Publications
At UCSB
(*corresponding/co-corresponding, # equal contribution)
​Chacko, A.N.#, Miller, A.D.C.#, Dhanabalan, K.M., Mukherjee, A*. Exploring the potential of water channels for developing MRI reporters and sensors without the need for exogenous contrast agents. J. Magn. Reson. (2024). DOI: 10.1016/j.jmr.2024.107743
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Huang, Y., Chen, X., Zhu, Z., Mukherjee, A*. A dual-gene reporter-amplifier architecture for enhancing the sensitivity of MRI by water exchange. ChemBioChem. (2024). PMID: 38439618
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Lau, E.S., Goodheart, J.A., Anderson, N.T., Liu, V.L., Mukherjee, A*., Oakley, T.H*. Similar enzymatic functions in distinct bioluminescence systems: Evolutionary recruitment of sulfotransferases in ostracod light organs. Biol. Letters. (2024). PMID: 38746983
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Anderson, N.T.A, Xie, J., Chacko, A.N., Liu, V.L., Fan, K.C., Mukherjee, A*. Rational design of a circularly permuted flavin-based fluorescent protein. ChemBioChem. (2024). PMID: 38356332. Editorially designated as “Very Important Paper”
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Yun, J., Huang, Y., Miller, A.D.C., Chang, B. L., Baldini, L., Dhanabalan, K.M., Li, E., Li, H., Mukherjee, A*. Destabilized reporters for background-subtracted, chemically-gated, and multiplexed deep-tissue imaging. Chem. Sci. (2024). DOI: 10.1039/D4SC00377B
Miller, A.D.C., Chowdhury, S., Hanson, H., Linderman, S.K., Ghasemi, H., Miller, W., Morrissey, M., Richardson, R., Gardner, B., Mukherjee, A*. Genetic engineering of water exchange is a safe and effective approach for magnetic resonance imaging in multiple cell types. J. Biol. Eng. (2024). PMID: 38649904
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Chowdhury, R., Wan, J., Gardier, R., Rafael-Patino, J., Thiran, J., Gibou, F., Mukherjee, A*. Molecular imaging with aquaporin-based reporter genes: quantitative considerations from Monte Carlo diffusion simulations. ACS Synthetic Biology. (2023). PMID: 37793076
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Borg, R.E.#, Ozbakir, H.F.#, Xu, B., Li E., Fang, X., Peng, H., Chen, I.A*., Mukherjee, A*. Genetically engineered filamentous phage for bacterial detection using magnetic resonance imaging. Sensors & Diagnostics. (2023). PMID: 38405385
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Maity, S., Price, B.D., Wilson, C.B., Mukherjee, A., Starck, M., Parker, D., Wilson, M.Z., Lovett, J.E., Han, S., Sherwin, M*. Triggered Functional Dynamics of AsLOV2 by Time-Resolved Electron Paramagnetic Resonance at High Magnetic Fields. Angewandte Chemie. (2023). PMID: 36638360
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Yun, J., Baldini, L., Chowdhury, R., Mukherjee*, A. Designing Protein-Based Probes for Sensing Biological Analytes with Magnetic Resonance Imaging. Analysis & Sensing. (2022). PMID: 37409177
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Ozbakir, H.F., Miller, A.D.C., Fishman, K.B., Martins, A.F., Kippin, T.E., Mukherjee, A*. A protein-based biosensor for detecting calcium by magnetic resonance imaging. ACS Sensors. (2021). PMID: 34420291. ACS Editor’s Choice Article, featured in Chemical & Engineering News: link
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Miller, A.D.C., Ozbakir, H.F., and Mukherjee, A*. Calcium-responsive contrast agents for functional magnetic resonance imaging. Chemical Physics Reviews. 2(2). (2021). PMID: 34085055. Editor's Featured Article; featured in Scilight: link
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Anderson, N.T., Weyant, K.B., and Mukherjee, A*. Characterization of flavin binding in oxygen-independent fluorescent proteins. AIChE Journal. 66(12). (2020). PMID: 34305141
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Ozbakir, H.F., Anderson, N.T., Fan, K., Mukherjee, A*. Beyond the green fluorescent protein: biomolecular reporters for anaerobic and deep tissue imaging. Bioconjugate Chemistry. (2019). PMID: 31794658 ​​​
Prior to UCSB
(*corresponding, # equal contribution)
Lu, G.J., Farhadi, A., Mukherjee, A., Shapiro, M.G.* Proteins, air, and water: reporter genes for ultrasound and magnetic resonance imaging. Current Opinions in Chemical Biology. 45. 57-63. (2018). PMID: 29549770
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Mukherjee, A., Davis, H., Ramesh, P., Lu, G., Shapiro, M.G.* Biomolecular MRI reporters: evolution of new mechanisms. Progress in NMR Spectroscopy. 102-103. 32-42. (2017). PMID: 29157492
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Mukherjee, A.#, Wu, D.#, Davis, H., Shapiro, M.G.* Non-invasive imaging using reporter genes altering cellular water permeability. Nature Communications. 7. 13891. (2016). PMID: 28008959
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Mukherjee, A. and Schroeder, C.M.* Flavin-based Fluorescent Proteins: Emerging Paradigms in Biological Imaging. Current Opinions in Biotechnology. 31. 16-23. (2015). PMID: 25151058
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Mukherjee, A., Weyant, K.B., Agrawal, U., Walker, J., Schroeder, C.M.* Engineering and Characterization of New LOV-based Fluorescent Reporter Proteins from Chlamydomonas reinhardtii and Vaucheria frigida. ACS Synthetic Biology. (2014). PMID: 25881501
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Mukherjee, A., Walker, J., Weyant, K.B., Schroeder, C.M.* Characterization of Flavin-based Fluorescent Proteins: an Emerging Class of Fluorescent Reporters. PLoS ONE. 8:5. (2013). PMID: 23741385
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Mohan, R.#, Mukherjee, A.#, Lee, J., Sevgen, S., Schroeder, C.M., Kenis, P.J.A.* A Multiplexed Microfluidic Platform for Antibiotic Susceptibility Screening. Biosensors and Bioelectronics. 49:15. 118-125 (2013). PMID: 23728197
Mukherjee, A., Weyant, K.B., Walker, J., Schroeder, C.M.* Directed Evolution of Bright Mutants of a Flavin-binding Fluorescent Protein from Pseudomonas putida. J. Biol. Eng. 6:20. (2012). PMID: 23095243
Schudel, B.R., Tanyeri, M., Mukherjee, A., Schroeder, C.M., Kenis, P.J.A.* Multiplexed Detection of Nucleic Acids in a Combinatorial Screening Chip. Lab on a Chip. 11. 1916-23. (2011). PMID: 21512691
Rajagopala, S.V., Goll, J., Gowda, N.D.D., Sunil, K.C., Titz, B., Mukherjee, A., Mary, S.S., Raviswaran, N., et al. MPI-LIT-A Literature-curated Dataset of Microbial Binary Protein-Protein Interactions. Bioinformatics. 24. 2622-27. (2008). PMID: 187869761
Uetz, P., Mukherjee, A.*, et al. Bioanalytics: analytical methods and concepts in chemistry and biology. In: Lottspeich, F. & Engels, J.W., Wiley-VCH, 2018
Mukherjee, A., Schroeder C.M.* Microfluidic methods in single cell biology. In: Lu, C. & Verbridge, S.S., Microfluidic Methods for Molecular Biology, Springer, 2016