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    Author

    Joseph Maria Kumar Irudayaraj
2019
Fluorescence microscopy
Fluorescence Microscopy
Epigenomics
Molecules
Gene expression
2017

Multiplex single-cell quantification of rare RNA transcripts from protoplasts in a model plant system

Kadam, U. S., Schulz, B. & Irudayaraj, J. M. K., Jun 2017, In : Plant Journal. 90, 6, p. 1187-1195 9 p.

Research output: Contribution to journalArticle

Protoplasts
messenger RNA
Gold
Raman spectroscopy
gold
2013

Probing site-exclusive binding of aqueous QDs and their organelle-dependent dynamics in live cells by single molecule spectroscopy

Dong, C., Chowdhury, B. & Irudayaraj, J., May 21 2013, In : Analyst. 138, 10, p. 2871-2876 6 p.

Research output: Contribution to journalArticle

Quantum Dots
Binding sites
Organelles
Semiconductor quantum dots
Binding Sites
2010

Measurement of the attachment and assembly of small amyloid-β oligomers on live cell membranes at physiological concentrations using single-molecule tools

Nag, S., Chen, J., Irudayaraj, J. & Maiti, S., Jan 1 2010, In : Biophysical journal. 99, 6, p. 1969-1975 7 p.

Research output: Contribution to journalArticle

Amyloid
Cell Membrane
Membranes
PC12 Cells
Cultured Cells
2015

Rapid and unbiased extraction of chromatin associated RNAs from purified native chromatin

Zhou, Z., Yang, Y., Konieczny, S. F. & Irudayaraj, J. M. K., Dec 24 2015, In : Journal of Chromatography A. 1426, p. 64-68 5 p.

Research output: Contribution to journalArticle

Small Nuclear RNA
Salicylic Acid
Nanoparticles
Chromatin
Cell Separation
2016

Kinase phosphorylation monitoring with i-motif DNA cross-linked SERS probes

Ren, W., Damayanti, N. P., Wang, X. & Irudayaraj, J. M. K., Jan 7 2016, In : Chemical Communications. 52, 2, p. 410-413 4 p.

Research output: Contribution to journalArticle

Phosphorylation
DNA
Phosphotransferases
Monitoring
Biosensors
2018

An ultrasensitive aptasensor based on fluorescent resonant energy transfer and exonuclease-assisted target recycling for patulin detection

Wu, Z., Xu, E., Jin, Z. & Irudayaraj, J. M. K., May 30 2018, In : Food Chemistry. 249, p. 136-142 7 p.

Research output: Contribution to journalArticle

Patulin
patulin
Exonucleases
Energy Transfer
Recycling
2014

Epitaxial superlattices with titanium nitride as a plasmonic component for optical hyperbolic metamaterials

Naik, G. V., Saha, B., Liu, J., Saber, S. M., Stach, E. A., Irudayaraj, J. M. K., Sands, T. D., Shalaev, V. M. & Boltasseva, A., May 27 2014, In : Proceedings of the National Academy of Sciences of the United States of America. 111, 21, p. 7546-7551 6 p.

Research output: Contribution to journalArticle

Optical Devices
Gold
Optics and Photonics
Metals
Equipment and Supplies
2017

Single molecule Raman spectroscopic assay to detect transgene from GM plants

Kadam, U. S., Chavhan, R. L., Schulz, B. & Irudayaraj, J., Sep 1 2017, In : Analytical Biochemistry. 532, p. 60-63 4 p.

Research output: Contribution to journalArticle

Transgenes
Amplification
Raman spectroscopy
Assays
Contamination
2011

Separation and detection of multiple pathogens in a food matrix by magnetic SERS nanoprobes

Wang, Y., Ravindranath, S. & Irudayaraj, J., Jan 1 2011, In : Analytical and bioanalytical chemistry. 399, 3, p. 1271-1278 8 p.

Research output: Contribution to journalArticle

Nanoprobes
Raman Spectrum Analysis
Pathogens
Raman scattering
Food
2018

Exploring the anti-quorum sensing activity of a d-limonene nanoemulsion for Escherichia coli O157:H7

Wang, R., Vega, P., Xu, Y., Chen, C. Y. & Irudayaraj, J., Jul 2018, In : Journal of Biomedical Materials Research - Part A. 106, 7, p. 1979-1986 8 p.

