Rajeev K. Azad
University of North Texas
Biological Sciences
(940) 369-5078
Email:

Education

PhD, Jawaharlal Nehru University, New Delhi, 2002.
Major: Mathematical Modeling of Nonlinear Biological and Physical Systems
Dissertation Title: Symbolic Sequences as Representations of Complex Systems
MPhil, Jawaharlal Nehru University, New Delhi, 1998.
Major: Mathematical Modeling of Nonlinear Biological and Physical Systems
Dissertation Title: "Study of Chaotic Time Signals to Determine Whether They Arise from the Same Underlying Dynamics"

Professional Positions

Uncategorized
Assistant Professor, University of North Texas. (2011 – Present).
Research Assistant Professor, Case Western Reserve University. (2010 – 2011).
Research Assistant Professor, University of Pittsburgh. (2007 – 2010).
Research Associate, University of Pittsburgh. (2004 – 2007).
Postdoctoral Fellow, Georgia Institute of Technology. (2002 – 2004).

Professional Memberships

Society for Molecular Biology and Evolution. (2016 – Present).

International Society for Computational Biology. (2006 – Present).

Teaching

Teaching Experience

University of North Texas
BIOC 5950, Master's Thesis, 4 courses.
BIOC 6950, Doctoral Dissertation, 5 courses.
BIOL 4005, Contemporary Topics in Biology, 2 courses.
BIOL 4810, BioComputing, 2 courses.
BIOL 4815, Bioinformatics, 2 courses.
BIOL 4900, Special Problems, 12 courses.
BIOL 4930, Special Problems, 2 courses.
BIOL 5005, TOPICS IN BIOLOGY, 10 courses.
BIOL 5810, BioComputing, 2 courses.
BIOL 5815, Bioinformatics, 1 course.
BIOL 5900, Special Problems, 8 courses.
BIOL 5910, Special Problems, 14 courses.
BIOL 5950, Master's Thesis, 4 courses.
BIOL 6810, Advanced Topics in Computational Life Science, 13 courses.
BIOL 6900, Special Problems, 11 courses.
BIOL 6910, Special Problems, 1 course.
BIOL 6940, Individual Research, 25 courses.
BIOL 6950, Doctoral Dissertation, 20 courses.
CSCE 4810, BioComputing, 2 courses.
CSCE 5810, BioComputing, 2 courses.
CSCE 5933, Topics in Computer Science and Engineering, 7 courses.
CSCE 6810, Advanced Topics in Computational Life Science, 13 courses.
MATH 1680, Elementary Probability and Statistics, 4 courses.
MATH 2900, Special Problems, 1 course.
MATH 4810, Biocomputing, 1 course.
MATH 4900, Special Problems, 4 courses.
MATH 4980, Experimental Course, 1 course.
MATH 5220, Numerical Analysis, 5 courses.
MATH 5700, Selected Topics in Contemporary Mathematics, 6 courses.
MATH 5900, Special Problems, 12 courses.
MATH 5910, Special Problems, 2 courses.
MATH 6710, Topics in Applied Mathematics, 9 courses.
MATH 6950, Doctoral Dissertation, 3 courses.

Directed Student Learning

Major Professor, Biological Sciences. (2023 – Present).

Master's Thesis Committee Member, Biological Sciences. (2023 – Present).

Supervised Research, Texas Academy of Mathematics and Science. (2023 – Present).

Supervised Research, Texas Academy of Mathematics and Science. (2023 – Present).

Supervised Research, Texas Academy of Mathematics and Science. (2023 – Present).

Supervised Research, Texas Academy of Mathematics and Science. (2023 – Present).

Dissertation Committee Chair, Mathematics. (2022 – Present).

Doctoral Advisory Committee Member, Biological Sciences. (2022 – Present).

Doctoral Advisory Committee Member, Computer Science and Engineering. (2022 – Present).

Doctoral Advisory Committee Member, Computer Science and Engineering. (2022 – Present).

Master's Thesis Committee Member, Biological Sciences. (2022 – Present).

Doctoral Advisory Committee Chair, Biological Sciences. (2021 – Present).

Doctoral Advisory Committee Member, Computer Science and Engineering. (2021 – Present).

Doctoral Advisory Committee Member, Computer Science and Engineering. (2021 – Present).

Major Professor, Biological Sciences. (2021 – Present).

Doctoral Advisory Committee Chair, Biological Sciences. (August 2019 – Present).

Dissertation Committee Chair, Biological Sciences. (2019 – Present).

Doctoral Advisory Committee Chair, Biological Sciences. (2019 – Present).

Doctoral Advisory Committee Member, Biological Sciences. (2019 – Present).

Doctoral Advisory Committee Member, Biological Sciences. (2019 – Present).

Doctoral Advisory Committee Member, Biological Sciences. (2019 – Present).

Dissertation Committee Chair, Biological Sciences. (2018 – Present).

Doctoral Advisory Committee Member, Biological Sciences. (2018 – Present).

Doctoral Advisory Committee Member, Biological Sciences. (2018 – Present).

Doctoral Advisory Committee Member, Biological Sciences. (2018 – Present).

Doctoral Advisory Committee Member, Biological Sciences. (2014 – Present).

Other, Computer Science and Engineering. (2023 – 2023).

Postdoctoral Research Supervision, Biological Sciences. (2022 – 2023).

Doctoral Advisory Committee Member, Computer Science and Engineering. (2021 – 2023).

Supervised Research, Texas Academy of Mathematics and Science. (2021 – 2023).

Supervised Research, Texas Academy of Mathematics and Science. (2021 – 2023).

Dissertation Committee Chair,"Identification and Functional Characterization of Genomic Islands: Application to Pseudomonas aeruginosa PAO1," Biological Sciences. (2018 – 2023).

Doctoral Advisory Committee Member, Biological Sciences. (2017 – 2023).

Doctoral Advisory Committee Member, Biological Sciences. (2016 – 2023).

Dissertation Committee Chair,"Detection and classification of cancer and other noncommunicable diseases using neural network models," Biological Sciences. (2015 – 2023).

Other, Computer Science and Engineering. (2022 – 2022).

Supervised Research, Texas Academy of Mathematics and Science. (2021 – 2022).

Supervised Research, Texas Academy of Mathematics and Science. (2021 – 2022).

Dissertation Committee Chair,"A Sensitive and Robust Machine Learning Based Framework for Deciphering Antimicrobial Resistance," Biological Sciences. (2017 – 2022).

Dissertation Committee Chair,"Inferring a network of horizontal gene flow among prokaryotes using complementary approaches," Biological Sciences. (2015 – 2022).

Master's Thesis Committee Member,"Developing Informatics Tools Utilizing WGS and Transcription Data in Aid of Gene Discovery in Medicago truncatula," Biological Sciences. (2015 – 2022).

Major Professor, Biological Sciences. (August 2019 – May 2022).

Dissertation Committee Chair,"Analysis of Multipartite Bacterial Genomes Using Alignment-Free and Alignment-Based pipelines," Biological Sciences. (2017 – 2021).

Doctoral Advisory Committee Member, Biological Sciences. (2017 – 2021).

Dissertation Committee Co-Chair,"Production and Optimization of Para-Hydroxybenzoic Acid (pHBA) in Algae Using Metabolic Engineering and Genomics Approaches," Biological Sciences. (2013 – 2021).

Other, Biological Sciences. (2019 – 2020).

Other, Texas Academy of Mathematics and Science. (2018 – 2020).

Other, Texas Academy of Mathematics and Science. (2018 – 2020).

Doctoral Advisory Committee Member, Biological Sciences. (2017 – 2020).

Doctoral Advisory Committee Member, Biological Sciences. (2017 – 2020).

Master's Thesis Committee Chair,"Comparative resistomics of ancient and modern human microbiomes," Biological Sciences. (2017 – 2020).

Dissertation Committee Chair,"Probabilistic Modeling for Whole Metagenome Profiling," Biological Sciences. (2015 – 2020).

Doctoral Advisory Committee Member, Biological Sciences. (2015 – 2020).

Doctoral Advisory Committee Member, Biological Sciences. (2015 – 2020).

Other, Biological Sciences. (2018 – 2019).

Major Professor, Biological Sciences. (2018 – 2019).

Other, Texas Academy of Mathematics and Science. (2018 – 2019).

Doctoral Advisory Committee Member, Biological Sciences. (2017 – 2019).

Master's Thesis Committee Member, Biological Sciences. (2017 – 2019).

Master's Thesis Committee Member, Biological Sciences. (2017 – 2019).

Doctoral Advisory Committee Member, Biological Sciences. (2014 – 2019).

Other, Texas Academy of Mathematics and Science. (2017 – 2018).

Doctoral Advisory Committee Member, Biological Sciences. (2017 – 2018).

Other, Texas Academy of Mathematics and Science. (2017 – 2018).

Doctoral Advisory Committee Member, Biological Sciences. (2015 – 2018).

Doctoral Advisory Committee Member, Biological Sciences. (2015 – 2018).

