Micro and Nanotechnology Lab
3102 Micro and Nanotechnology Lab
208 N. Wright Street
Urbana Illinois 61801
(217) 300-0525
Joseph Maria Kumar Irudayaraj
Joseph Maria Kumar Irudayaraj



  • 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


Dr. Irudayaraj has a background in biological engineering and computer sciences. The basis for his work stems from a multidisciplinary background and skills developed in the fields of engineering, biosciences, and computer sciences. He is the Founder Professor of Bioengineering at UIUC. Prior to UIUC, he has held faculty positions at Purdue University, The Pennsylvania State University, and Utah State University. His group has extensively published in biosensors and nanotechnology applied to human health and biosecurity. They are interested in developing smart therapeutics, point of care diagnostics, and super-resolution microscopy/spectroscopy tools for health screening, understanding epigenetic regulation and toxicology to understand cellular processes, disease etiology, and prevention.

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

Other Professional Employment

  • Graduate Chair, Agric and Biological Engineering, Purdue University (2010-2012)
  • Deputy Director, Bindley Bioscience Center, Discovery Park, Purdue University (2012-2015)
  • Interim Director, Bindley Bioscience Science Center, Discovery Park, Purdue University (2015-2017)
  • Head of Graduate Programs in Bioengineering, University of Illinois at Urbana-Champaign (2017-present)

Professional Registrations

  • American Society for Agric and Biological Engineering
  • Biophysical Society
  • American Chemical Society
  • Biomedical Engineering Society

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. http://dx.doi.org/10.1016/j.bios.2016.09.072
  • 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).

Teaching Honors

  • Innovation in Teaching award, Biological Engineering, Utah State University, 1997
  • Teacher of the Year award, Biological Engineering, Utah State University, 1997

Research Honors

  • University Merit Scholarship, College of Agric. Engineering, TNAU, India
  • David Ross Fellowship, Purdue University
  • Innovation in Teaching award, Biological Engineering, Utah State University, 1997
  • Teacher of the Year award, Biological Engineering, Utah State University, 1997
  • Young Engineer of the Year, Northeastern region of ASABE, 2000
  • USDA CSREES: Honor Award and Certificate, North East Multistate Research group, 2003
  • Program chair of Bionanotechnology, IBE (2003-2004)
  • Advisory Council, MBA Program, Maxvalue (India’s 1st online business school), 2009 - present
  • Best Paper/Poster awards: 2014 (Best Undergraduate Summer Research Project, IIT Kanpur, India), 2012 (IFT – 2nd place in the Food Engineering Division), 2010 (ASME-IMECE Microfluidics 2010: Fluidics in Micro Nanosystems), 2004, 2008 (ASABE Superior paper award), 2007 (Sigma Xi, best student poster award, Purdue University), 2002 (1st Prize, American Society for Microbiology poster competition)
  • Seed for Success Award, Purdue University, 2006
  • Award of Academic Excellence, Northeast Normal University, Changchun, China, 2009
  • University Faculty Scholar Award, Purdue University, 2010
  • Leadership Fellow (Committee on Inst. Cooperation-Academic Leadership Program), 2011
  • Seed for Success Award, Office of Vice President for Research, 2012
  • Excellence in Research Award, Office of the Vice President for Research, 2012
  • Entrepreneurship Leadership Academy Fellow, Purdue University, 2012
  • Research Honor Award, Osmania University, Osmatech Foundation, Hyderabad, India, 2013
  • College of Engineering Research Excellence Award, Purdue University, 2015
  • Honor Lectureship (Xingda lectureship), Peking University, College of Chemistry & Molecular Engineering, June 2015
  • Seed for Success Award, Office for EVPRP, Purdue University, 2016
  • IAFP GMA Food Safety Award, International Association of Food Protection, 2017
  • Founder Professor of Bioengineering

Courses Taught

  • BIOE 297 - Individual Study
  • BIOE 397 - Individual Study
  • BIOE 497 - Individual Study
  • BIOE 498 - Finite Element Mthds in Biomed
  • BIOE 507 - Advanced Bioinstrumentation
  • BIOE 598 - Finite Element Mthds in Biomed
  • BIOE 599 - Thesis Research