Recent Student Publications
2025
Bandyadka S., Lebo D.P.V., Mondragon A.A., Serizier S.B., Kwan J., Peterson J.S., Chasse A.Y., Jenkins V.K., Calikyan A., Ortega A.J., Campbell J.D., Emili A., McCall K., 2025, Multi-modal comparison of molecular programs driving nurse cell death and clearance in Drosophila melanogaster oogenesis, PLoS Genet, 21:e1011220.
Bragdon M.D.J., Patel N., Chuang J., Levien E., Bashor C.J., Khalil A.S., 2023, Cooperative assembly confers regulatory specificity and long-term genetic circuit stability, Cell, 186:3810-3825.e18.
Descoteaux A.E., Radulovic M., Alburi D., Bradham C.A., 2025, CMTM4 is an adhesion modulator that regulates skeletal patterning and primary mesenchyme cell migration in sea urchin embryos, Dev Biol, 521:85-95.
Dixon C.T., Yang P., McCall K., 2025, Traumatic injury leads to ovarian cell death and reproductive disturbances in Drosophila melanogaster, Biol Open. 14:BIO061825.
Hwang, S. W., Li, Y., Green, A. A., & Liu, A. P. (2025). pH-responsive synthetic cells for controlled protein synthesis and release. bioRxiv,11.16.688650.
Lambourne L., Mattioli K., Santoso C., Sheynkman G., Inukai S., Kaundal B., Berenson A., Spirohn-Fitzgerald K., Bhattacharjee A., Rothman E., Shrestha S., Laval F., Carroll B.S., Plassmeyer S.P., Emenecker R.J., Yang Z., Bisht D., Sewell J.A., Li G., Prasad A., Phanor S., Lane R., Moyer D.C., Hunt T., Balcha D., Gebbia M., Twizere J.C., Hao T., Holehouse A.S., Frankish A., Riback J.A., Salomonis N., Calderwood M.A., Hill D.E., Sahni N., Vidal M., Bulyk M.L., Fuxman Bass J.I., 2025, Widespread variation in molecular interactions and regulatory properties among transcription factor isoforms, Mol Cell, 85:1445-1466.
Lion A.T., Bodine S.M., McCutcheon K.R., Ghogale M., Chandragiri S., Abayawardena D., Shrestha B.D., Descoteaux A., Alvarez K., Balkman J.A., Cocke B., Wikramanayake A.H., Schlezinger J., Wong J.Y., Prakash V.N., Bradham C.A., 2025, PFAS compounds PFOA and Gen X are teratogenic to sea urchin embryos, Dev Biol, 525:139-154.
Yan, Z., Li, Y., Eshed, A., Wu, K., Ticktin, Z. M., Murugan, V., Lim, E. S., Hong, F., & Green, A. A. (2025). Programmable fluorescent aptamer-based RNA switches for rapid identification of point mutations. Nature Chemistry, 17(12), 1826–1838.
Zhang, Y., Liu, Y., Li, Y., Liu, T., & Wang, X. (2025). Maxillary palp gustatory receptors mediate aphid corpses avoidance in Harmonia axyridis. Journal of Insect Physiology, 104886.
2024
Chasse A.Y., Bandyadka S., Wertheimer M.C., Serizier S.B., McCall K., 2024,. Professional phagocytes are recruited for the clearance of obsolete nonprofessional phagocytes in the Drosophila ovary, Front Immunol.. 15:1389674.
Ezequiel Calvo-Roitberg†, Christine L. Carroll†, Sergey V. Venev, GyeungYun Kim, Steven T. Mick, Job Dekker, Ana Fiszbein*, Athma A. Pai*. mRNA initiation and termination are spatially coordinated (2024) BioRxiv
Fournier L.A., Phadke R.A., Salgado M., Brack A., Nocon J.C., Bolshakoval S., Grant J.R., Luna N.M.P., Sen K., Cruz-Martín A., 2024, Overexpression of the Brain-derived neurotrophic factor and its potential therapeutic role in stroke comorbidities, schizophrenia risk gene C4 in PV cells drives sex-dependent behavioral deficits and circuit dysfunction, iScience, 27:1-33.
Gasper W.C., Gardner S., Ross A., Oppelt S.A., Allen K.N., Tolan D.R., 2024, Michaelis-like complex of mouse ketohexokinase isoform C, Acta Crystallogr D Struct Biol, 80:377-385.
Givati S., Forchielli E., Aharonovich D., Barak N., Weissberg O., Belkin N., Rahav E., Segrè D., Sher D., 2024, Diversity in the utilization of different molecular classes of dissolved organic matter by heterotrophic marine bacteria, Appl Environ Microbiol, 90:e0025624.
He X.A., Berenson A., Bernard M., Weber C., Fuxman Bass J.I., Fisher S., 2024, Identification of conserved skeletal enhancers associated with craniosynostosis risk genes, Hum Mol Genet, 33:837-849.
Herbst K., Wang T., Forchielli E.J., Thommes M., Paschalidis I.C., Segrè D., 2024, Multi-attribute subset selection enables prediction of representative phenotypes across microbial populations, Commun Biol, 7:407.
Huang, H., Jafarbeglou, F., Dunlop, J. M. (2025). “Single-cell characterization of bacterial optogenetic Cre recombinases”. iScience.
Lu Y., Berenson A., Lane R., Guelin I., Li Z., Chen Y., Shah S., Yin M., Soto-Ugaldi L.F., Fiszbein A., Fuxman Bass J.I., 2024, A large-scale cancer-specific protein-DNA interaction network, Life Sci Alliance, 7:e202402641.
O’Connor M., Qiao H., Odamah K., Cerdeira P.C., Man H.Y., 2024, Heterozygous Nexmif female mice demonstrate mosaic NEXMIF expression, autism-like behaviors, and abnormalities in dendritic arborization and synaptogenesis, Heliyon, 10:e24703.
Phadke, R.A., Brack A., Fournier, L.A., Kruzich E., Mingqi S., Picard I., Johnson C., Stroumbakis D., Salgado M., Yeung, C., Velasco, B.E., Liu, Y.Y., Cruz-Martín, A. 2024, The schizophrenia risk gene C4 induces pathological synaptic loss by impairing AMPAR trafficking, Mol Psychiatry, 30:796-809.
Phadke R.A., Wetzel A.M., Fournier L.A., Brack A., Mingqi Sha, Nicole M. Padró Luna, Williamson R., Demas J., Cruz-Martín A., 2024, REVEALS: an open source multi camera GUI for rodent behavior acquisition, Cereb Cortex, 34:1-8.
Pinheiro A., Petty C.A., Stephens C.E., Cabrera K., Palanques-Tost E., Gower A.C., Marano M., Leviss E.M., Boberg M.J., Mahendran J., Bock P.M., Fetterman J.L., Naya F.J., 2024, The Dlk1-Dio3 noncoding RNA cluster coordinately regulates mitochondrial respiration and chromatin structure to establish proper cell state for muscle differentiation, Development, 151:1-17.
Yan, Z., Eshed, A., Tang, A. A., Arevalos, N. R., Ticktin, Z. M., Chaudhary, S., Ma. D., McCutcheon, G., Li, Y … & Green, A. A. (2024). Rapid, multiplexed, and enzyme-free nucleic acid detection using programmable aptamer-based RNA switches. Chem.
Zhou, Y., Sheng, P., Li, J., Li, Y., Xie, M., & Green, A. A. (2024). Conditional RNA interference in mammalian cells via RNA transactivation. Nature Communications, 15(1), 6855.