Biochemistry & Cellular and Molecular Biology

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Read Our Faculty Members’ Research

Read Our Faculty Members’ Research

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Two researchers point at a screen that contains microscopic images from the microscope sitting next to them.

Members of the Department of Biochemistry and Cellular and Molecular Biology are publishing research that advances science across numerous disciplines. 

As members of an R1 research university, BCMB faculty publish new discoveries in areas such as biochemistry, molecular biology, cellular biology, biophysics, plant biology, structural biology, membranes, computational biology, neuroscience, genetics, genomics, bioinformatics, physiology, microbiology, developmental biology, and structural proteomics. Below are recent publications.

  • Alexandre G. Movement of bacteria in the soil and the rhizosphere. Appl Environ Microbiol. 2025;91(10):e0024625. doi:10.1128/aem.00246-25
  • Ganusova EE, Banerjee I, Seats T, Alexandre G. Indole-3-acetic acid (IAA) protects Azospirillum brasilense from indole-induced stress. Appl Environ Microbiol. 2025;91(4):e0238424. doi:10.1128/aem.02384-24
  • Carlew, T. S., Brenya, E., Ferdous, M., Banerjee, I., Donnelly, L., Heinze, E., King, J., Sexton, B., Lacey, R. F., Bakshi, A., Alexandre, G., & Binder, B. M. (2025). Ethylene signals through an ethylene receptor to modulate biofilm formation and root colonization in a beneficial plant-associated bacterium. PLoS genetics, 21(2), e1011587. https://doi.org/10.1371/journal.pgen.1011587
  • Gupta, P., Wiltse, H., Pandey, P., Rai, S., Singh, V. S., Talukdar, S., Alexandre, G., & Tripathi, A. K. (2026). A novel extracytoplasmic function sigma factor (RpoE6) regulates biogenesis of a minor flagellin and other functions in Azospirillum brasilense Sp7. Journal of bacteriology, 208(1), e0046425. https://doi.org/10.1128/jb.00464-25
  • Goodman, C. P., Padgett, V. N., Evans, E. R., & von Arnim, A. G. (2025). Paromomycin is a more effective selection agent than kanamycin in Arabidopsis harboring the neomycin phosphotransferase II transgene. PloS one, 20(6), e0325322. https://doi.org/10.1371/journal.pone.0325322
  • Smith, A. W., & Barrera, F. N. (2025). Regulation of receptor tyrosine kinase hetero-interactions. Current opinion in structural biology, 95, 103187. https://doi.org/10.1016/j.sbi.2025.103187
  • Schuck, R. J., Ward, A. E., Sahoo, A. R., Rybak, J. A., Pyron, R. J., Trybala, T. N., Simmons, T. B., Baccile, J. A., Sgouralis, I., Buck, M., Lamichhane, R., & Barrera, F. N. (2025). Cholesterol inhibits assembly and oncogenic activation of the EphA2 receptor. Communications biology, 8(1), 411. https://doi.org/10.1038/s42003-025-07786-6
  • Barrera, F., Bibrowski, M., Conboy, J. C., Cooney, A., Deserno, M., Dimova, R., Doktorova, M., Enoki, T. A., Farago, O., Fellows, A. P., Gericke, A., Giacomello, A., Goni, F. M., Heerklotz, H., John, B., Kamat, N. P., Kozlov, M. M., Lipowsky, R., London, E., Lorent, J. H., … Villanueva, M. E. (2025). Engineering plasma membrane mimics: general discussion. Faraday discussions, 259(0), 182–199. https://doi.org/10.1039/d5fd90019k
