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Borg, R.E., Ozbakir, H.F., Xu, B., Li, E., Fang, X., Peng, H., Chen, I.A., Mukherjee, A. A genetically engineered phage-based nanomaterial for detecting bacteria with magnetic resonance imaging. bioRχiv. (2022)

Yun, J., Baldini, M., Chowdhury, R., Mukherjee, A. Designing Protein-based Probes for Sensing Biological Analytes with Magnetic Resonance Imaging. Analysis & Sensing. 2(5). (2022) doi:10.1002/anse.202200019

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. 6(9). 3163-3169. (2021) doi:10.1021/acssensors.1c01085. Editor's Choice Article. bioRχiv pre-print link:

Ozbakir, H.F., Miller, A.D.C., Mukherjee, A. Calcium-responsive contrast agents for magnetic resonance imaging. Chemical Physics Reviews. 2(2). (2021). doi:10.1063/5.0041394. Editor's pick for Featured Article 


Anderson, N.T., Weyant, K.B., Mukherjee, A. Characterization of flavin binding in oxygen-independent fluorescent reportersAIChE J. 66(12). (2020) doi: 10.1002/aic.17083

Ozbakir, H.F., Anderson, N.T., Fan, K.C., Mukherjee, A. Beyond the Green Fluorescent Protein: Biomolecular Reporters for Anaerobic and Deep-Tissue Imaging. Bioconjugate Chemistry. 31(2). 293-302. (2020) doi: 10.1021/acs.bioconjchem.9b00688

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) doi: 10.1016/j.cbpa.2018.02.011

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) doi: 10.1016/j.pnmrs.2017.05.002

Mukherjee, A., Wu, D., Davis, H., Shapiro, M.G. Non-invasive imaging using reporter genes altering cellular water permeability. Nature Communications. 7. 13891. (2016) doi: 10.1038/ncomms13891

Mukherjee, A. and Schroeder, C.M. Flavin-based Fluorescent Proteins: Emerging Paradigms in Biological Imaging. Current Opinions in Biotechnology. 31. 16-23. (2015) doi: 10.1016/j.copbio.2014.07.010

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) doi: 10.1021/sb500237x

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) doi:10.1371/journal.pone.0064753

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) doi:10.1016/j.bios.2013.04.046 (‡ denotes equal contribution)

Mukherjee, A., Weyant, K.B., Walker, J., Schroeder, C.M. Directed Evolution of Bright Mutants of a Flavin-binding Fluorescent Protein from Pseudomonas putida. Journal of Biol. Engineering. 6:20. (2012) doi: 10.1186/1754-1611-6-20

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) doi: 10.1039/C0LC00342E

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) doi: 10.1093/bioinformatics/btn481

Book chapters

Uetz, P., Mukherjee, A., et al. Bioanalytics: analytical methods and concepts in chemistry and biology. In: Lottspeich, F. & Engels, J.W., Wiley-VCH, 2018 (lead author ʺProtein-protein interactions: Förster Resonance Energy Transferʺ)

Mukherjee, A., Schroeder C.M. Microfluidic methods in single cell biology. In: Lu, C. & Verbridge, S.S., Microfluidic Methods for Molecular Biology, Springer, 2016

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