Doctoral Advisory Committee Member, Biological Sciences. (2014 – 2018).

Doctoral Advisory Committee Member, Biological Sciences. (2014 – 2018).

Doctoral Advisory Committee Member, Biological Sciences. (2014 – 2018).

Doctoral Advisory Committee Member, Biological Sciences. (2013 – 2018).

Doctoral Advisory Committee Chair,"Genomic island discovery through enrichment of statistical modeling with biological information," Biological Sciences. (2012 – 2018).

Doctoral Advisory Committee Member, Biological Sciences. (2017 – 2017).

Master's Thesis Committee Member, Biological Sciences. (2016 – 2017).

Master's Thesis Committee Co-Chair,"Investigating Human Gut Microbiome in Obesity with Machine Learning Methods," Biological Sciences. (2014 – 2017).

Doctoral Advisory Committee Member, Biological Sciences. (2013 – 2017).

Dissertation Committee Co-Chair,"Developing a phylogeney based machine learning algorithm for metagenomics," Biological Sciences. (2011 – 2017).

Doctoral Advisory Committee Chair,"Markov Model of Segmentation and Clustering: Applications in Deciphering Genomes and Metagenomes," Biological Sciences. (2011 – 2017).

Master's Thesis Committee Chair,"Understanding influenza virus evolution and outbreak through phylogenetic approaches," Mathematics. (2014 – 2016).

Master's Thesis Committee Member, Computer Science and Engineering. (2015 – 2015).

Doctoral Advisory Committee Member, Biological Sciences. (2014 – 2015).

Master's Thesis Committee Member, Mathematics. (2014 – 2015).

Dissertation Committee Co-Chair,"Understanding Microbial Biodegradation of Environmental Contaminants," Biological Sciences. (2011 – 2015).

Other, Texas Academy of Mathematics and Science. (2012 – 2013).

Master's Thesis Committee Chair,"Detection of Copy Number Variations in Cancer Genomes via Entropic Dissection," Mathematics. (2011 – 2013).