  • Barrera, F. N., Cooney, A., Decker, N. P., Deserno, M., Doktorova, M., Enoki, T. A., Fellows, A. P., Fiorin, G., Golani, G., Huster, D., Kaur, M., Levental, I., Levental, K. R., Lipowsky, R., Lolicato, F., London, E., Lorent, J. H., Lu, T., Lyman, E., Machin, J. M., … Varma, M. (2025). Proteins in asymmetric membranes: general discussion. Faraday discussions, 259(0), 614–633. https://doi.org/10.1039/d5fd90021b
  • Jung, M. S., Choi, W. Y., Zhang, W., Barrera, F. N., & Perkins, R. S. (2025). The Role of Receptor Tyrosine Kinase-like Orphan Receptor 1 (ROR1) in Cancer Stem Cell Signaling. International journal of molecular sciences, 26(16), 7828. https://doi.org/10.3390/ijms26167828
  • Andreghetti, D., Barrera, F. N., Conboy, J. C., Connell, S., Cooney, A., Deng, Z., Deserno, M., Dimova, R., Doktorova, M., Enoki, T. A., Farago, O., Feigenson, G. W., Fellows, A. P., Fiorin, G., Giacomello, A., Golani, G., Goni, F. M., Heerklotz, H., Heuer, A., Huster, D., … Voigt, A. (2025). Structure and dynamics of asymmetric membranes: general discussion. Faraday discussions, 259(0), 475–544. https://doi.org/10.1039/d5fd90020d
  • Rodríguez-García, T., Akakpo, L., Nickles, S. L., Schuck, R. J., Alves, D. S., Schaefer, K. G., Heberle, F. A., King, G. M., & Barrera, F. N. (2025). Engineering of lipid membranes asymmetrically functionalized with chondroitin sulfate. Faraday discussions, 259(0), 168–181. https://doi.org/10.1039/d4fd00195h
  • Gonneville, A. N., Ward, A. E., Naidoo, N. R., Barrera, F. N., & Lamichhane, R. (2026). Rapid and improved surface passivation method for Single-Molecule experiments. Methods (San Diego, Calif.), 247, 95–106. https://doi.org/10.1016/j.ymeth.2026.01.003
  • Mattamira, C., Ward, A., Krishnan, S. T., Lamichhane, R., Barrera, F. N., & Sgouralis, I. (2025). Bayesian analysis and efficient algorithms for single-molecule fluorescence data and step counting. Biophysical journal, 124(19), 3161–3173. https://doi.org/10.1016/j.bpj.2025.08.014
  • Sanwick, A. M., Alves, D. S., Haugh, K. N., Barrera, F. N., & Chaple, I. F. (2026). [64Cu]Cu-DOTA-TYPE7: a targeted PET radiotracer for imaging EphA2+ tumors. Npj imaging, 4(1), 33. https://doi.org/10.1038/s44303-026-00168-5
  • Ward, A., Baeza-Ballesteros, L. J., Schuck, R., García-Murria, M. J., Lamichhane, R., Mingarro, I., & Barrera, F. N. (2026). Cholesterol promotes the formation of dimers and oligomers of the receptor tyrosine kinase ROR1. The Journal of biological chemistry, 302(1), 111000. https://doi.org/10.1016/j.jbc.2025.111000
  • Schuck, R. J., Ward, A. E., Barrera, F. N., & Lamichhane, R. (2026). SiMPull-POP: Quantification of Membrane Protein Assembly via Single Molecule Photobleaching. Bio-protocol, 16(1), e5560. https://doi.org/10.21769/BioProtoc.5560
  • Tanito, K., Munekawa, S., Kikutake, C., Minamihata, K., Ward, A., Nii, T., Kishimura, A., Kamiya, N., Barrera, F. N., Suyama, M., Mori, T., & Katayama, Y. (2026). Screening the Human Proteome for Peptides Targeting the Acidic Environment of Tumor Tissues. Chemical & pharmaceutical bulletin, 74(3), 224–231. https://doi.org/10.1248/cpb.c25-00569
  • Ferdous, M., Brenya, E., & Binder, B. M. (2026). Beyond a Plant Hormone: Ethylene Receptors and Signaling in Microbes. Journal of experimental botany, erag214. Advance online publication. https://doi.org/10.1093/jxb/erag214
