Dr. Rajeev K. Azad

Highlights: 

Bioinformatics and Computational Biology

Genome evolution, Pathogenomics, Metagenomics

Gene prediction, Structural variation detection, Disease gene identification

 

SELECTED PUBLICATIONS

• Zandalinas SI, Sengupta S, Burks D, Azad RK, Mittler R. Identification and characterization of a core set of ROS wave-associated transcripts involved in the systemic acquired acclimation response of Arabidopsis to excess light. Plant J. 2019; 98(1):126-141.
• Sengupta S, Nechushtai R, Jennings PA, Onuchic JN, Padilla PA, Azad RK, Mittler R. Phylogenetic analysis of the CDGSH iron-sulfur binding domain reveals its ancient origin. Sci Rep. 2018; 8(1):4840.
• Azad RK, Shulaev V. Metabolomics technology and bioinformatics for precision medicine. Brief Bioinform. 2018 Jan 3. doi: 10.1093/bib/bbx170.
• Jani M, Sengupta S, Hu K, Azad RK. Deciphering pathogenicity and antibiotic resistance islands in methicillin-resistant Staphylococcus aureus genomes. Open Biol. 2017; 7(12). pii: 170094.
• Burks DJ, Norris S, Kauffman KM, Joy A, Arevalo P, Azad RK, Wildschutte H. Environmental vibrios represent a source of antagonistic compounds that inhibit pathogenic Vibrio cholerae and Vibrio parahaemolyticus strains. Microbiologyopen. 2017; 6(5).
• Pandey RS, Saxena G, Bhattacharya D, Qiu H, Azad RK. Using complementary approaches to identify trans-domain nuclear gene transfers in the extremophile Galdieria sulphuraria (Rhodophyta). J Phycol. 2017; 53(1):7-11.
• Burks DJ, Azad RK. Identification and Network-Enabled Characterization of Auxin Response Factor Genes in Medicago truncatula. Front Plant Sci. 2016; 7:1857.
• Jani M, Mathee K, Azad RK. Identification of Novel Genomic Islands in Liverpool Epidemic Strain of Pseudomonas aeruginosa Using Segmentation and Clustering. Front Microbiol. 2016; 7:1210.
• Veerappan V, Jani M, Kadel K, Troiani T, Gale R, Mayes T, Shulaev E, Wen J, Mysore KS, Azad RK, Dickstein R. 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. 2016;17:141.
• Pandey RS, Azad RK. Deciphering evolutionary strata on plant sex chromosomes and fungal mating-type chromosomes through compositional segmentation. Plant Mol Biol. 2016; 90(4-5):359-73.
• Garcia AM, Ladage ML, Dumesnil DR, Zaman K, Shulaev V, Azad RK, Padilla PA. Glucose induces sensitivity to oxygen deprivation and modulates insulin/IGF-1 signaling and lipid biosynthesis in Caenorhabditis elegans. Genetics. 2015; 200(1):167-84.
• Ré MA, Azad RK. Generalization of entropy based divergence measures for symbolic sequence analysis. PLoS One. 2014; 9(4):e93532.
• Pandey RS, Wilson Sayres MA, Azad RK. Detecting evolutionary strata on the human X chromosome in the absence of gametologous Y-linked sequences. Genome Biol Evol. 2013; 5(10):1863-71.
• Azad RK, Li J. Interpreting genomic data via entropic dissection. Nucleic Acids Res. 2013; 41(1):e23.
• Azad RK, Lawrence JG. Towards more robust methods of alien gene detection. Nucleic Acids Res. 2011; 39(9):e56.
• Arvey AJ, Azad RK, Raval A, Lawrence JG. Detection of genomic islands via segmental genome heterogeneity. Nucleic Acids Res. 2009; 37(16):5255-66.
• Azad RK, Lawrence JG. Detecting laterally transferred genes: use of entropic clustering methods and genome position. Nucleic Acids Res. 2007; 35(14):4629-39.
• Thakur V, Azad RK, Ramaswamy R. Markov models of genome segmentation. Phys Rev E Stat Nonlin Soft Matter Phys. 2007; 75:011915.
• Azad RK, Lawrence JG. Use of artificial genomes in assessing methods for atypical gene detection. PLoS Comput Biol. 2005; 1(6):e56.
• Azad RK, Borodovsky M. Effects of choice of DNA sequence model structure on gene identification accuracy. Bioinformatics. 2004; 20(7): 993-1005.