Research

Published Intellectual Contributions

Book Chapter
Burks, D. J., Azad, R. K. (2020). Identifying auxin response factor genes and their co-expression networks in Medicago truncatula. The Model Legume Medicago truncatula. 802-808. Wiley/Blackwell.
Burks, D., Azad, R. K., Wen, J., Dickstein, R. (2018). The M. truncatula genome: genomic data availability. Medicago truncatula: Methods and Protocols. Springer.
Azad, R. K. (2008). Genes in prokaryotic genomes and their computational prediction. Computational Methods for Understanding Bacterial and Archaeal Genomes. Xu, Y. and Gogarten, J.P. (eds.) Series on Advances in Bioinformatics and Computational Biology, Vol. 7. Imperial College Press, London. ISBN-13: 978-1-86094-982-1, ISBN-10: 1-86094-982-7..
Azad, R. K. (2007). Segmentation of genomic DNA sequences. Advanced Computational Methods for Biocomputing and Bioimaging, Eds. Pham, T.D., Yan, H. and Crane, D.I., Nova Science Publishers, New York. ISBN: 1600212786..
Azad, R. K. (2004). Prokaryotic gene identification in silico. Encyclopedia of Genetics, Genomics, Proteomics and Bioinformatics, Part 4. Bioinformatics, Sec 4.2. Gene Finding and Gene Structure, Eds. Dunn, M.J., Jorde, L.B., Little, P.F.R. and Subramaniam, S. John Wiley & Sons, Ltd., New York. ISBN: 0470849746.
Conference Proceeding
Azad, R. K. (2003). Analysis of DNA sequences through segmentation: Exploring the mosaic via statistical measures. Physica Scripta T106: 21-25. Physica Scripta T106: 21-25..
Journal Article
De, R., Whiteley, M., Azad, R. K. (2023). A gene network-driven approach to infer novel pathogenicity-associated genes: application to Pseudomonas aeruginosa PAO1.. mSystems. 8(6), e0047323.
Almalki, F., Sunuwar, J., Azad, R. K. (2023). Using Machine Learning to Predict Genes Underlying Differentiation of Multipartite and Unipartite Traits in Bacteria.. Other. 11(11), .
Coxe, T., Azad, R. K. (2023). Silicon versus Superbug: Assessing Machine Learning's Role in the Fight against Antimicrobial Resistance.. Other. 12(11), .
Pusadkar, V., Azad, R. K. (2023). Benchmarking Metagenomic Classifiers on Simulated Ancient and Modern Metagenomic Data.. Other. 11(10), .
Ji, L., Zhang, Z., Liu, S., Zhao, L., Li, Q., Xiao, B., Suzuki, N., Burks, D. J., Azad, R. K., Xie, G. (2023). The OsTIL1 lipocalin protects cell membranes from reactive oxygen species damage and maintains the 18:3-containing glycerolipid biosynthesis under cold stress in rice.. The Plant journal : for cell and molecular biology. 117(1), 72-91.
Burks, D. J., Pusadkar, V., Azad, R. K. (2023). POSMM: an efficient alignment-free metagenomic profiler that complements alignment-based profiling.. Environmental Microbiome. 18(1), 16.
Fichman, Y., Xiong, H., Sengupta, S., Morrow, J., Loog, H., Azad, R. K., Hibberd, J. M., Liscum, E., Mittler, R. (2023). Phytochrome B regulates reactive oxygen signaling during abiotic and biotic stress in plants.. The New Phytologist. 237(5), 1711-1727.
Almalki, F., Choudhary, M., Azad, R. K. (2023). Analysis of multipartite bacterial genomes using alignment free and alignment-based pipelines.. Archives of Microbiology. 205(1), 25.
Sengupta, S., Azad, R. K. (2023). Leveraging comparative genomics to uncover alien genes in bacterial genomes.. Microbial Genomics. 9(1), .
De, R., Azad, R. K. (2022). Molecular signatures in the progression of COVID-19 severity.. Scientific Reports. 12(1), 22058.
Sengupta, S., Azad, R. K. (2022). Reconstructing horizontal gene flow network to understand prokaryotic evolution.. Other. 12(11), 220169.
Sunuwar, J., Azad, R. K. (2022). Identification of Novel Antimicrobial Resistance Genes Using Machine Learning, Homology Modeling, and Molecular Docking.. Other. 10(11), .
Burks, D. J., Azad, R. K. (2022). Mapping Strengths and Weaknesses of Different Clustering Approaches to Deciphering Bacterial Chimerism.. Other. 26(8), 422-439.
Gore, S., Azad, R. K. (2022). CancerNet: a unified deep learning network for pan-cancer diagnostics.. BMC Bioinformatics. 23(1), 229.
Pandey, R. S., Azad, R. K. (2022). Factors That Influence the Choice of Markov Model Order in Discriminating DNA Sequences from Different Sources.. Other. 26(6), 348-355.
Burks, D. J., Sengupta, S., De, R., Mittler, R., Azad, R. K. (2022). The Arabidopsis gene co-expression network.. Other. 6(4), e396. https://onlinelibrary.wiley.com/doi/10.1002/pld3.396
Fallatah, W., De, R., Burks, D., Azad, R. K., Jagadeeswaran, P. (2022). Analysis of transcribed sequences from young and mature zebrafish thrombocytes.. PLOS One. 17(3), e0264776.
Phillippi, D., Daniel, S., Pusadkar, V., Youngblood, V., Nguyen, K., Azad, R. K., McFarlin, B. K., Lund, A. K. (2022). Inhaled diesel exhaust particles result in microbiome-related systemic inflammation and altered cardiovascular disease biomarkers in C57Bl/6 male mice.. Particle and Fibre Toxicology.
Pandey, R. S., Azad, R. K. (2022). A Protocol for Horizontally Acquired Metabolic Gene Detection in Algae.. Methods in molecular biology (Clifton, N.J.). 2396, 61-69.
Sengupta, S., Azad, R. K. (2022). A Protocol for Phylogenetic Reconstruction.. Methods in molecular biology (Clifton, N.J.). 2396, 35-46.
Dixson, J. D., Azad, R. K. (2022). A Protocol for Prion Discovery in Plants.. Methods in molecular biology (Clifton, N.J.). 2396, 215-226.
Burks, D. J., Azad, R. K. (2022). RNA-Seq Data Analysis Pipeline for Plants: Transcriptome Assembly, Alignment, and Differential Expression Analysis.. Methods in molecular biology (Clifton, N.J.). 2396, 47-60.
Alharbi, A., Iyer, N., Al Qaryoute, A., Raman, R., Burks, D. J., Azad, R. K., Jagadeeswaran, P. (2021). Role of ribosomal RNA released from red cells in blood coagulation in zebrafish and humans.. Blood Advances. 5(22), 4634-4647.
Sunuwar, J., Azad, R. K. (2021). A machine learning framework to predict antibiotic resistance traits and yet unknown genes underlying resistance to specific antibiotics in bacterial strains.. Briefings in Bioinformatics. 22(6), .
Ibtehaz, N., Ahmed, I., Ahmed, M. S., Rahman, M. S., Azad, R. K., Bayzid, M. S. (2021). SSG-LUGIA: Single Sequence based Genome Level Unsupervised Genomic Island Prediction Algorithm.. Briefings in Bioinformatics. 22(6), .
Dixson, J. D., Azad, R. K. (2021). A novel predictor of ACE2-binding ability among betacoronaviruses.. Other. 9(1), 360-373.
Jani, M., Azad, R. K. (2021). Discovery of mosaic genomic islands in Pseudomonas spp.. Archives of Microbiology. 203(5), 2735-2742.
Zandalinas, S. I., Sengupta, S., Fritschi, F. B., Azad, R. K., Nechushtai, R., Mittler, R. (2021). The impact of multifactorial stress combination on plant growth and survival.. The New Phytologist. 230(3), 1034-1048.
Cohen, I., Zandalinas, S. I., Fritschi, F. B., Sengupta, S., Fichman, Y., Azad, R. K., Mittler, R. (2021). The impact of water deficit and heat stress combination on the molecular response, physiology, and seed production of soybean.. Physiologia Plantarum. 172(1), 41-52.
Daniel, S., Pusadkar, V., McDonald, J. D., Mirpuri, J., Azad, R. K., Goven, A. J., Lund, A. (2021). Traffic generated emissions alter the lung microbiota by promoting the expansion of Proteobacteria in C57Bl/6 mice placed on a high-fat diet.. Ecotoxicology and Environmental Safety.
Fichman, Y., Zandalinas, S. I., Sengupta, S., Burks, D., Myers, Jr, R. J., Azad, R. K., Mittler, R. (2020). MYB30 Orchestrates Systemic Reactive Oxygen Signaling and Plant Acclimation.. Plant Physiology. 184(2), 666-675.
Upadhyay, R. K., Chatterjee, S., Saha, S., Azad, R. K. (2020). Age-group-targeted testing for COVID-19 as a new prevention strategy.. Other. 1-12, DOI: 10.1007/s11071-020-05879-x.
Yan, C., Cannon, A. E., Watkins, J., Keereetaweep, J., Khan, B. R., Jones, A. M., Blancaflor, E. B., Azad, R. K., Chapman, K. D. (2020). Seedling Chloroplast Responses Induced by <i>N</i>-Linolenoylethanolamine Require Intact G-Protein Complexes.. Plant Physiology. 184(1), 459-477.
Burks, D. J., Azad, R. K. (2020). Higher-order Markov models for metagenomic sequence classification.. Other. 36(14), 4130-4136.
Cannon, A. E., Yan, C., Burks, D. J., Rao, X., Azad, R. K., Chapman, K. D. (2020). Lipophilic signals lead to organ-specific gene expression changes in <i>Arabidopsis</i> seedlings.. Other. 4(7), e00242.
Dixson, J. D., Azad, R. K. (2020). Prions: Roles in Development and Adaptive Evolution.. Other. 88(5), 427-434.
Zandalinas, S. I., Fichman, Y., Devireddy, A. R., Sengupta, S., Azad, R. K., Mittler, R. (2020). Systemic signaling during abiotic stress combination in plants.. Proceedings of the National Academy of Sciences of the United States of America. 117(24), 13810-13820.
Sturtevant, D., Lu, S., Zhou, Z. W., Shen, Y., Wang, S., Song, J., Zhong, J., Burks, D. J., Yang, Z. Q., Yang, Q., Cannon, A. E., Herrfurth, C., Feussner, I., Borisjuk, L., Munz, E., Verbeck, G. F., Wang, X., Azad, R. K., Singleton, B., Dyer, J. M., Chen, L. L., Chapman, K. D., Guo, L. (2020). The genome of jojoba (<i>Simmondsia chinensis</i>): A taxonomically isolated species that directs wax ester accumulation in its seeds.. Science Advances. 6(11), eaay3240.
Zandalinas, S. I., Song, L., Sengupta, S., McInturf, S. A., Grant, D. G., Marjault, H. B., Castro-Guerrero, N. A., Burks, D., Azad, R. K., Mendoza-Cozatl, D. G., Nechushtai, R., Mittler, R. (2020). Expression of a dominant-negative AtNEET-H89C protein disrupts iron-sulfur metabolism and iron homeostasis in Arabidopsis.. The Plant journal : for cell and molecular biology. 101(5), 1152-1169.
BalfagĂłn, D., Sengupta, S., GĂłmez-Cadenas, A., Fritschi, F. B., Azad, R. K., Mittler, R., Zandalinas, S. I. (2019). Jasmonic Acid Is Required for Plant Acclimation to a Combination of High Light and Heat Stress.. Plant Physiology. 181(4), 1668-1682.
Azad, R. K., Shulaev, V. (2019). Metabolomics technology and bioinformatics for precision medicine.. Briefings in Bioinformatics. 20(6), 1957-1971.
Jani, M., Azad, R. K. (2019). IslandCafe: Compositional Anomaly and Feature Enrichment Assessment for Delineation of Genomic Islands.. Other. 9(10), 3273-3285.
Zhuo, C., Rao, X., Azad, R. K., Pandey, R., Xiao, X., Harkelroad, A., Wang, X., Chen, F., Dixon, R. (2019). Enzymatic basis for C-lignin monomer biosynthesis in the seed coat of Cleome hassleriana.. The Plant journal : for cell and molecular biology. 99, 506-520.
Zandalinas, S. I., Sengupta, S., Burks, D., Azad, R. K., Mittler, R. (2019). Identification and characterization of a core set of ROS wave-associated transcripts involved in the systemic acquired acclimation response of Arabidopsis to excess light.. The Plant journal : for cell and molecular biology. 98(1), 126-141.