  • Dutta, E., Patel, M., Goodman, C., Smith, A. L., Roberts, D. M., & Binder, B. M. (2025). CINV1 and CINV2 are required for increased tolerance to diverse stresses after ethylene-pretreatment of germinating seeds. PloS one, 20(7), e0328236. https://doi.org/10.1371/journal.pone.0328236
  • Aman, S., Swain, S., Dutta, E., Abbas, S., Li, N., Shakeel, S. N., Binder, B. M., & Schaller, G. E. (2025). Modulation of plant growth and development through altered ethylene binding affinity of the ethylene receptor ETR1. BMC plant biology, 25(1), 436. https://doi.org/10.1186/s12870-025-06469-y
  • White, M. G., Harkey, A. F., Mühlemann, J. K., Olex, A. L., Pfeffer, N. J., Houben, M., Binder, B. M., & Muday, G. K. (2026). Ethylene receptor gain- and loss-of-function mutants reveal an ETR1-dependent transcriptional network in Arabidopsis roots. Plant physiology, 200(3), kiag074. https://doi.org/10.1093/plphys/kiag074
  • Brenya, E., Rao, M. S., Urquidi Camacho, R., Kleckley, M., Overholt, A. M., Bruce, B. D., & Binder, B. M. (2026). Ethylene pretreatment drives cytosolic invertase-dependent changes in chloroplast biogenesis, photosynthesis, and metabolism. Journal of experimental botany, erag269. Advance online publication. https://doi.org/10.1093/jxb/erag269
  • Bruce, B. D., & Allakhverdiev, S. I. (2025). Applied photosynthesis: An idea whose time has come. Biochimica et biophysica acta. Bioenergetics, 1866(1), 149525. https://doi.org/10.1016/j.bbabio.2024.149525
  • Akmukhanova, N. R., Seiilbek, S. N., Zayadan, B. K., Bolatkhan, K., Bakytzhan, R. A., Domash, G. S., & Bruce, B. D. (2025). Harnessing Microalgae and Cyanobacteria for Sustainable Pesticide Biodegradation: Advances, Challenges, and Ecological Benefits. Microorganisms, 13(10), 2404. https://doi.org/10.3390/microorganisms13102404
  • Voloshin, R., Goncharova, M., Zharmukhamedov, S. K., Bruce, B. D., & Allakhverdiev, S. I. (2025). In vitro photocurrents from spinach thylakoids following Mn depletion and Mn-cluster reconstitution. Biochimica et biophysica acta. Bioenergetics, 1866(1), 149523. https://doi.org/10.1016/j.bbabio.2024.149523
  • Min, J., Ali, F., Brooks, B. R., Bruce, B. D., & Amin, M. (2025). Predicting Iron-Sulfur Cluster Redox Potentials: A Simple Model Derived from Protein Structures. ACS omega, 10(15), 15790–15798. https://doi.org/10.1021/acsomega.5c01976
  • Penneru, S. K., Tiruvadi-Krishnan, S., Lamichhane, R., & Bruce, B. D. (2026). Single-molecule fluorescence and cross-linking reveal ligand-gated Toc34 oligomerization dynamics. Biophysical journal, 125(6), 1475–1493. https://doi.org/10.1016/j.bpj.2026.02.006
  • Saksena, N., Rao, M. S., Moore, S. C., Penneru, S. K., Zhao, W., Brady, N. G., & Bruce, B. D. (2026). Enhanced Staining and Imaging of Electrophoretically Separated Membrane Proteins Solubilized by SMA/DIBMA Polymers. Electrophoresis, 47(2), 211–226. https://doi.org/10.1002/elps.70071
  • Hastings, G., Makita, H., Agarwala, N., Nelson, M. R., Kirpich, J. S., Singh, K., Parameswaran, S., Ali, F., Bruce, B. D., Liu, H., Luo, L., Xu, W., Redding, K., Schade, C., Mäusle, S. M., & Nürnberg, D. J. (2026). Structural Conservation of the A1 Binding Site in Photosystem I across Cyanobacteria and Green Algae. ACS omega, 11(13), 20605–20615. https://doi.org/10.1021/acsomega.5c12267
