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Dr. Amrendra Kumar

Assistant Professor

Dr. Amrendra Kumar is currently working as an Assistant Professor in the Department of Biomedical Sciences, School of Biosciences and Technology. He completed Ph.D. in Bioinformatics (RNA-Seq data analysis to understand the molecular responses of Zea mays silk under fungal-infected conditions) from Pondicherry University in 2024, where his doctoral research focused on the Genes identification and drug design with the help of Bioinformatics tools and AI/ML. To his credit, Dr. Kumar has published more than 8 research papers in reputed national and international journals indexed in Scopus and SCI, with an h-index of 5.

Research Focus

I specialize in gene discovery and bioinformatics, with expertise in analyzing plant and human genome/transcriptome data, regulatory networks, and drug design. His research integrates computational biology, omics data analysis, and structural modeling to address challenges in plant improvement, human health, and therapeutics.

Education

  • PhD, Bioinformatics (2019–2024) – Pondicherry University, India
  • MSc, Bioinformatics (2013–2015) – Central University of South Bihar, India
  • BSc (Hons), Biotechnology (2010–2013)– Magadh University, India

Key Research Areas

Genome & Transcriptome Analysis; MicroRNA Identification & Characterization; Gene Co-expression & Network Biology; Alternative Splicing & Isoform Profiling; Protein–Protein Interactions & Pathway Analysis; Drug Design & Molecular Dynamics

Selected Publications

  • Gürer Ö., Tunçbilek Z., Zontul C., Kutlay A., Kumar A., Jhaa G. (2025). DFT analysis and anticancer activity of plant extracts in colorectal cancer. Pharmaceuticals, 18:943 https://doi.org/10.3390/ph1807094
  • Lakshmi P.T.V., Kumar A., Ajna A.S., Raveendran A.P., Chaudhary A., Shanmugam A., Arunachalam A. (2023). Transcriptome and WGCNA reveal core genes in Musa acuminata under infection and chemical stress. Plant Signal Behav., 18(1):2269675. https://doi.org/10.1080/15592324.2023.2269675
  • Kumar A., Kanak R.K., Arunachalam A., Dass R.S., Lakshmi P.T.V. (2022). Transcriptome profiling and WGCNA reveal core genes in maize silks infected by fungi. Front. Plant Sci., 13. https://doi.org/10.3389/fpls.2022.985396
  • Verma, Rahul K., Sanjay K. Chetia, Vinay Sharma, Kamalakshi Devi, Amarendra Kumar, and Mahendra K. Modi. "Identification and characterization of genes for drought tolerance in upland rice cultivar ‘Banglami’of North East India." Molecular Biology Reports (2022): 1-9. https://doi.org/10.1007/s11033-022-07859-3
  • Roy, Abhijeet, Barsha Kalita, Aiswarya Jayaprakash, Amrendra Kumar, and P. T. V. Lakshmi. "Computational identification and characterization of vascular wilt pathogen (Fusarium oxysporum f. sp. lycopersici) CAZymes in tomato xylem sap." JBSD(2022): 1-17. https://doi.org/10.1080/07391102.2022.2067236
  • Kakoti M., Hazarika D.J., Kumar A., Barooah M., Modi M.K., Bhattacharyya A., Boro R.C. (2021). Genetic diversity and DNA barcoding of wild mushrooms from Northeast India. Iran. J. Sci. Technol. A Sci., 45(2): 469–479.https://doi.org/10.1007/s40995-021-01067-7
  • Mahalle M.D., Dey P.C., Chetia S.K., Baruah A.R., Ahmed T., Sarma R.N., Kaldate R.C., Kumar A., Singh S.K., Modi M.K. (2020). Association mapping for yield traits under drought stress in autumn rice germplasm of Assam. J. Plant Biochem. Biotechnol., 29: 1–11.https://doi.org/10.1007/s13562-020-00559-8
  • Singh S., Kumar A., Panda D., Modi M.K., Sen P. (2020). Identification and characterization of drought-responsive miRNAs in a tolerant rice genotype of Assam. Plant Gene, 21:100213.https://doi.org/10.1016/j.plgene.2019.100213

Work experience

  • August 2024 - August 2025, Assistant Professor, Department of Bioinformatics, Allied Medical Sciences and Technology, NIMS University, Jaipur, India
  • Jan 2017 – July 2019 – Junior/ Senior Research Fellow (JRF/SRF), Department of Agricultural Biotechnology & DIC, Assam Agricultural University, Jorhat, Assam, INDIA.
  • Oct 2015 – Apr 2016 – Trainee at Sandor Lifesciences Private Limited, Hyderabad, sponsored by Biotech Industrial Training Program, Biotech Consortium India Limited, Department of Biotechnology, INDIA.

 Research Skills and Bioinformatics Tools

Seurat/Scanpy, scran, Fastqc, Trimmomatic, Scanorama, Cutadapt, HISAT2, NGS QC Tool kit, SPADes, SOAPDenovo, Trinity, Bowtie2, TopHat, DESeq2, EdgeR, LIMMA, SVM, Randomforest, scMAP, CellChatDB, Monocle, WGCNA, rMATS2, RSEM, StringTie, PLEK, CPC2, CNCI, Harmony, FEElnc, SAMtools. ShinyGO, Swiss-Prot, UniProt, String DB, Cytoscape, KEGG, BRENDA, WikiPathways. agriGo, GOEAST, DAVID, BLAST, FASTA, ClustalW, MEGA, UCSC Genome Browser, Galaxy Web Service, NCBI Map Viewer, Ensembl, plant Ensembl, AlphaFold, PyMol, Chimera, Gromacs, Modeller, AI/ML.

Computational skills: Linux (Ubuntu, CentOS) and Windows. Programming Language: C and R. Scripting Language: Perl, Awk, Sed, Shell Scripting.

Patents

Edible coating composition for extending the shelf life of fruits & vegetables (Published: July 2025)

Certification

  • Delivered 5+ oral presentations at national and international conferences.
  • Presented 10+ posters at national and international conferences.
  • Received 3 Appreciation Certificates for research contributions and presentations