Sturtevant, D., Romsdahl, T. B., Yu, X., Burks, D. J., Azad, R. K., Shanklin, J., Chapman, K. (2019). Tissue-specific differences in metabolites and transcripts contribute to the heterogeneity of ricinoleic acid accumulation in Ricinus communis L. (castor) seeds. Metabolomics. 15(1), . https://api.elsevier.com/content/abstract/scopus_id/85059652912
Sengupta, S., Nechushtai, R., Jennings, P. A., Onuchic, J. N., Padilla, P. A., Azad, R., Mittler, R. (2018). Phylogenetic analysis of the CDGSH iron-sulfur binding domain reveals its ancient origin. Scientific Reports. 8, .
Choudhury, F. K., Devireddy, A. R., Azad, R. K., Shulaev, V., Mittler, R. (2018). Local and Systemic Metabolic Responses during Light-Induced Rapid Systemic Signaling.. Plant Physiology. 178(4), 1461-1472.
Choudhury, F. K., Devireddy, A. R., Azad, R. K., Shulaev, V., Mittler, R. (2018). Rapid accumulation of glutathione during light stress in Arabidopsis.. Other. 59(9), 1817–1826.
Azad, R. K., Shulaev, V. (2018). Metabolomics technology and bioinformatics for precision medicine.. Other. 20(6), 1957–1971.
Jani, M., Sengupta, S., Hu, K., Azad, R. K. (2017). Deciphering pathogenicity and antibiotic resistance islands in methicillin-resistant <i>Staphylococcus aureus</i> genomes.. Other. 7(12), pii: 170094.
Burks, D. J., Norris, S., Kauffman, K. M., Joy, A., Arevalo, P., Azad, R. K., Wildschutte, H. (2017). Environmental vibrios represent a source of antagonistic compounds that inhibit pathogenic Vibrio cholerae and Vibrio parahaemolyticus strains.. Other. 6(5), e504.
Karmi, O., Holt, S. H., Song, L., Tamir, S., Luo, Y., Bai, F., Adenwalla, A., Darash-Yahana, M., Sohn, Y. S., Jennings, P. A., Azad, R. K., Onuchic, J. N., Morcos, F., Nechushtai, R., Mittler, R. (2017). Interactions between mitoNEET and NAF-1 in cells.. PLOS One. 12(4), e0175796.
Inupakutika, M. A., Sengupta, S., Nechushtai, R., Jennings, P. A., Onuchic, J. N., Azad, R. K., Padilla, P. A., Mittler, R. (2017). Phylogenetic analysis of eukaryotic NEET proteins uncovers a link between a key gene duplication event and the evolution of vertebrates.. Scientific Reports. 7, 42571.
Pandey, R. S., Saxena, G., Bhattacharya, D., Qiu, H., Azad, R. K. (2017). Using complementary approaches to identify trans-domain nuclear gene transfers in the extremophile Galdieria sulphuraria (Rhodophyta).. Other. 53(1), 7-11.
Burks, D. J., Azad, R. K. (2016). Identification and Network-Enabled Characterization of Auxin Response Factor Genes in <i>Medicago truncatula</i>.. Frontiers in Plant Science. 7, 1857.
Inupakutika, M. A., Sengupta, S., Devireddy, A. R., Azad, R. K., Mittler, R. (2016). The evolution of reactive oxygen species metabolism.. Journal of Experimental Botany. 67(21), 5933-5943.
Ladage, M. L., King, S. D., Burks, D. J., Quan, D. L., Garcia, A. M., Azad, R. K., Padilla, P. A. (2016). Glucose or Altered Ceramide Biosynthesis Mediate Oxygen Deprivation Sensitivity Through Novel Pathways Revealed by Transcriptome Analysis in Caenorhabditis elegans.. G3: Genes, Genomes, Genetics. 6(10), 3149-3160.
Jani, M., Mathee, K., Azad, R. K. (2016). Identification of Novel Genomic Islands in Liverpool Epidemic Strain of Pseudomonas aeruginosa Using Segmentation and Clustering.. Frontiers in Microbiology. 7, 1210.
Pandey, R. S., Azad, R. K. (2016). Deciphering evolutionary strata on plant sex chromosomes and fungal mating-type chromosomes through compositional segmentation.. Plant Molecular Biology. 90(4-5), 359-73.
Veerappan, V., Jani, M., Kadel, K., Troiani, T., Gale, R., Mayes, T., Shulaev, E., Wen, J., Mysore, K. S., Azad, R. K., Dickstein, R. (2016). Rapid identification of causative insertions underlying Medicago truncatula Tnt1 mutants defective in symbiotic nitrogen fixation from a forward genetic screen by whole genome sequencing.. BMC Genomics. 17, 141.
Suzuki, N., Bassil, E., Hamilton, J. S., Inupakutika, M. A., Zandalinas, S. I., Tripathy, D., Luo, Y., Dion, E., Fukui, G., Kumazaki, A., Nakano, R., Rivero, R. M., Verbeck, G. F., Azad, R. K., Blumwald, E., Mittler, R. (2016). ABA Is Required for Plant Acclimation to a Combination of Salt and Heat Stress.. PLOS One. 11(1), e0147625.
Holt, S. H., Darash-Yahana, M., Sohn, Y. S., Song, L., Karmi, O., Tamir, S., Michaeli, D., Luo, Y., Paddock, M. L., Jennings, P. A., Onuchic, J. N., Azad, R. K., Pikarsky, E., Cabantchik, I. Z., Nechushtai, R., Mittler, R. (2016). Activation of apoptosis in NAF-1-deficient human epithelial breast cancer cells.. Journal of Cell Science. 129(1), 155-65.
Suzuki, N., Devireddy, A. R., Inupakutika, M. A., Baxter, A., Miller, G., Song, L., Shulaev, E., Azad, R. K., Shulaev, V., Mittler, R. (2015). Ultra-fast alterations in mRNA levels uncover multiple players in light stress acclimation in plants.. The Plant journal : for cell and molecular biology. 84(4), 760-72.
Mittal, R., Lisi, C. V., Gerring, R., Mittal, J., Mathee, K., Narasimhan, G., Azad, R. K., Yao, Q., Grati, M., Yan, D., Eshraghi, A. A., Angeli, S. I., Telischi, F. F., Liu, X. Z. (2015). Current concepts in the pathogenesis and treatment of chronic suppurative otitis media.. Journal of Medical Microbiology. 64(10), 1103-16.
Garcia, A. M., Ladage, M. L., Dumesnil, D. R., Zaman, K., Shulaev, V., Azad, R. K., Padilla, P. A. (2015). Glucose induces sensitivity to oxygen deprivation and modulates insulin/IGF-1 signaling and lipid biosynthesis in Caenorhabditis elegans.. Genetics. 200(1), 167-84.
RĂ©, M. A., Azad, R. K. (2014). Generalization of entropy based divergence measures for symbolic sequence analysis.. PLOS One. 9(4), e93532.
Azad, R. K., Li, J. (2013). Interpreting genomic data via entropic dissection.. Other. 41(1), e23.
Pandey, R. S., Wilson Sayres, M. A., Azad, R. K. (2013). Detecting evolutionary strata on the human x chromosome in the absence of gametologous y-linked sequences.. Other. 5(10), 1863-71.
Azad, R. K. (2012). Interpreting genomic data via entropic dissection. Nucleic Acids Research 2012; Advance Access published October 3, 2012; doi:10.1093/nar/gks917. Related Links: http://nar.oxfordjournals.org/content/41/1/e23.long.
Azad, R. K., Lawrence, J. G. (2012). Detecting laterally transferred genes.. Methods in molecular biology (Clifton, N.J.). 855, 281-308.
Azad, R. K., Lawrence, J. G. (2012). Detecting laterally transferred genes.. Methods in molecular biology (Clifton, N.J.). 855, 281-308.
Azad, R. K. (2011). Towards more robust methods of alien gene detection. Azad RK, Lawrence JG. Nucleic Acids Res . 2011 May;39(9):e56. Epub 2011 Feb 4. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/21297116.
Azad, R. K., Lawrence, J. G. (2011). Towards more robust methods of alien gene detection.. Other. 39(9), e56.
Azad, R. K. (2009). Detection of genomic islands via segmental genome heterogeneity. Arvey AJ, Azad RK, Raval A, Lawrence JG. Nucleic Acids Res . 2009 Sep;37(16):5255-66. Epub 2009 Jul 9. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/19589805.
Arvey, A. J., Azad, R. K., Raval, A., Lawrence, J. G. (2009). Detection of genomic islands via segmental genome heterogeneity.. Other. 37(16), 5255-66.
Azad, R. K. (2007). Detecting laterally transferred genes: use of entropic clustering methods and genome position. Azad RK, Lawrence JG. Nucleic Acids Res . 2007;35(14):4629-39. Epub 2007 Jun 25. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/17591616.
Azad, R. K. (2007). Markov models of genome segmentation. Thakur V, Azad RK, Ramaswamy R. Phys Rev E Stat Nonlin Soft Matter Phys . 2007 Jan;75(1 Pt 1):011915. Epub 2007 Jan 17. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/17358192.
Azad, R. K., Lawrence, J. G. (2007). Detecting laterally transferred genes: use of entropic clustering methods and genome position.. Other. 35(14), 4629-39.
Thakur, V., Azad, R. K., Ramaswamy, R. (2007). Markov models of genome segmentation.. Other. 75(1 Pt 1), 011915.
Azad, R. K. (2006). The evolutionary origin of Xanthomonadales genomes and the nature of the horizontal gene transfer process. Comas I, Moya A, Azad RK, Lawrence JG, Gonzalez-Candelas F. Mol Biol Evol . 2006 Nov;23(11):2049-57. Epub 2006 Aug 1. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/16882701.
Comas, I., Moya, A., Azad, R. K., Lawrence, J. G., Gonzalez-Candelas, F. (2006). The evolutionary origin of Xanthomonadales genomes and the nature of the horizontal gene transfer process.. Other. 23(11), 2049-57.
Azad, R. K. (2005). Use of artificial genomes in assessing methods for atypical gene detection. Azad RK, Lawrence JG. PLoS Comput Biol . 2005 Nov;1(6):e56. Epub 2005 Nov 11. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/16292353.
Azad, R. K., Lawrence, J. G. (2005). Use of artificial genomes in assessing methods for atypical gene detection.. PLOS Computational Biology. 1(6), e56.
Azad, R. K. (2004). Effects of choice of DNA sequence model structure on gene identification accuracy. Azad RK, Borodovsky M. Bioinformatics . 2004 May 1;20(7):993-1005. Epub 2004 Jan 29. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/14751980.
Azad, R. K. (2004). Probabilistic methods of identifying genes in prokaryotic genomes: connections to the HMM theory. Azad RK, Borodovsky M. Brief Bioinform . 2004 Jun;5(2):118-30. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/15260893.
Azad, R. K. (2004). Symbol sequence analysis of climatic time signals. Nonlinear Analysis: Real World Applications 5: 487-500. Nonlinear Analysis: Real World Applications 5: 487-500..
Azad, R. K., Borodovsky, M. (2004). Probabilistic methods of identifying genes in prokaryotic genomes: connections to the HMM theory.. Other. 5(2), 118-30.
Azad, R. K., Borodovsky, M. (2004). Effects of choice of DNA sequence model structure on gene identification accuracy.. Other. 20(7), 993-1005.
Azad, R. K. (2002). Information-entropic analysis of chaotic time series: Determination of time-delays and dynamical coupling. Chaos, Solitons & Fractals 14: 633-641. Chaos, Solitons & Fractals 14: 633-641..
Azad, R. K. (2002). Segmentation of genomic DNA through entropic divergence: power laws and scaling. Azad RK, Bernaola-Galván P, Ramaswamy R, Rao JS. Phys Rev E Stat Nonlin Soft Matter Phys . 2002 May;65(5 Pt 1):051909. Epub 2002 May 8. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/12059595.
Azad, R. K. (2002). Simplifying the mosaic description of DNA sequences. Azad RK, Rao JS, Li W, Ramaswamy R. Phys Rev E Stat Nonlin Soft Matter Phys . 2002 Sep;66(3 Pt 1):031913. Epub 2002 Sep 25. Related Links: http://www.ncbi.nlm.nih.gov/pubmed/12366158.
Azad, R. K., Rao, J. S., Li, W., Ramaswamy, R. (2002). Simplifying the mosaic description of DNA sequences.. Other. 66(3 Pt 1), 031913.
Azad, R. K., Bernaola-Galván, P., Ramaswamy, R., Rao, J. S. (2002). Segmentation of genomic DNA through entropic divergence: power laws and scaling.. Other. 65(5 Pt 1), 051909.
Review
Jani, M., Azad, R. K., (2013). Information entropy based methods for genome comparison. Other. 3(2), . NY, USA: ACM New York.