  • Ku, P. I., Sreeja, J. S., Chadha, A., Williams, D. S., Engelke, M. F., & Subramanian, R. (2025). Collaborative role of two distinct cilium-specific cytoskeletal systems in driving Hedgehog-responsive transcription factor trafficking. Science advances, 11(11), eadt5439. https://doi.org/10.1126/sciadv.adt5439
  • Hawkins, C. L., Blaner, W. S., & Fernandez, E. J. (2026). Genome-wide analysis reveals ligand-dependent allostery in RARα:RXR-mediated transcriptional regulation. Cell reports, 45(5), 117280. https://doi.org/10.1016/j.celrep.2026.117280
  • Harnish, M. T., Pham, B., Arons, A. B., Xu, Y., Fernandez, E. J., & Shen, T. (2026). Conformational transition of a polycationic hinge domain contributes to DNA binding. Biophysical chemistry, 328, 107531. https://doi.org/10.1016/j.bpc.2025.107531
  • Wang, Y., Xu, W., Hu, R., Penicks, A. K., Pruitt, D., Fernandez, E., & Hajimorad, M. R. (2026). P3, P3N-PIPO and 6K1 from soybean mosaic virus strain N are involved in host specificity for systemic infection in cultivated and wild soybeans. Archives of virology, 171(5), 158. https://doi.org/10.1007/s00705-026-06558-9
  • Guo, H., & Qian, P. (2026). Modulating enzyme activity and specificity by preinstalled posttranslational modifications on substrates: PTM-induced activity stimulation. Biophysical journal, S0006-3495(26)00051-2. Advance online publication. https://doi.org/10.1016/j.bpj.2026.01.036
  • Wang, W., Zhang, C., Guo, H., & Chen, F. (2025). A novel auxin methyltransferase of the SABATH family for phenylacetic acid methylation is conserved in potato and tomato. Plant physiology and biochemistry : PPB, 224, 109972. https://doi.org/10.1016/j.plaphy.2025.109972
  • Yang, M., Deng, H., Rahman, A., Qian, P., & Guo, H. (2025). The Ability of Enzymes to Preserve Reactive Conformations During Enzyme-Catalyzed Reactions can be an Important Factor for Efficient Catalysis. Chemistry (Weinheim an der Bergstrasse, Germany), 31(49), e01422. https://doi.org/10.1002/chem.202501422
  • Chaffin, T. A., Zhao, N., Guo, H., Chen, J. G., & Chen, F. (2026). Direct biosynthesis of medium-chain fatty acid methyl esters in a plant host using a rationally designed SABATH methyltransferase. Journal of biotechnology, 415, 91–98. https://doi.org/10.1016/j.jbiotec.2026.03.023
  • Montes, I. D., Amirthagunanathan, S., Ganji, R., Paulo, J. A., Ahlstedt, B. A., Nguyen, L., Joshi, A. S., & Raman, M. (2025). The p97 ATPase and its adaptor UBXD8 maintain peroxisome pools by preventing pexophagy. The Journal of cell biology, 224(9), e202409024. https://doi.org/10.1083/jcb.202409024
  • House, M., Khadayat, K., Trybala, T. N., Nambiar, N., Jones, E., Abel, S. M., Baccile, J., & Joshi, A. S. (2025). Phosphatidic acid drives spatiotemporal distribution of Pex30 at ER-LD contact sites. The Journal of cell biology, 224(7), e202405162. https://doi.org/10.1083/jcb.202405162
  • Maity, D., & Joshi, A. S. (2025). Cradles of cellular architecture: ER nests as hubs for organelle birth. Developmental cell, 60(15), 2027–2028. https://doi.org/10.1016/j.devcel.2025.07.007
