Joseph Maria Kumar Irudayaraj

Joseph Maria Kumar Irudayaraj
Founder Professor in Bioengineering
(217) 300-0525
3102 Micro and Nanotechnology Lab

Research Topics

  • Bio-Micro and Nanotechnology
  • Bioimaging at Multi-Scale
  • Molecular, Cellular and Tissue Engineering


  • Ph.D. Biological Engineering, Purdue University, IN
  • M.S. Biosystems Engineering, University of Hawaii, Honolulu, HI
  • M.S. Information and Computer Sciences, University of Hawaii, Honolulu, HI

Academic Positions

  • Founder Professor of Bioengineering, Department of Bioengineering, UIUC, Urbana-Champaign, IL (2017 - present)
  • Professor, Department of Agricultural and Biological Engineering, Purdue University, West Lafayette, IN (2005 - 2017)
  • Associate Professor, Department of Agricultural and Biological Engineering, Purdue University, West Lafayette, IN
  • Associate Professor, Department of Agricultural and Biological Engineering, The Pennsylvania State University, State College, PA
  • Assistant Professor, Department of Agricultural and Biological Engineering, The Pennsylvania State University, State College, PA
  • Assistant Professor, Department of Biological Engineering, Utah State University, Logan, Utah

For more information

Research Topics

  • Bio-Micro and Nanotechnology
  • Bioimaging at Multi-Scale
  • Molecular, Cellular and Tissue Engineering

Research Interests

  • Diagnostics for human health with a focus on Cancer, microbiome, toxicology, and eye diseases
  • Epigenetic regulation to develop multi scale cellular systems with molecular tools and to assess its effect on diseases
  • Super-resolution microscopy (STED) Single molecule microscopy for live cell monitoring of bimolecular processes
  • Nanobubbles as delivery vehicles of gases and drugs for combinatorial therapy of Cancer, Stem Cell Therapy, Glaucoma, Diabetes

Books Authored or Co-Authored (Original Editions)

  • Biomedical Nanosensors. Taylor and Francis Publishers.