Presentations Given

Invited Talk

Azad, R. K. (Author & Presenter), Jani, M. (Author), Sengupta, S. (Author), Hu, K. (Author), 5th International Caparica Conference in Antibiotic Resistance 2022, Deciphering pathogenicity and antibiotic resistance islands in methicillin-resistant Staphylococcus aureus genomes, Caparica, Portugal, Portugal. (2022 – 2022).

Azad, R. K. (Presenter), Genes without borders: Quantifying horizontal gene flux among prokaryotes, Southern Methodist University, Dallas, Texas, United States of America. (2019).

Azad, R. K. (Presenter), Genes, genomes and chimeras: Deciphering the mosaics through information-theoretic measures, National Institute of Mental Health and Neurosciences, Bangalore, India, India. (2019).

Azad, R. K. (Presenter), Genes, genomes and chimeras: Deciphering the mosaics through information-theoretic measures, University of Hyderabad, India, India. (2019).

Azad, R. K. (Presenter), Genes, genomes and chimeras: Deciphering the mosaics through information-theoretic measures, Indian Institute of Technology, Patna, India, India. (2019).

Azad, R. K. (Presenter), Mining genomes through segmentation, Mathematical Biosciences Institute, The Ohio State University, Columbus, OH, United States of America. (2016 – 2016).

Azad, R. K. (Presenter), Fall 2015 Texas Branch of the American Society for Microbiology Meeting, Bioinformatics in microbiology, Texas Branch of the American Society for Microbiology, Sam Houston State University, Huntsville, TX, United States of America. (2015 – 2015).

Azad, R. K. (Presenter), Departmental Seminar, Unraveling bacterial virulence and antibiotic resistance through genome analysis, Department of Chemistry and Biochemistry, University of Texas at Arlington, Arlington, Texas, United States of America. (2015 – 2015).

Azad, R. K. (Presenter), 2015 Texas Branch Spring Meeting of the American Society for Microbiology, Phylogeny independent methods for quantifying horizontal gene flow, Texas Branch of the American Society for Microbiology, New Braunfels, TX, United States of America. (2015 – 2015).

Keynote/Plenary Address

Azad, R. K. (Presenter), International Conference on Advances in Life Sciences, Genes without borders: Quantifying horizontal gene flux among prokaryotes, Patna University and Sam Houston State University, Patna University, India, India. (2022 – 2022).

Oral Presentation

Sengupta, S. (Author), Azad, R. K. (Author & Presenter), The 31st Annual Intelligent Systems For Molecular Biology and the 22nd Annual European Conference on Computational Biology, Reconstructing Horizontal Gene Flow Network to Understand Prokaryotic Evolution (canceled due to conflict with SMBE 2023), International Society for Computational Biology, Lyon, France. (2023 – 2023).

Pusadkar, V. (Author & Presenter), Azad, R. K. (Author), 2023 BioDiscovery Institute Advisory Board Meeting, Benchmarking metagenomic classifiers on simulated ancient and modern metagenomic data, University of North Texas, Denton, Texas, United States of America. (2023 – 2023).

Dixson, J. (Author & Presenter), Azad, R. K. (Author), International Conference on Advances in Life Sciences, A Novel Predictor of ACE2-Binding Among Betacoronaviruses, Patna University, India, India. (2022 – 2022).

Gore, S. (Author & Presenter), Azad, R. K. (Author), International Conference on Advances in Life Sciences, CancerNet: a unified deep learning network for pan-cancer diagnostics, Patna University, India, India. (2022 – 2022).

Jain, M. (Author & Presenter), De, R. (Other), Azad, R. K. (Other), Texas Junior Academy of Science (TJAS) research competition, Gene Co-Expression Network of Mycobacterium tuberculosis, Texas A&M University, United States of America. (2022).

Azad, R. K. (Presenter), Biological Sciences Seminar Series, Genes without borders: Quantifying horizontal gene flux among prokaryotes, University of North Texas, United States of America. (2022).

Kumar, A. (Author & Presenter), Azad, R. K. (Author), 18th Annual BGSA Research Symposium, Detection of horizontal gene transfer events, UNT, Denton, TX, United States of America. (2022 – 2022).

Azad, R. K. (Author & Presenter), Burks, D. (Author), ROCKY 2021 Conference, Higher-order Markov models for metagenomic sequence classification, International Society for Computational Biology, Snowmass, Aspen, Colorado, United States of America. (2021 – 2021).

Dixson, J. (Author & Presenter), Azad, R. K. (Author), Fall 2020 Texas Branch of the American Society for Microbiology Meeting, Prions: In Search of their Elusive Ancestry, University of North Texas, Denton, TX, United States of America. (2020 – 2020).

Azad, R. K. (Presenter), BioDiscovery Institute External Advisory Board Meeting, Higher order Markov models for metagenomic sequence classification, University of North Texas, Denton, TX, United States of America. (2020 – 2020).

Azad, R. K. (Author & Presenter), Jani, M. (Author), Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2019) and the Annual European Conference on Computational Biology (ECCB), jointly organized under the name of ISMB/ECCB 2019, IslandCafe: Compositional anomaly and feature enrichment assessment for delineation of genomic islands, Basel, Switzerland, Switzerland. (2019 – 2019).

Azad, R. K. (Presenter), BioDiscovery Institute External Advisory Board Meeting, CAFE: Compositional Anomaly and Feature Enrichment Assessment for Delineation of Genomic Islands, University of North Texas, Denton, TX, United States of America. (2018).

Azad, R. K. (Other), Gore, S. (Presenter), BioDiscovery Institute Seminar Series, Fast, accurate tissue-of-origin detection for multiple cancer types by way of neural networks, University of North Texas, Denton, TX, United States of America. (2018).

Gore, S. (Author & Presenter), Azad, R. K. (Author), 15th Annual BGSA Departmental Research Day, Fast, accurate tissue-of-origin detection for multiple cancer types through neural networks, University of North Texas, Denton, TX, United States of America. (2018).

Azad, R. K. (Presenter), Annual BioDiscovery Institute Retreat, Plant Bioinformatics @ Azad Lab, University of North Texas, Denton, TX, United States of America. (2018).

Burks, D. (Author & Presenter), Pandey, R. (Author), Azad, R. K. (Author), Fall 2017 Texas Branch of the American Society for Microbiology Meeting, Towards more robust metagenome profiling, American Society for Microbiology, Texas A&M University, College Station, TX, United States of America. (2017 – 2017).

Azad, R. K. (Author & Presenter), Pandey, R. (Author), Burks, D. (Author), Special Session on Mathematical and Computational Biology, AMS Fall Central Sectional Meeting, Towards more robust metagenome profiling, American Mathematical Society, University of North Texas, Denton, Texas, United States of America. (2017 – 2017).

Azad, R. K. (Author & Presenter), Pandey, R. (Author), Burks, D. (Author), 2017 Great Lakes Bioinformatics Conference, Towards more robust metagenome profiling, International Society for Computational Biology, University of Illinois at Chicago, United States of America. (2017 – 2017).

Azad, R. K. (Author & Presenter), Pandey, R. (Author), Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2016), Deciphering evolutionary strata on plant sex chromosomes and fungal mating-type chromosomes through compositional segmentation, International Society for Computational Biology, Orlando, Florida, United States of America. (2016 – 2016).

Azad, R. K. (Author & Presenter), Pandey, R. (Author), Saxena, G. (Author), Qiu, H. (Author), Bhattacharya, D. (Author), Symposium: “Understudied, Undervalued, But Amazingly Interesting: Microbial Eukaryotic Genomic Evolution” at the SMBE 2016 - the annual meeting of the Society for Molecular Biology and Evolution (in conjunction with the Genetics Society of Australia (GSA), Fragmented evolution of an extremophilic red alga: Massive influx of prokaryotic DNAs revealed by the segmental landscape of the Galdieria sulphuraria genome, Society for Molecular Biology and Evolution, Gold Coast, Queensland, Australia, Australia. (2016 – 2016).

Azad, R. K. (Author & Presenter), Jani, M. (Author), Mathee, K. (Author), "Infectious disease” research session at the Great Lakes Bioinformatics and the Canadian Computational Biology Conference 2016 (GLBIO/CCBC 2016), Identification of novel genomic islands in Liverpool epidemic strain of Pseudomonas aeruginosa using segmentation and clustering, International Society for Computational Biology;, University of Toronto, Canada, Canada. (2016 – 2016).