Research output: Contribution to journalArticle

Escherichia coli
Genes
Emulsification
Biofilms
Cell growth
2013
Raman Spectrum Analysis
Dimers
Nanoparticles
Raman scattering
Scattering
2014

Diversity of two forms of DNA methylation in the brain

Chen, Y., Damayanti, N. P., Irudayaraj, J., Dunn, K. & Zhou, F. C., Jan 1 2014, In : Frontiers in Genetics. 5, MAR, Article 46.

Research output: Contribution to journalArticle

5-Methylcytosine
DNA Methylation
Brain
Chromatin
Neural Stem Cells
2012

FTIR nanobiosensors for Escherichia coli detection

Mura, S., Greppi, G., Marongiu, M. L., Roggero, P. P., Ravindranath, S. P., Mauer, L. J., Schibeci, N., Perria, F., Piccinini, M., Innocenzi, P. & Irudayaraj, J., Jul 31 2012, In : Beilstein Journal of Nanotechnology. 3, 1, p. 485-492 8 p.

Research output: Contribution to journalArticle

Escherichia
food
Escherichia coli
Titania
pathogens
2016

A study of alterations in DNA epigenetic modifications (5mC and 5hmC) and gene expression influenced by simulated microgravity in human lymphoblastoid cells

Chowdhury, B., Seetharam, A., Wang, Z., Liu, Y., Lossie, A. C., Thimmapuram, J. & Irudayaraj, J., Jan 1 2016, In : PloS one. 11, 1, e0147514.

Research output: Contribution to journalArticle

microgravity
Weightlessness
Microgravity
Epigenomics
Gene expression
2017

Toxicological effects of trichloroethylene exposure on immune disorders

Ordaz, J. D., Damayanti, N. P. & Irudayaraj, J. M. K., Nov 2 2017, In : Immunopharmacology and Immunotoxicology. 39, 6, p. 305-317 13 p.

Research output: Contribution to journalReview article

Trichloroethylene
Immune System Diseases
Toxicology
Immune system
Immune System

Oxygen Nanobubble Tracking by Light Scattering in Single Cells and Tissues

Bhandari, P., Wang, X. & Irudayaraj, J. M. K., Mar 28 2017, In : ACS Nano. 11, 3, p. 2682-2688 7 p.

Research output: Contribution to journalArticle

Light scattering
light scattering
Tissue
Oxygen
oxygen
2010

Microscopic and spectroscopic evaluation of inactivation of staphylococcus aureus by pulsed UV light and infrared heating

Krishnamurthy, K., Tewari, J. C., Irudayaraj, J. & Demirci, A., Jan 1 2010, In : Food and Bioprocess Technology. 3, 1, p. 93-104 12 p.

Research output: Contribution to journalArticle

Infrared heating
Ultraviolet Rays
Ultraviolet radiation
Heating
ultraviolet radiation
2016

Regulatory landscape and clinical implication of MBD3 in human malignant glioma

Cui, Y., Li, J., Weng, L., Wirbisky, S. E., Freeman, J. L., Liu, J., Liu, Q., Yuan, X. & Irudayaraj, J., Jan 1 2016, In : Oncotarget. 7, 49, p. 81698-81714 17 p.

Research output: Contribution to journalArticle

Glioma
Carrier Proteins
Untranslated RNA
Survival
human MBD3 protein
2014

MRNA quantification via second harmonic super resolution microscopy

Liu, J., Cho, I. H., Kadam, U. & Irudayaraj, J., Jan 1 2014, Single Molecule Spectroscopy and Superresolution Imaging VII. SPIE, 89500N. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 8950).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Microscopy
Microscopic examination
dimers
microscopy
harmonics
2016

Superplastic Formation of Metal Nanostructure Arrays with Ultrafine Gaps

Hu, Y., Xuan, Y., Wang, X., Deng, B., Saei, M., Jin, S., Irudayaraj, J. & Cheng, G. J., Jan 1 2016, In : Advanced Materials. 28, 41, p. 9152-9162 11 p.

Research output: Contribution to journalArticle

Nanostructures
Metals
Lasers
Momentum transfer
Nanoparticles
2018
Graphene
Raman scattering
Membranes
Fabrication
Substrates
2012

Folic acid protected silver nanocarriers for targeted drug delivery

Wang, Y., Newell, B. B. & Irudayaraj, J., Oct 1 2012, In : Journal of Biomedical Nanotechnology. 8, 5, p. 751-759 9 p.