Selected Articles in Journals

  • Adelaiye-Ogala, R., Budka, J., Damayanti, N., Arrington, Ferris, M., Hsu, C., Chintala, S., Orillion, A., Zang, Y., Irudayaraj, J., Tao, A., Hollenhorst, P., and Pili, R. 2017. EZH2 modulates sunintab resistance by kinome reprogramming in renal cell carcinoma. Cancer Research, 77 (23):6651-6666.
  • Lo, C., Choudhury, R., *Irudayaraj, J., and *Zhou, F. 2017. Epigenetic Editing of Ascl1 Gene in Neural Stem Cells by Optogenetics. Nature Scientific Reports. 7:42047 (DOI:10.1038/srep42047). (*Equal Credit).
  • Bhandari, P., Long, C., Cui, Y., Elzey, B., R., Goergen, C., and Irudayaraj, J. 2017. Oxygen nanobubbles revert hypoxia by methylation programming. Nature Scientific Reports. (In Press)
  • Naz, A., Cui, Y., Collins, C.J., Thompson, D., and Irudayaraj, J. 2017. PLGA-PEG Nano-delivery system for epigenetic therapy. Biomedicine and Pharmacotherapy, 90: 586-597.
  • Yi, C., Wang, X., Ren, W., Liu, J., and Irudayaraj, J. 2016. Optical clearing delivers ultrasensitive hyperspectral dark-field imaging for single cell evaluation. ACS NANO.10(3): 3132-43.
  • Ouyang, L., Hu, Y., Cheng, G., and Irudayaraj, J. 2017. A reusable laser wrapped graphene-Ag array based SERS sensor for trace detection of genomic DNA methylation. Biosensors and Bioelectronics. 92:755-762.
  • Hu, Y., Xuan, Y., Wang, X., Deng, B., Saei, M., Jin, S., Irudayaraj, J., and Cheng, G. 2016. Superplastic formulation of metal nanostructure arrays with ultrafine gaps. Advanced Materials. 28(41): 9152-9162.
  • Choudhury, S., Cui, Y., Narayanan, A., Gilley, D., Huda, N., Lo, C., Zhou, F. 2016. Optogenetic regulation of site-specific subtelomeric DNA methylation. Oncotarget, 7(31):50380-50391.
  • Liu, J. and Irudayaraj, J. 2016. Non-fluorescent quantification of single mRNA with transient absorption microscopy. Nanoscale. DOI: 10.1039/C6NR04433F. [Cover article]
  • Choudhury, S., Cui, Y., Lubeca, K., Stefanska, B., and Irudayaraj, J. 2016. CRISPR-dCas9 mediated TET1 targeting for selective DNA demethylation at BRCA1 promoter. Oncotarget. 7(29): 46545-46556.
  • Ren, W., Cho, I-L., and Irudayaraj, J. 2016. Ultrasensitive detection of microbial cells by magnetic enhanced lateral flow sensors. Chemical Communications, 52:4930-4933.
  • Cui, Y., Chowdhury, S., and Irudayaraj, J. 2016. Epigenetic toxicity of trichloroethylene - a single molecule perspective. Toxicology Research. 5: 641-655.
  • Mohammed, S., Ren, W., Rajwa, B., Chibwesha, C., Parham, G., and Irudayaraj, J. 2016. Point-of-care test for cervical cancer in LMICs. Oncotarget. DOI: 10.18632/oncotarget.7709.
  • Chowdhury, B., Chen, J., Liu, S., Lossie, A., and Irudayaraj, J. 2015. Effect of AZA on hydroxymethylation - exploring a novel effect. Nature Scientific Reports, doi: 10.1038/srep09281.
  • Cui, Y. and Irudayaraj, J. 2015. Dissecting the behavior and function of MBD3 in DNA methylation homeostasis by single-molecule spectroscopy and microscopy. Nucleic Acids Research. 43 (6), 3046-3055.
  • Wang, X., Cui, Y., and Irudayaraj, J. 2015. Single cell quantification of cytosine modifications by hyperspectral dark field imaging. ACS Nano. 9(12):11924-11932.
  • Lee, S., Kumar, P., Hu, Y., Cheng, G., Irudayaraj, J. 2015. Graphene laminated gold bipyramids as sensitive detection platforms of antibiotic molecules. Chemical Comm. 51: 15494-15497 [Cover article].
  • Lee, K., Lee, L., and Irudayaraj, J. 2014. In vivo real-time quantification of intracellular mRNA using plasmon spectroscopy. Nature Nanotechnology. 9(6): 474-480.
  • Naik, G., Saha, B., Liu, J., Saber, S., Stach, E., Irudayaraj, J., Sands, T., Shalaev, V., and Boltasseva, A. 2014. Epitaxial superlattices with titanium nitride as a plasmonic component for optical hyperbolic metamaterials. Proceedings of the National Academy of Sciences 111 (21), 7546-7551.
  • Damayanti, N., Fang, Y., Parikh, M., Craig, A., Kirshner, J., and Irudayaraj, J. 2013. Differentiation of Cancer Cells in 2D and 3D breast cancer models by Raman spectroscopy. Biomedical Optics. 18(11): 117008. doi: 10.1117/1.JBO.18.11.117008.
  • Lee, K. and Irudayaraj, J. 2013. Correct Spectral Conversion between Surface-enhanced Raman and Plasmon Resonance Scattering from Nanoparticle Dimers for Single Molecule Detection. Small J. 9(7): 1106-1115.
  • Wang, Y. and Irudayaraj, J. 2013. Surface-enhanced Raman spectroscopy at single molecule scale and its implication in biology. Philosophical Transactions B. 368(1611): 20120026.
  • Mura, S., Greppi., G., Innocenzi, P., Piccinini, M., Figus, C., Marongiu, L., Guo, C., and Irudayaraj, J. 2013. Nanostructured thin films as surface-enhanced Raman scattering substrates. J. Raman Spectroscopy. 44:35-40.
  • Liu, J. and Irudayaraj, J. 2013. Second Harmonic Generation Correlation Spectroscopy for Single Molecule Experiments. Optics Express. 21(22):27063-27073.
  • Guo, C. and Irudayaraj, J. 2011. Fluorescent Ag clusters via a Protein-directed approach as a Hg(II) ion sensor. Analytical Chemistry. 83(8):2883-9.
  • Chen, J. and Irudayaraj, J. 2009. Quantitative investigation of compartmentalized dynamics of ErbB2 targeting gold nanorods in live cells by single molecule spectroscopy. ACS NANO. 3:4071-4079. (Featured in NIH-NCI Nanotechnology alliance as a top 10 article in 2010, January News and Science Daily).
  • Wang, C., Chen, J. Talavange, T. and Irudayaraj, J. 2009. Gold nanorod/Fe3O4 nanoparticle "Nano-Pearl-Necklaces" for simultaneous targeting, dual-mode imaging, and photothermal ablation of cancer cells. Angewandte Chemie, 121(15):2797-2801.
  • Yu, C., Naksharti, H., and Irudayaraj, J. 2007. Identity profiling of cell surface markers by multiplex gold nanorod probes. Nano Letters, 7(8): 2300-2306.
  • Yu, C., and Irudayaraj, J. 2007. A multiplex biosensor using gold nanorods. Analytical Chemistry. 79(2): 572-579. (2nd most cited in Analytical Chemistry in 2007 and 5th Most cited as of 3/08).
  • Kouassi, G. and Irudayaraj, J. 2006. Magnetic and gold-coated magnetic particles as a DNA sensor. Analytical Chemistry. 78(10):3234-3241. (Top 10 most accessed article in 2006 in Analytical Chemistry (ranked 6th in the list); Ranked in the Top 100 (11th in the list) of Nanomedicine publications for 2006 by Ion Channel media group).

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