noncoding RNAs. Methods Mol Biol, 2021. 2372: p. 93-110. 7. Shenoda, B.B., et al., Xist attenuates acute inflammatory response by female cells. Cell Mol Life Sci, 2021. 78(1): p. 299-316. 8.Mazina, O.M., et al., Replication protein A binds RNA and promotes R-loop formation. J Biol Chem, 2020. 295(41): p. 14203-14213. 9.Manigrasso, J., et al., Visualizing group II intron dynamics between the first and second steps of splicing. Nat Commun, 2020. 11(1): p. 2837. 10.Tavares, R.C.A., A.M. Pyle, and S. Somarowthu, Phylogenetic Analysis with Improved Parameters Reveals Conservation in lncRNA Structures. J Mol Biol, 2019. 431(8): p. 1592-1603. 11.Owens, M.C., et al., Identifying Structural Domains and Conserved Regions in the Long Non-Coding RNA lncTCF7. Int J Mol Sci, 2019. 20(19). 12.Somarowthu, S., Progress and Current Challenges in Modeling Large RNAs. J Mol Biol, 2016. 428(5 Pt A): p. 736-747.
Publications from Postdoctoral research
1. Marcia, M., et al., Solving nucleic acid structures by molecular replacement: examples from group II intron studies. Acta Crystallogr D Biol Crystallogr, 2013. 69(Pt 11): p. 2174-85. 2. Marcia, M., S. Somarowthu, and A.M. Pyle, Now on display: a gallery of group II intron structures at different stages of catalysis. Mob DNA, 2013. 4(1): p. 14. 3. Somarowthu, S., et al., Visualizing the ai5gamma group IIB intron. Nucleic Acids Res, 2014. 42(3): p. 1947-58. 4. Chillon, I., et al., Native Purification and Analysis of Long RNAs. Methods Enzymol, 2015. 558: p. 3-37. 5. Somarowthu, S., et al., HOTAIR forms an intricate and modular secondary structure. Mol Cell, 2015. 58(2): p. 353-61. 6. Liu, F., S. Somarowthu, and A.M. Pyle, Visualizing the secondary and tertiary architectural domains of lncRNA RepA. Nat Chem Biol, 2017. 13(3): p. 282-289.
Publications from PhD work
1. Parasuram, R., et al., Functional classification of protein 3D structures from predicted local interaction sites. J Bioinform Comput Biol, 2010. 8 Suppl 1: p. 1-15. 2. Han, G.W., et al., Crystal structure of a metal-dependent phosphoesterase (YP_910028.1) from Bifidobacterium adolescentis: Computational prediction and experimental validation of phosphoesterase activity. Proteins, 2011. 79(7): p. 2146-60. 3. Somarowthu, S., et al., A tale of two isomerases: compact versus extended active sites in ketosteroid isomerase and phosphoglucose isomerase. Biochemistry, 2011. 50(43): p. 9283-95. 4. Somarowthu, S., et al., High-performance prediction of functional residues in proteins with machine learning and computed input features. Biopolymers, 2011. 95(6): p. 390-400. 5.Somarowthu, S. and M.J. Ondrechen, POOL server: machine learning application for functional site prediction in proteins. Bioinformatics, 2012. 28(15): p. 2078-9. 6.Wang, Z., et al., Protein function annotation with Structurally Aligned Local Sites of Activity (SALSAs). BMC Bioinformatics, 2013. 14 Suppl 3(Suppl 3): p. S13. 7. Brodkin, H.R., et al., Prediction of distal residue participation in enzyme catalysis. Protein Sci, 2015. 24(5): p. 762-78.