Research output: Contribution to journalArticle

Silver
Folic Acid
Acids
Doxorubicin
Pharmaceutical Preparations
2017

Electron spin contrast of Purcell-enhanced nitrogen-vacancy ensembles in nanodiamonds

Bogdanov, S., Shalaginov, M. Y., Akimov, A., Lagutchev, A. S., Kapitanova, P., Liu, J., Woods, D., Ferrera, M., Belov, P., Irudayaraj, J., Boltasseva, A. & Shalaev, V. M., Jul 25 2017, In : Physical Review B. 96, 3, 035146.

Research output: Contribution to journalArticle

Nanodiamonds
electron spin
Vacancies
Nitrogen
nitrogen
2019

Correction to: Superplastic Formation of Metal Nanostructure Arrays with Ultrafine Gaps (Advanced Materials, (2016), 28, 41, (9152-9162), 10.1002/adma.201602497)

Hu, Y., Xuan, Y., Wang, X., Deng, B., Saei, M., Jin, S., Irudayaraj, J. & Cheng, G. J., Apr 5 2019, In : Advanced Materials. 31, 14, 1900190.

Research output: Contribution to journalComment/debate

Open Access
Nanostructures
Metals
Lasers
Nanoparticles
Ultrafine
2017

In vivo biodetection using surface-enhanced raman spectroscopy

Lee, S., Kadam, U. S., Craig, A. P. & Irudayaraj, J. M. K., Jan 1 2017, Biosensors Based on Nanomaterials and Nanodevices. Li, J. & Wu, N. (eds.). CRC Press, p. 157-178 22 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Raman Spectrum Analysis
Nanostructures
Raman spectroscopy
Electromagnetic Fields
Refractometry
2011

Quantification of receptor targeting aptamer binding characteristics using single-molecule spectroscopy

Book, B., Chen, J. & Irudayaraj, J., May 1 2011, In : Biotechnology and bioengineering. 108, 5, p. 1222-1227 6 p.

Research output: Contribution to journalLetter

Fluorescence Spectrometry
Biosensing Techniques
Spectroscopy
Biosensors
Molecules
2017

Technical advances in global DNA methylation analysis in human cancers

Chowdhury, B., Cho, I. H. & Irudayaraj, J. M. K., Mar 1 2017, In : Journal of Biological Engineering. 11, 1, 10.

Research output: Contribution to journalReview article

DNA Methylation
5-Methylcytosine
Epigenomics
Neoplasms
Derivatives
2013

Gene expression analysis using conventional and imaging methods

Kadam, U. S., Lossie, A. C., Schulz, B. & Irudayaraj, J., Jan 1 2013, DNA and RNA Nanobiotechnologies in Medicine: Diagnosis and Treatment of Diseases. Springer Berlin Heidelberg, p. 141-162 22 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Gene expression
Gene Expression
Imaging techniques
Gene Regulatory Networks
RNA
2017

A net fishing enrichment strategy for colorimetric detection of E. coli O157:H7

Ren, W., Liu, W. & Irudayaraj, J. M. K., Jan 1 2017, In : Sensors and Actuators, B: Chemical. 247, p. 923-929 7 p.

Research output: Contribution to journalArticle

fishing
Pathogens
Escherichia coli
pathogens
Nitrocellulose
2014
Nanoprobes
RNA Splice Sites
Raman Spectrum Analysis
Alternative Splicing
Arabidopsis
2018

Alpha Lead Oxide (α-PbO): A New 2D Material with Visible Light Sensitivity

Kumar, P., Liu, J., Ranjan, P., Hu, Y., Yamijala, S. S. R. K. C., Pati, S. K., Irudayaraj, J. & Cheng, G. J., Mar 22 2018, In : Small. 14, 12, 1703346.

Research output: Contribution to journalArticle

Lead oxide
Photophobia
Photosensitivity
Optics and Photonics
Light
2019

Laser Shock Tuning Dynamic Interlayer Coupling in Graphene-Boron Nitride Moiré Superlattices

Kumar, P., Liu, J., Motlag, M., Tong, L., Hu, Y., Huang, X., Bandopadhyay, A., Pati, S. K., Ye, L., Irudayaraj, J. & Cheng, G. J., Jan 9 2019, In : Nano letters. 19, 1, p. 283-291 9 p.