  • Khadayat, K., House, M., Tati, V., & Joshi, A. S. (2026). Protocol to determine in vitro lipid-protein interactions using liposome flotation assay. STAR protocols, 7(2), 104543. Advance online publication. https://doi.org/10.1016/j.xpro.2026.104543
  • Amirthagunanathan, S., Boutry, M., Tati, V., Maity, D., Chapman, C., Pandkar, M. R., Raught, B., Kim, P. K., & Joshi, A. S. (2026). MCTP1 and MCTP2 promote ER-PM contact sites and regulate PI4P homeostasis and cell migration. Molecular biology of the cell, 37(5), br16. https://doi.org/10.1091/mbc.E25-09-0445
  • Sakata, J. T., Alonge, K. M., Diethorn, E. J., Krishnan, K., Milman, N. E. P., Ramsaran, A. I., Wan, X., & Sorg, B. A. (2025). Critical Periods and Beyond: Dynamic Functions of Perineuronal Nets in Cognition, Development, and Disease. The Journal of neuroscience : the official journal of the Society for Neuroscience, 45(46), e1367252025. https://doi.org/10.1523/JNEUROSCI.1367-25.2025
  • Emery, B. A., Everett, M., Dunn, L. R., Lau, B. Y. B., & Krishnan, K. (2026). CDKL5 deficiency results in atypical subregion-specific expression of perineuronal nets during mouse visual critical period. Frontiers in neuroscience, 20, 1769195. https://doi.org/10.3389/fnins.2026.1769195
  • Liu, T., Naidoo, N. R., Agyemang, E., & Lamichhane, R. (2025). Insights into the structural dynamics of the secretin family (class B1) G protein-coupled receptors. The Journal of biological chemistry, 301(8), 110466. https://doi.org/10.1016/j.jbc.2025.110466
  • Lamichhane R. (2025). Correction: Single-Molecule Insights into GPCR Conformational Landscapes. The Journal of membrane biology, 258(2), 121. https://doi.org/10.1007/s00232-025-00342-7
  • Agyemang, E., & Lamichhane, R. (2025). A tale of detergent tails: GPCR activation beyond ligands. Structure (London, England : 1993), 33(4), 633–635. https://doi.org/10.1016/j.str.2025.03.005
  • Agyemang, E., Van Wirt, R., Walls, C., Joseph, T. T., Tiruvadi-Krishnan, S., Grothusen, J., Zhang, Q., Hicks, A., Leite, W., Osti, N. C., Mamontov, E., O’Neill, H. M., Liu, R., & Lamichhane, R. (2026). Activation dynamics of a water-soluble human mu-opioid receptor. The Journal of biological chemistry, 302(5), 111393. https://doi.org/10.1016/j.jbc.2026.111393
  • Gurumoorthy, V., Hicks, A., Tiruvadi-Krishnan, S., Leite, W. C., Chodankar, S., Kolape, J. L., Smith, J. C., Lamichhane, R., & O’Neill, H. (2025). The N-terminal domain of COMPANION OF CELLULOSE SYNTHASE1 promotes microtubule array formation in Arabidopsis. Plant physiology, 199(1), kiaf392. https://doi.org/10.1093/plphys/kiaf392
  • Chavez, M. C., Tremblay, J. T., Zajkowski, M., Ragusa, M., Jones, M. M., Whaley, A. R., Pounders, T. M., Lau, B. Y., & Schulz, K. M. (2026). Prenatal stress history modifies adolescent stress effects on adult social behavior and basolateral amygdala GABAergic neurons with perineuronal nets. Brain research, 1882, 150264. https://doi.org/10.1016/j.brainres.2026.150264
  • Vinayak, V., Basir, R., Golloshi, R., Toth, J., Sant’Anna, L., Lakadamyali, M., McCord, R. P., & Shenoy, V. B. (2025). Polymer model integrates imaging and sequencing to reveal how nanoscale heterochromatin domains influence gene expression. Nature communications, 16(1), 3816. https://doi.org/10.1038/s41467-025-59001-z