Pandey, R. (Author & Presenter), Azad, R. K. (Author), Southern Section of the American Society of Plant Biologists Annual Meeting, Deciphering evolutionary strata on plant and algal sex chromosomes and fungal mating-type chromosomes through compositional segmentation, American Society of Plant Biologists, University of North Texas, Denton, TX, United States of America. (2016 – 2016).

Saxena, G. (Author & Presenter), Pandey, R. (Author & Presenter), Azad, R. K. (Author), Spring 2015 Meeting of the American Society for Microbiology, Impact of horizontal gene transfer in the evolution of Galdieria sulphuraria 074W, American Society for Microbiology, New Braunfels, TX, United States of America. (2015 – 2015).

Panel Presentation

Azad, R. K. (Panelist), Computational Biology Panel discussion in the (Virtual) Global Summit of Vaishvik Bhartiya Vaigyanik (Vaibhav) Summit, Invited Panelist; Module: Systems Medicine and infectious diseases (Cellular signatures of biological responses and disease states), Defence Research and Development Organisation, India, India. (2020).

Poster

Sengupta, S. (Author), Azad, R. K. (Author & Presenter), 2023 Society for Molecular Biology & Evolution Annual Meeting, Reconstructing Horizontal Gene Flow Network to Understand Prokaryotic Evolution, Society for Molecular Biology & Evolution, Ferrara, Italy. (2023 – 2023).

Dixson, J. (Author & Presenter), Azad, R. K. (Author), University Research Day, A Novel Predictor of ACE2-binding Ability Among Betacoronaviruses, University of North Texas, Denton, TX, United States of America. (2023 – 2023).

Shao, D. (Author), Cowles, J. (Author & Presenter), Addagudi, S. (Author & Presenter), Jain, A. (Author & Presenter), D'Souza, L. (Author & Presenter), Gore, S. (Author), Azad, R. K. (Author), UNT REU-AI Presentation Day, RXNet: A Model for Rare Cancer Diagnostics Using DNA Methylation Data, Department of Computer Science and Engineering, University of North Texas, Denton, Texas, United States of America. (2023 – 2023).

Pusadkar, V. (Author & Presenter), Azad, R. K. (Author), Fall 2022 Texas Branch of the American Society for Microbiology Meeting, Benchmarking Metagenomic Classifiers on Simulated Ancient and Modern Metagenomes, Rice University, Houston, TX, United States of America. (2022 – 2022).

De, R. (Author & Presenter), Azad, R. K. (Author), Fall 2022 Texas Branch of the American Society for Microbiology Meeting, CAFE-GI: A New Tool for Identification of Genomic Islands in Bacterial Genomes, Rice University, Houston, TX, United States of America. (2022 – 2022).

Coxe, T. (Author & Presenter), Azad, R. K. (Author), Fall 2022 Texas Branch of the American Society for Microbiology Meeting, DL-ARG: Leveraging deep learning to predict and classify antimicrobial resistance from long and short sequence reads, Rice University, Houston, TX, United States of America. (2022 – 2022).

Shrestha, S. (Author & Presenter), Jha, V. (Author), Singh, B. K. (Author), Azad, R. K. (Author), Fall 2022 Texas Branch of the American Society for Microbiology Meeting, Modelling the transmission of Covid-19 during the first wave in India using data driven SEIRD model, Rice University, Houston, TX, United States of America. (2022 – 2022).

Meche, B. (Author & Presenter), Ginnett, B. (Author), Zhou, K. (Author), Gore, S. (Author), Azad, R. K. (Author), International Conference on Advances in Interdisciplinary Statistics and Combinatorics, DiseaseNet: a Unified Approach to Disease Detection, The University of North Carolina at Greensboro, United States of America. (2022 – 2022).

Meche, B. (Author & Presenter), Ginnett, B. (Author & Presenter), Zhou, K. (Author & Presenter), Gore, S. (Author), Azad, R. K. (Author), UNT REU-AI Presentation Day, DiseaseNet: A Unified Approach to Disease Detection, Department of Computer Science and Engineering, University of North Texas, Denton, Texas, United States of America. (2022 – 2022).

Gopalakrishnan, M. (Author & Presenter), Sunuwar, J. (Author), Azad, R. K. (Author), UNT Scholars Day, A Study to Assess Machine Learning Based Computational Framework to Predict Resistance and Susceptibility Across Antibiotics Within the Same Bacterial Species, Denton, TX, United States of America. (2022 – 2022).

Sengupta, S. (Author & Presenter), Azad, R. K. (Author), Fall 2021 Texas Branch of the American Society for Microbiology Meeting, APP: A new tool for comparative genomics based detection of alien genes in bacterial genomes, Online, United States of America. (2021 – 2021).

Pusadkar, V. (Author & Presenter), Azad, R. K. (Author), Fall 2021 Texas Branch of the American Society for Microbiology Meeting, Multi-omics based identification of gut microbiome COVID-19 signatures, Online, United States of America. (2021 – 2021).

Pusadkar, V. (Author & Presenter), Azad, R. K. (Author), 17th Annual BGSA Research Symposium, Gut microbiome-based Covid-19 signatures using molecular co-occurrence network, UNT Biology Graduate Student Association (BGSA), UNT, Denton, Texas, United States of America. (2021 – 2021).

Sengupta, S. (Author & Presenter), Azad, R. K. (Author), Fall 2020 Texas Branch of the American Society for Microbiology Meeting, A gene-clustering based network reveals differential gene flow among prokaryotic lineages, University of North Texas, Denton, TX, United States of America. (2020 – 2020).

Sunuwar, J. (Author & Presenter), Azad, R. K. (Author), Fall 2020 Texas Branch of the American Society for Microbiology Meeting, A machine learning framework to predict antibiotic resistance traits and yet unknown genetic factors responsible for resistance to specific antibiotics in bacterial strains, University of North Texas, Denton, TX, United States of America. (2020 – 2020).

De, R. (Author & Presenter), Azad, R. K. (Author), Fall 2020 Texas Branch of the American Society for Microbiology Meeting, Identification of genes harbored by genomic islands using a machine learning approach, University of North Texas, Denton, TX, United States of America. (2020 – 2020).

Pusadkar, V. (Author & Presenter), Azad, R. K. (Author), Fall 2020 Texas Branch of the American Society for Microbiology Meeting, Understanding microbiome-disease association using machine learning, University of North Texas, Denton, TX, United States of America. (2020 – 2020).

Almalki, F. (Author & Presenter), Azad, R. K. (Author), Fall 2020 Texas Branch of the American Society for Microbiology Meeting, Understanding the emergence and evolution of bacteria with multipartite genomes, University of North Texas, Denton, TX, United States of America. (2020 – 2020).

Tamma, S. (Author & Presenter), Gore, S. (Author), Azad, R. K. (Author), UNT Scholars Day, Potential Roles of Proteins with Obscure Features in Cancer, University of North Texas, Denton, TX, United States of America. (2020).

Gore, S. (Author & Presenter), Azad, R. K. (Author), BioDiscovery Institute Meeting, A Unified Deep Learning Network for Pan-Cancer Diagnostics, Denton, TX, United States of America. (2020).

Johnson, S. (Author & Presenter), Azad, R. K. (Author), BioDiscovery Institute Meeting, Comparative resistomics of ancient and modern human microbiomes, Denton, TX, United States of America. (2020).

Sengupta, S. (Author & Presenter), Azad, R. K. (Author), BioDiscovery Institute Meeting, Constraints to Horizontal Gene Transfer, Denton, TX, United States of America. (2020).

Gore, S. (Author & Presenter), Azad, R. K. (Author), TAMEST 2020 Annual Conference, A Unified Deep Learning Network for Pan-Cancer Diagnostics, Dallas, Texas, United States of America. (2020).

Johnson, S. (Author & Presenter), Azad, R. K. (Author), 2019 Annual BioDiscovery Institute Retreat, Comparative resistomics of ancient and modern human microbiomes, University of North Texas, Denton, TX, United States of America. (2019).

Sengupta, S. (Author & Presenter), Azad, R. K. (Author), 2019 Annual BioDiscovery Institute Retreat, Constraints to horizontal gene transfer within human gut microbiome, University of North Texas, Denton, TX, United States of America. (2019).

Azad, R. K. (Author & Presenter), Sengupta, S. (Author & Presenter), The Society for Molecular Biology & Evolution meeting (SMBE 2019), Constraints to horizontal gene transfer, Manchester, UK, United Kingdom. (2019).

Sengupta, S. (Author & Presenter), Authors, (Author), Azad, R. K. (Author), Mittler, R. (Author), The Society for Molecular Biology & Evolution meeting (SMBE 2019), Phylogenetic analysis of the CDGSH iron-sulfur binding domain reveals its ancient origin, Manchester, UK, United Kingdom. (2019).

Johnson, S. (Author & Presenter), Azad, R. K. (Author), Spring 2019 Meeting of the American Society for Microbiology, Comparative resistomics of ancient and modern human microbiomes, New Braunfels, TX, United States of America. (2019).