Research output: Contribution to journalArticle

Graphite
Boron nitride
Superlattices
boron nitrides
Graphene
2014

Nano/micro and spectroscopic approaches to food pathogen detection

Cho, I. H., Radadia, A. D., Farrokhzad, K., Ximenes, E., Bae, E., Singh, A. K., Oliver, H., Ladisch, M., Bhunia, A., Applegate, B., Mauer, L., Bashir, R. & Irudayaraj, J., Jun 2014, In : Annual Review of Analytical Chemistry. 7, p. 65-88 24 p.

Research output: Contribution to journalReview article

Pathogens
Bacteriophages
Biosensors
Light scattering
Explosions
2017

Spin contrast of purcell-enhanced nitrogen-vacancy centers in diamonds

Bogdanov, S., Shalaginov, M. Y., Akimov, A. V., Lagutchev, A., Liu, J., Woods, D., Ferrera, M., Kapitanova, P., Belov, P., Irudayaraj, J. M. K., Boltasseva, A. & Shalaev, V. M., Jan 1 2017, CLEO: QELS_Fundamental Science, CLEO_QELS 2017. OSA - The Optical Society, (Optics InfoBase Conference Papers; vol. Part F42-CLEO_QELS 2017).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Diamond
Vacancies
Diamonds
Nitrogen
Photonics

Hypoxia re-programming oxygen nanobubbles sensitize human glioblastoma cells to temozolomide via methylation alterations

Bhandari, P., Lei, O. & Irudayaraj, J., Oct 2017, In : Journal of Bionanoscience. 11, 5, p. 337-345 9 p.

Research output: Contribution to journalArticle

temozolomide
Methylation
Glioblastoma
Oxygen
Cell death
2014

Vibrational spectroscopy for food quality and safety screening

Craig, A. P., Franca, A. S. & Irudayaraj, J. M. K., Sep 4 2014, High Throughput Screening for Food Safety Assessment: Biosensor Technologies, Hyperspectral Imaging and Practical Applications. Elsevier Inc., p. 165-194 30 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

Vibrational spectroscopy
Food Quality
Food Safety
food quality
food safety

Quantification of 5-methylcytosine, 5-hydroxymethylcytosine and 5-carboxylcytosine from the blood of cancer patients by an enzyme-based immunoassay

Chowdhury, B., Cho, I. H., Hahn, N. & Irudayaraj, J., Dec 10 2014, In : Analytica Chimica Acta. 852, p. 212-217 6 p.

Research output: Contribution to journalArticle

5-Methylcytosine
immunoassay
Immunoenzyme Techniques
cancer
Blood
2011

Fluorescent Ag clusters via a protein-directed approach as a Hg(II) ion sensor

Guo, C. & Irudayaraj, J., Apr 15 2011, In : Analytical chemistry. 83, 8, p. 2883-2889 7 p.

Research output: Contribution to journalArticle

Excipients
Ions
Bovine Serum Albumin
Sensors
Proteins
2015

A wireless chemical sensing scheme using ultrasonic imaging of microbubble embeded hydrogel

Park, J. H., Kim, A., Song, S. H., Bhandari, P., Irudayaraj, J. & Ziaie, B., Aug 5 2015, 2015 Transducers - 2015 18th International Conference on Solid-State Sensors, Actuators and Microsystems, TRANSDUCERS 2015. Institute of Electrical and Electronics Engineers Inc., p. 2220-2223 4 p. 7181402. (2015 Transducers - 2015 18th International Conference on Solid-State Sensors, Actuators and Microsystems, TRANSDUCERS 2015).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Ultrasonic imaging
Hydrogels
ultrasonics
Acoustic intensity
biomarkers
2019

Bioinspired glycosaminoglycan hydrogels via click chemistry for 3D dynamic cell encapsulation

Kuang, L., Damayanti, N. P., Jiang, C., Fei, X., Liu, W., Narayanan, N., Irudayaraj, J., Campanella, O. & Deng, M., Feb 5 2019, In : Journal of Applied Polymer Science. 136, 5, 47212.