  • Playter, C., Golloshi, R., Garretson, J. H., Rodriguez Gonzalez, A., Olajide, T. H., Saad, A., Benson, S. J., & McCord, R. P. (2025). Deciphering pre-existing and induced 3D genome architecture changes involved in constricted melanoma migration. iScience, 28(5), 112346. https://doi.org/10.1016/j.isci.2025.112346
  • San Martin, R., Das, P., Xue, T., Brown, M. R., Dos Reis Marques, R., Essington, M., Gonzalez, A., & McCord, R. P. (2025). Amorphous calcium phosphate-coated surfaces as a model for bone microenvironment in prostate cancer. Heliyon, 11(3), e41929. https://doi.org/10.1016/j.heliyon.2025.e41929
  • Das, P., San Martin, R., Hong, T., & McCord, R. P. (2025). Rearrangement of 3D genome organization in breast cancer epithelial to mesenchymal transition and metastasis organotropism. eLife, 13, RP103697. https://doi.org/10.7554/eLife.103697
  • Jeong, H., Son, S., Lee, G., Park, J. H., & Yoo, S. (2025). Biogenesis of circular RNAs in vitro and in vivo from the Drosophila Nk2.1/scarecrow gene. G3 (Bethesda, Md.), 15(5), jkaf055. https://doi.org/10.1093/g3journal/jkaf055
  • Yun, C. H., Seok, K., Lee, G. G., Park, J. H., & Yoo, S. (2025). Scarecrow, a homolog of mammalian Nkx2.1, regulates the temporal progression and glial differentiation of medulla neuroblasts for the optic lobe development in Drosophila melanogaster. Developmental biology, 528, 277–294. https://doi.org/10.1016/j.ydbio.2025.09.012
  • Lee, G. G., Peterson, A. J., Kim, M. J., Shimell, M., O’Connor, M. B., & Park, J. H. (2025). Linking expression and function of Drosophila type-I TGF-β receptor baboon isoforms: Multiple roles of BaboA isoform in shaping of the adult central nervous system. PloS one, 20(5), e0318406. https://doi.org/10.1371/journal.pone.0318406
  • Harshani Algama, C., Bruce-Tagoe, T. A., Adetunji, J., Shen, T., Danquah, M. K., & Dhakal, S. (2025). Integrating FRET and Molecular Dynamics Simulation for Single-Molecule Aptameric Detection of Staphylococcus aureus IsdA Surface Protein. Biotechnology journal, 20(9), e70101. https://doi.org/10.1002/biot.70101
  • Penfield, J., Shen, T., Rucker, G. R., & Zhang, L. (2026). Molecular Behavior of Human β Defensin Type 3 Embedded in Different Model Lipid Membranes. Journal of chemical information and modeling, 66(9), 5357–5371. https://doi.org/10.1021/acs.jcim.5c02937
  • Shpak, E. D., & Uzair, M. (2025). WUSCHEL: The essential regulator of the Arabidopsis shoot Apical Meristem. Current opinion in plant biology, 85, 102739. https://doi.org/10.1016/j.pbi.2025.102739
  • Overholt, A. M., Pierce, C. E., Paleologos, C. S., Uzair, M., Williams, A. R., Herron, B. S., Aldrich, N. G., & Shpak, E. D. (2026). EPFL1 and EPFL2 signaling reinforces cell fate specification during ovule initiation in Arabidopsis. The Plant cell, 38(4), koag074. https://doi.org/10.1093/plcell/koag074
  • Bondar, A. N., & Smith, J. C. (2025). Bacteriorhodopsin proton-pumping mechanism: Successes and challenges in computational approaches. Biophysical journal, 124(22), 3813–3826. https://doi.org/10.1016/j.bpj.2025.03.035
