Select publications

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Neely SH, Meyer Nunes R, Benabentos R, Garcia A, Donate C, McCartney M, Siltberg-Liberles J. Development of the Peer Investigators Mentoring Experiences in Research (PRIMER) Program: A peer mentoring initiative to increase mentoring in CUREs. J Microbiol Biol Educ. 2025. 0:e00048-25. https://doi.org/10.1128/jmbe.00048-25

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Loyola Irizarry HG, Duarte H, Nakamura K, Benabentos R, McCartney M, Siltberg-Liberles J. A bioinformatics-driven CURE extension increases student self-efficacy and interest in biomedical research. J Microbiol Biol Educ. 2025. 0:e00231-24. https://doi.org/10.1128/jmbe.00231-24

 

Balbin, CA, Nunez-Castilla, J, Stebliankin, V, Baral, P, Sobhan, M, Cickovski, T, Mondal, AM, Narasimhan, G, Chapagain, P, Mathee, K,  & Siltberg-Liberles J. Epitopedia: identifying molecular mimicry between pathogens and known immune epitopes. ImmunoInformatics, 2023. 9:100023, https://doi.org/10.1016/j.immuno.2023.100023. 

 

Nunez-Castilla, J, Stebliankin, V, Baral, P, Balbin, CA, Sobhan, M, Cickovski, T, Mondal, AM, Narasimhan, G, Chapagain, P, Mathee, K, Siltberg-Liberles, J. Potential Autoimmunity Resulting from Molecular Mimicry between SARS-CoV-2 Spike and Human Proteins. Viruses. 2022 Jun; 14(7):1415. https://doi.org/10.3390/V14071415

 

Elkhaligy, H, Balbin, CA, & Siltberg-Liberles, J. Comparative Analysis of Structural Features in SLiMs from Eukaryotes, Bacteria, and Viruses with Importance for Host-Pathogen Interactions. Pathogens. 2022 May; 11(5): 583. https://doi.org/10.3390/pathogens11050583

 

Ahrens JB, Teufel AI, Siltberg-Liberles J. A Phylogenetic Rate Parameter Indicates Different Sequence Divergence Patterns in Orthologs and Paralogs. J Mol Evol. 2020 Dec; 88(10):720-730. https://doi.org/10.1007/s00239-020-09969-7

 

Pokhrel R, Chapagain P, Siltberg-Liberles J. Potential RNA-dependent RNA polymerase inhibitors as prospective therapeutics against SARS-CoV-2. J Med Microbiol. 2020 Jun;69(6):864-873. https://doi.org/10.1099/jmm.0.001203

 

Nunez-Castilla J, Rahaman J, Ahrens JB, Balbin CA, Siltberg-Liberles J. Exploring Evolutionary Constraints in the Proteomes of Zika, Dengue, and Other Flaviviruses to Find Fitness-Critical Sites. J Mol Evol. 2020 May;88(4):399-414. https://doi.org/10.1007/s00239-020-09941-5 

 

Ahrens JB, Nunez-Castilla J, Siltberg-Liberles J. Evolution of intrinsic disorder in eukaryotic proteins. Cell Mol Life Sci. 2017 Sep;74(17):3163-3174. https://doi.org/10.1007/s00018-017-2559-0 Review.

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Rahaman J, Siltberg-Liberles J. Avoiding Regions Symptomatic of Conformational and Functional Flexibility to Identify Antiviral Targets in Current and Future Coronaviruses. Genome Biol Evol. 2016 Dec 31;8(11):3471-3484. https://doi.org/10.1093/gbe/evw246

 

​Dos Santos HG, Siltberg-Liberles J. Paralog-Specific Patterns of Structural Disorder and Phosphorylation in the Vertebrate SH3-SH2-Tyrosine Kinase Protein Family. Genome Biol Evol. 2016 Sep 19;8(9):2806-25. https://doi.org/10.1093/gbe/evw194

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Ahrens J, Dos Santos HG, Siltberg-Liberles J. The Nuanced Interplay of Intrinsic Disorder and Other Structural Properties Driving Protein Evolution. Mol Biol Evol. 2016 Sep;33(9):2248-56. https://doi.org/10.1093/molbev/msw092