Sengupta, S. (Author & Presenter), Azad, R. K. (Author), Spring 2019 Meeting of the American Society for Microbiology, Constraints to Horizontal Gene Transfer, New Braunfels, TX, United States of America. (2019).

Singh, U. (Author & Presenter), Argula, T. (Author & Presenter), Burks, D. (Author), Azad, R. K. (Author), Spring 2019 Meeting of the American Society for Microbiology, RNA-Seq for Eukaryotic Microbes: Benchmarking Splice-Aware Alignment and Differential Gene Expression Analysis tools, New Braunfels, TX, United States of America. (2019).

Jani, M. (Author & Presenter), Azad, R. K. (Author), Fall 2017 Texas Branch of the American Society for Microbiology Meeting, CAFE: Compositional Anomaly and Feature Enrichment Assessment for Delineation of Genomic Islands, American Society for Microbiology, Texas A&M University, College Station, TX, United States of America. (2017 – 2017).

Sengupta, S. (Author & Presenter), Jani, M. (Author), Hu, K. (Author), Azad, R. K. (Author), Fall 2017 Texas Branch of the American Society for Microbiology Meeting, Deciphering pathogenicity and antibiotic resistance islands in methicillin resistant Staphylococcus aureus genomes, American Society for Microbiology, Texas A&M University, College Station, TX, United States of America. (2017 – 2017).

Jani, M. (Author & Presenter), Sengupta, S. (Author & Presenter), Hu, K. (Author), Azad, R. K. (Author), Fall 2016 Texas Branch of the American Society for Microbiology Meeting, Deciphering pathogenicity and antibiotic resistance islands in methicillin resistant Staphylococcus aureus genomes through gene clustering, American Society for Microbiology, The University of Texas at Dallas, TX, United States of America. (2016 – 2016).

Pandey, R. (Author & Presenter), Burks, D. (Author), Azad, R. K. (Author), Fall 2016 Texas Branch of the American Society for Microbiology Meeting, Towards more robust metagenome profiling, American Society for Microbiology, The University of Texas at Dallas, TX, United States of America. (2016 – 2016).

Jani, M. (Author & Presenter), Mathee, K. (Author), Azad, R. K. (Author), Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2016), Identification of novel genomic islands in Liverpool epidemic strain of Pseudomonas aeruginosa using segmentation and clustering, International Society for Computational Biology, Orlando, Florida, United States of America. (2016 – 2016).

Pandey, R. (Author & Presenter), Burks, D. (Author), Azad, R. K. (Author), Annual International Conference on Intelligent Systems for Molecular Biology (ISMB 2016), Towards more robust metagenome profiling, International Society for Computational Biology, Orlando, Florida, United States of America. (2016 – 2016).

Burks, D. (Author & Presenter), Azad, R. K. (Author), Southern Section of the American Society of Plant Biologists Annual Meeting, Identification of auxin response factors and generation of a co-expression network in Medicago truncatula, American Society of Plant Biologists, University of North Texas, Denton, TX, United States of America. (2016 – 2016).

Sengupta, S. (Author & Presenter), Wang, X. (Author), Azad, R. K. (Author), Southern Section of the American Society of Plant Biologists Annual Meeting, Phylogenetic analysis of the UDP-glycosyltransferase gene family of Medicago truncatula, American Society of Plant Biologists, University of North Texas, Denton, TX, United States of America. (2016 – 2016).

Jani, M. (Author & Presenter), Veerappan, V. (Author), Azad, R. K. (Author), Dickstein, R. (Author), Southern Section of the American Society of Plant Biologists Annual Meeting, Rapid identification of causative insertions underlying Medicago truncatula Tnt1 mutants defective in symbiotic nitrogen fixation from a forward genetic screen by whole genome sequencing, American Society of Plant Biologists, University of North Texas, Denton, TX, United States of America. (2016 – 2016).

Pandey, R. (Author & Presenter), Burks, D. (Author & Presenter), Azad, R. K. (Author), Fall 2015 Texas Branch of the American Society for Microbiology Meeting, Towards more robust metagenome profiling, American Society for Microbiology, Sam Houston State University, Huntsville, TX, United States of America. (2015 – 2015).

Jani, M. (Author & Presenter), Azad, R. K. (Author), Mathee, K. (Author), Fall 2015 Texas Branch of the American Society for Microbiology Meeting, Whole-genome assembly of multidrug-resistant Pseudomonas aeruginosa isolate, American Society for Microbiology, Sam Houston State University, Huntsville, TX, United States of America. (2015 – 2015).

Saxena, G. (Author & Presenter), Pandey, R. (Author), Brumbley, S. (Author), Azad, R. K. (Author), Algal Biomass Summit, Impact of horizontal gene transfer in the evolution of Galdieria sulphuraria 074W, Algae Biomass Organization, Washington, D.C., United States of America. (2015 – 2015).

Pandey, R. (Author & Presenter), Saxena, G. (Author), Azad, R. K. (Author), Spring 2015 Meeting of the American Society for Microbiology, Impact of horizontal gene transfer in the evolution of Galdieria sulphuraria 074W., American Society for Microbiology, New Braunfels, TX, United States of America. (2015 – 2015).

Jani, M. (Author & Presenter), Azad, R. K. (Author), Spring 2015 Meeting of the American Society for Microbiology, The evolution of antibiotic resistance and virulence in methicillin resistant Staphylococcus aureus, American Society for Microbiology, New Braunfels, TX, United States of America. (2015 – 2015).

Garcia, A. M. (Author & Presenter), Ladage, M. L. (Author), McFarlin, B. K. (Author), Azad, R. K. (Author), Padilla, P. A. (Author), Texas Chapter of ACSM, C.elegans as a diabetes & ischemia model: identification of genetic and cellular changes that modulate the survival of hyperglycemia and oxygen-deprivation, United States of America. (2015).

Project

Anand, S. (Author & Presenter), More, A. (Author & Presenter), Sharma, A. (Author & Presenter), Azad, R. K. (Other), 2017 Siemens Competition in Math, Science and Technology, Identification and characterization of novel genes linked to inflammation-driven lung tumorigenesis in M. musculus via a tested, lightweight RNA sequencing aligner, Siemens Foundation, United States of America. (2017 – 2017).

Contracts, Grants and Sponsored Research

Contract
Azad, R. K., "MBI Early Career Award: Spring 2016- Dynamics of biologically inspired networks," Sponsored by Mathematical Biosciences Institute, The Ohio State University (Through NSF), Federal, $20000 Funded. (January 01, 2016 – May 31, 2016).
Fellowship
Azad, R. K., "Deciphering evolutionary strata and inactivation domains on sex chromosomes," Sponsored by University of North Texas (Junior Faculty Summer Research Fellowship), University of North Texas, $2500 Funded. (June 01, 2013 – August 31, 2013).
Grant - Research
Azad, R. K., Padilla, P. (Principal), Burggren, W. (Co-Principal), "G-RISE at the University of North Texas," Sponsored by National Institutes of Health, Federal, $2500000 Funded. (August 1, 2021 – July 31, 2026).
Lund, A. K. (Principal), Azad, R. K. (Co-Principal), "The Renin-Angiotensin System in Air Pollution-Mediated Exacerbation of Obesity," Sponsored by National Institute of Health (NIH) / National Institute of Environmental Health and Safety (NIEHS), Federal, $437496 Funded. (May 1, 2023 – April 30, 2026).
Xiao, T. (Principal), Ding, J. (Co-Principal), Albert, M. V. (Supporting), Alam, Z. S. (Supporting), Hartmann, F. (Supporting), Wang, Y. (Supporting), Liang, L. (Supporting), Chen, H. (Supporting), Du, J. (Supporting), Azad, R. K. (Supporting), "NSF REU site: Beyond Language: Training to Create and Share Vector Embeddings across Application," Sponsored by NSF, Federal, $403547 Funded. (2023 – 2025).
Azad, R. K. (Co-Principal), Mittler, R. (Principal), "Leaf-to-leaf communication during acclimation to multiple stresses," Sponsored by National Science Foundation, Federal, $1080011 Funded. (August 1, 2019 – July 31, 2024).
Jagadeeswaran, P. (Principal), Azad, R. K. (Co-Principal), "Regulators of von Willebrand Factor Levels," Sponsored by NIH, Federal, $891000 Funded. (July 2021 – June 2024).
Henard, C. A., Azad, R. K., "Characterization of the carbon dioxide starvation response in a promising greenhouse gas mitigation biocatalyst.," Sponsored by BioDiscovery Institute, University of North Texas, $30000 Funded. (June 2023 – May 2024).
Azad, R. K. (Other), Zhao, H. (Principal), Albert, M. (Co-Principal), "REU Site: Interdisciplinary Research Experience on Accelerated Deep Learning through A Hardware-Software Collaborative Approach," Sponsored by National Science Foundation, Federal, $389725 Funded. (June 1, 2021 – May 31, 2024).
Jagadeeswaran, P. (Principal), Azad, R. K. (Co-Principal), "Zebrafish Thrombopoiesis," Sponsored by NIH, Federal, $418980 Funded. (July 2018 – June 2021).
Azad, R. K. (Principal), Padilla, P. A. (Principal), "Molecular consequences of glucose diet and altered ceramide species impacting oxygen deprivation responses," Sponsored by National Institutes of Health, Federal, $445343 Funded. (April 1, 2016 – December 31, 2020).
Azad, R. K. (Co-Principal), Mittler, R. (Principal), "NSF/MCB-BSF: Integrating ROS, redox and cell metabolism across plant and animal cells," Sponsored by National Science Foundation, Federal, $854627 Funded. (August 1, 2016 – July 31, 2020).
Dixon, R. (Principal), Azad, R. K., Chen, F., Boyd, R. R., D'Souza, N. A., "Biosynthesis, regulation and engineering of C-lignin," Sponsored by National Science Foundation, Federal, $833722 Funded. (August 01, 2015 – July 31, 2019).
Azad, R. K. (Co-Principal), Mittler, R. (Principal), Shulaev, V. (Co-Principal), "Ultrafast omics reveals key players in the response of plants to abiotic stress," Sponsored by National Science Foundation, Federal, $720000 Funded. (May 1, 2014 – April 30, 2019).
Uncategorized
Azad, R. K. (Principal), "Unraveling Microbial Communities using Novel Bioinformatics approaches: Taxonomic Profiling and Gene Discovery," Sponsored by Junior Faculty Summer Research Fellowship, University of North Texas, $5000. (2012 – 2012).
Azad, R. K. (Principal), "Detection of structural variants in tumor genomes," Sponsored by Junior Faculty Summer Research Fellowship, University of North Texas, $5000. (2011 – 2011).
Azad, R. K. (Other), "Multi-point and multi-locus analysis of genomic association data," Sponsored by National Institutes of Health, R01 LM008991 J. Li (PI). (2010 – 2011).
Azad, R. K. (Other), "Inferring the Roadmap of Bacterial Gene Transfer," Sponsored by National Institutes of Health, R01 GM078092 J. Lawrence (PI). (2006 – 2010).