  • Smith, J. C., Smith, M. D., Liu, S. H., Rukmani, S. J., Mohan, M., Yu, Y., & Goswami, M. (2025). Molecular simulation and artificial intelligence for the circular economy of bioenergy and bioproducts. Biophysical journal, 124(22), 3827–3852. https://doi.org/10.1016/j.bpj.2025.09.006
  • Joshi, A., Xiao, Z., Suman, S., Cooper, C., Ha, K., Carson, J. A., Quarles, L. D., Smith, J. C., & Gupta, M. (2025). Structure-Based Design of Small-Molecule Inhibitors of Human Interleukin-6. Molecules (Basel, Switzerland), 30(14), 2919. https://doi.org/10.3390/molecules30142919
  • Morrison, K. M., Agarwal, R., Stubbs, H. E., Yu, H., Ruhl, S., Chen, X., Sullam, P. M., Bensing, B. A., Smith, J. C., & Iverson, T. M. (2025). Sialic acid identity modulates host tropism of sialoglycan-binding viridans group streptococci. The Journal of biological chemistry, 301(9), 110540. https://doi.org/10.1016/j.jbc.2025.110540
  • Kundu, T., Smith, J. C., & Gupta, M. (2025). Effect of Acetylation Patterns of Xylan on Interactions with Cellulose. Biomacromolecules, 26(3), 1659–1671. https://doi.org/10.1021/acs.biomac.4c01469
  • Gugulothu, N., Mohan, M., Marland, M. R., Smith, J. C., & Kidder, M. K. (2025). Deep Learning Approaches for Predicting the Surface Tension of Ionic Liquids. Journal of chemical information and modeling, 65(12), 5856–5867. https://doi.org/10.1021/acs.jcim.5c00158
  • Wan, Z., Yu, Y., Bautista, G. F. M., Srebnik, S., Smith, J. C., & Rojas, O. J. (2025). Nanopolysaccharide Builder: A User-Friendly Tool for Atomistic Models of Polysaccharide-Based Nanostructures. Journal of chemical information and modeling, 65(21), 11915–11924. https://doi.org/10.1021/acs.jcim.5c01204
  • Tan, L., Scott, H. L., Smith, M. D., Pingali, S. V., Cheng, X., O’Neill, H. M., Katsaras, J., Smith, J. C., Elkins, J. G., Davison, B. H., & Nickels, J. D. (2025). Toxic Effects of Butanol in the Plane of the Cell Membrane. Langmuir : the ACS journal of surfaces and colloids, 41(2), 1281–1296. https://doi.org/10.1021/acs.langmuir.4c03677
  • Shi, Y., Parks, J. M., & Smith, J. C. (2025). Comparative Analysis of TCR and TCR-pMHC Complex Structure Prediction Tools. Journal of chemical information and modeling, 65(13), 7156–7173. https://doi.org/10.1021/acs.jcim.5c00298
  • Malik, S., Kneller, G. R., Smith, M. D., & Smith, J. C. (2025). Simulation and generalized Langevin equation study of lipid subdiffusion in biomembrane phases. Biophysical journal, 124(23), 4345–4355. https://doi.org/10.1016/j.bpj.2025.10.033
  • T, R. R., Lagergren, J. H., Smith, J. C., & Demerdash, O. N. A. (2025). Allosteric prediction via convolutional neural networks and protein structural and dynamical features. Biophysical journal, S0006-3495(25)03469-1. Advance online publication. https://doi.org/10.1016/j.bpj.2025.12.011
  • Rukmani, S. J., Yu, Y., Mohan, M., Sethuraman, V., Goswami, M., & Smith, J. C. (2026). Coarse-grained molecular dynamics simulation of solvent-dependent cellulose nanofiber interactions. Biophysical journal, 125(2), 502–514. https://doi.org/10.1016/j.bpj.2025.08.021
  • Amburn, J. A., J Rukmani, S., Parks, J. M., & Smith, J. C. (2026). IRIS: A Machine Learning-Based Pose Reranking Tool for RNA-Ligand Docking. ACS omega, 11(9), 15115–15132. https://doi.org/10.1021/acsomega.5c11891
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