Research output: Contribution to journalArticle

Hydrogels
Hydrogel
Glycosaminoglycans
Encapsulation
Gelation
2015

Enhanced multi-photon emission from single NV center coupled to graphene by laser-shaping

Liu, J., Hu, Y., Kumar, P., Shalaginov, M. Y., Lagutchev, A. S., Shalaev, V. M., Cheng, G. J. & Irudayaraj, J. M. K., Aug 10 2015, 2015 Conference on Lasers and Electro-Optics, CLEO 2015. Institute of Electrical and Electronics Engineers Inc., 7183374. (Conference on Lasers and Electro-Optics Europe - Technical Digest; vol. 2015-August).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Quantum optics
Graphite
quantum optics
Graphene
Light sources
2011

Rapid concentration and manipulation of colloids and microorganisms through double layer polarization electrokinetics

Williams, S. J., Kwon, J. S., Ravindranath, S. P., Irudayaraj, J. & Wereley, S. T., Dec 1 2011, 15th International Conference on Miniaturized Systems for Chemistry and Life Sciences 2011, MicroTAS 2011. p. 840-842 3 p. (15th International Conference on Miniaturized Systems for Chemistry and Life Sciences 2011, MicroTAS 2011; vol. 2).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Colloids
Sorting
Microorganisms
Polarization
Electrophoresis
2017

Optical microscopy and spectroscopy for epigenetic modifications in single living cells

Cui, Y. & Irudayaraj, J. M. K., Jan 1 2017, Methods in Pharmacology and Toxicology. Humana Press Inc., p. 135-154 20 p. (Methods in Pharmacology and Toxicology).

Research output: Chapter in Book/Report/Conference proceedingChapter

Epigenomics
Microscopy
Spectrum Analysis
Optical Imaging
Physiological Phenomena
2015

Decitabine nanoconjugate sensitizes human glioblastoma cells to temozolomide

Cui, Y., Naz, A., Thompson, D. H. & Irudayaraj, J., Apr 6 2015, In : Molecular Pharmaceutics. 12, 4, p. 1279-1288 10 p.

Research output: Contribution to journalArticle

temozolomide
decitabine
Nanoconjugates
Glioblastoma
Ethylene Glycol
2014

Quantitative imaging of single mRNA splice variants in living cells

Lee, K., Cui, Y., Lee, L. P. & Irudayaraj, J., Jun 2014, In : Nature Nanotechnology. 9, 6, p. 474-480 7 p.

Research output: Contribution to journalArticle

ribonucleic acids
Cells
Dimers
Imaging techniques
splicing
2019

Prenatal and ancestral exposure to di(2-ethylhexyl) phthalate alters gene expression and DNA methylation in mouse ovaries

Rattan, S., Beers, H. K., Kannan, A., Ramakrishnan, A., Brehm, E., Bagchi, I. C., Irudayaraj, J. M. K. & Flaws, J. A., Sep 15 2019, In : Toxicology and Applied Pharmacology. 379, 114629.

Research output: Contribution to journalArticle

DNA Methylation
Gene expression
Ovary
Gene Expression
Cytosine
2017

Bimodal counterpropagating-responsive sensing material for the detection of histamine

Wu, Z., Xu, E., Jiao, A., Jin, Z. & Irudayaraj, J. M. K., Jan 1 2017, In : RSC Advances. 7, 71, p. 44933-44944 12 p.

Research output: Contribution to journalArticle

Histamine
Raman scattering
Polymers
Fluorescence
Food safety
2014

Quantifying local density of optical states of nanorods by fluorescence lifetime imaging

Liu, J., Jiang, X., Ishii, S., Shalaev, V. & Irudayaraj, J. M. K., Jan 1 2014, Single Molecule Spectroscopy and Superresolution Imaging VII. SPIE, 89501E. (Progress in Biomedical Optics and Imaging - Proceedings of SPIE; vol. 8950).

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Nanotubes
Optical Imaging
Nanorods
nanorods
Fluorescence
2019

The transition structure of chromatin fibers at the nanoscale probed by cryogenic electron tomography

Zhou, Z., Li, K., Yan, R., Yu, G., Gilpin, C. J., Jiang, W. & Irudayaraj, J. M. K., Aug 7 2019, In : Nanoscale. 11, 29, p. 13783-13789 7 p.

Research output: Contribution to journalArticle

Transcription
Cryogenics
Chromatin
Tomography
Electrons