Copyrights, Patents

Patent
Gore, S., Azad, R. K., "Compositions and Methods for Cancer Detection and Classification using Neural Networks," (USSN) 62/940,371. Regular, United States, Date of Patent Application: November 2019 –.

Awards and Honors

Early Career Award for Research and Creativity, University of North Texas. (2021 – Present).

Faculty Mentoring Award, American Society for Microbiology, Texas Branch. (2020 – Present).

University of North Texas College of Science Faculty Research Excellence Award, University of North Texas College of Science. (2019 – Present).

Early Career Award, Mathematical Biosciences Institute, Columbus, OH. (2015 – Present).

Service

University Service

Member, Biological Sciences Personnel Affairs Committee (PAC)-I for Professional Faculty. (2023 – Present).

Member, College of Science Personnel Affairs Committee. (2023 – Present).

Member, CS+Math Special Committee. (2023 – Present).

Member, Faculty Search Committee for the Lecturer/Senior Lecturer position in Microbiology-Biochemistry. (2023 – Present).

Member, Microbiology/Microbial Genomics Faculty Search Committee. (2023 – Present).

Member, BioDiscovery Institute Award Committee. (2022 – Present).

Member, Biological Sciences Personnel Affairs Committee. (2022 – Present).

Member, BioDiscovery Institute Faculty Search Committee. (2016 – Present).

Member, College of Arts and Sciences Computing Committee. (2014 – Present).

Member, Biochemistry and Molecular Biology Curriculum Committee. (2012 – Present).

Member, Biochemistry and Molecular Biology Division. (2011 – Present).

Member, Computational/Theoretical Chemistry Faculty Search Committee. (2022 – 2023).

Committee Chair, Applied Math Graduate Program Reform Committee. (2020 – 2023).

Chairperson, Applied Math Qualifying Exam Committee. (2019 – 2023).

Member, Annual Review and Promotion for non-tenure-track Research Faculty Committee. (2021 – 2022).

Member, Biostatistics Clinical Faculty Search Committee. (2021 – 2022).

Member, Microbial Genomics Faculty Search Committee. (2021 – 2022).

Member, BDI Computational Modeling Faculty Search Committee. (2019 – 2020).

Member, Environmental Systems Biology Faculty Search Committee. (2019 – 2020).

Member, Biological Sciences Personnel Affairs Committee. (2018 – 2020).

Member, Applied Math Qualifying Exam Committee. (2018 – 2019).

Chairperson, Biostatistics Faculty Search Committee. (2017 – 2019).

Chairperson, Applied Math Qualifying Exam Committee. (2017 – 2018).

Member, Computational Life Sciences Faculty Search Committee. (2016 – 2017).

Member, Applied Math Qualifying Exam Committee. (2016 – 2016).

Member, Visioning Task Force, Computational Science Institute. (2015 – 2016).

Member, Promotion and Tenure Revision Committee. (2015 – 2015).

Member, Applied Math Qualifying Exam Committee. (2014 – 2015).

Member, Applied Math qualifier exam committee. (2011 – 2013).

Other, Strategic Planning Committee, Math department. (2011 – 2012).

Other, Computational Life Sciences Search Committee. (2011 – 2011).

Professional Service

Editor, Guest Editor, Microorganisms, Special Issue "Microbial Genome Analysis and Interpretation Using Computational Approaches—Second Edition". (2023 – Present).

Reviewer, Journal Article, mSystems. (2023 – Present).

Editor, Guest Editor, Plants, Special Issue "Deciphering Plant Molecular Data Using Computational Methods". (2023 – Present).

Editor, Book, "Transcriptome Data Analysis", Methods in Molecular Biology (Publisher: Springer Nature). (2022 – Present).

Reviewer, Journal Article, Annals of the New York Academy of Sciences. (2022 – Present).

Reviewer, Journal Article, Briefings in Bioinformatics. (2022 – Present).

Editor, Guest Editor, Microorganisms, Special Issue "Microbial Genome Analysis and Interpretation Using Computational Approaches". (2022 – Present).

Reviewer, Journal Article, OMICS: A Journal of Integrative Biology. (2022 – Present).

Editor, Guest Editor, Plants, Special Issue "Bioinformatics Toolkit for Plant Studies". (2022 – Present).

Reviewer, Journal Article, Plant Physiology. (2021 – Present).

Reviewer, Journal Article, G3: Genes | Genomes | Genetics, Genetics Society of America, Pittsburgh. (2018 – Present).

Reviewer, Journal Article, Germs, European Academy of HIV/AIDS and Infectious Diseases, Bucharest, Romania. (2017 – Present).

Reviewer, Journal Article, Computational Biology and Chemistry, Elsevier Science BV, Amsterdam, Netherlands. (2016 – Present).

Reviewer, Journal Article, Journal of Medical Microbiology, Microbiology Society, London, UK. (2016 – Present).

Member, Society for Molecular Biology and Evolution. (2016 – Present).

Reviewer, Journal Article, IEEE Journal of Biomedical and Health Informatics. (2015 – Present).

Reviewer, Journal Article, Biology Direct. (2013 – Present).

Reviewer, Journal Article, BMC Genomics. (2013 – Present).

Reviewer, Journal Article, Evolutionary Bioinformatics. (2013 – Present).

Member, NIH Special Emphasis Panels / Study Sections for Grant Proposal Review. (2013 – Present).

Reviewer, Journal Article, Proceedings of the Royal Society B. (2013 – Present).

Reviewer, Journal Article, Chaos, Solitons & Fractals. (2011 – Present).

Reviewer, Journal Article, Infection, Genetics and Evolution. (2011 – Present).

Reviewer, Journal Article, The European Physical Journal B. (2011 – Present).

Member, International Society for Computational Biology. (2006 – Present).

Reviewer, Journal Article, Nucleic Acids Research, Oxford University Press, Oxford. (2003 – Present).

Member, National Institutes of Health’s Genetic Variation and Evolution Study Section, Bethesda, Maryland. (2018).

Reviewer, Grant Proposal, Office of Research and Sponsored Programs, Sam Houston State University, Huntsville, Texas. (2017).

Other, Special Session on Mathematical and Computational Biology in the American Mathematical Society (AMS) Fall Central Sectional Meeting at the University of North Texas, Denton, Texas, September 9-10, 2017. (2017 – 2017).

Reviewer, Grant Proposal, Czech Science Foundation (Department of Agricultural and Biological/Environmental Sciences). (2016 – 2016).

Session Chair, Session on Microbial Evolution and Bioinformatics, Fall 2015 Texas Branch of the American Society for Microbiology meeting, Oct 29-31, Sam Houston State University, Huntsville, TX. (2015 – 2015).

Awards and Honors

Co-chair, Fall 2020 Texas Branch of the American Society for Microbiology Meeting, American Society for Microbiology, Texas Branch. (2020 – Present).