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DEPARTMENT OF BIOTECHNOLOGY
All India Institute of Medical Sciences (AIIMS),
Ansari Nagar, New Delhi-110029, India


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Dr. Bhupendra Kumar Verma


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Present affiliation:

Associate Professor,
Department of Biotechnology,
All India Institute of Medical Sciences (AIIMS),
Ansari Nagar,
New Delhi-110029


Email ID: bverma@gmail.com, bverma@aiims.edu


Phone(O): +91-11-26593617


Lab Website: Dr. Bhupendra Kumar Verma


Teaching and Research Experience:  


Education:

- PhD. Indian Institute of Science, Bangalore, India, 2010
- MSc (Microbiology)  Maharshi Dayanand Saraswati University, Ajmer, India, 2002


Research:

15 years of research experience in the field of Molecular Biology, Virology, Post-transcriptional Gene regulation, RNA splicing etc.


Research Focus: Dengue Virus-host interaction, non-coding RNAs, Alternate Splicing


  1. Characterization of the non-coding RNA interactome in DENV pathophysiology:
    The global burden of dengue infection poses significant challenges in terms of medical treatment options, as there is a lack of effective therapeutic regimens. This highlights the need to expand our knowledge and deepen our mechanistic understanding of dengue infection in order to develop better strategies for its management. Upon viral infection, multiple signaling cascades are activated, leading to the secretion of various molecules to combat the infection. RNases are among the molecules activated upon infection. Several studies have shown modulation of RNases upon DENV infection. RNases are primarily involved in maintaining RNA homeostasis inside a cell under stressed conditions. They also act upon different RNAs, such as mRNA, tRNA, and rRNA, to generate various non-coding RNAs (ncRNAs). We aim to characterize ncRNA generation during DENV pathogenesis.


  2. Modulation of gene regulatory networks in DENV pathophysiology:
    Although a great deal has been learned about the DENV biology in last decade, there are many regulatory networks of viral-host interactions which are yet to be known. In our lab, we are focusing to map novel regulatory posttranscriptional gene regulation circuits perturbed during pathogenesis of DENV. This will help us to understand how virus manipulates host gene regulation during course of infection and can we target this interaction for therapeutic purpose or as biomarker for severity of disease.


Collaborations

1- Juvenile Nasopharyngeal Angiofibroma: Pathophysiology and Molecular Mechanisms (Department of Otorhinolaryngology, AIIMS, New Delhi):

Juvenile Nasopharyngeal Angiofibroma (JNA) is a benign yet rapidly expanding neoplasm within the posterior nasal cavity and nasopharynx, posing a potentially life-threatening risk due to severe hemorrhage. JNA primarily occurs sporadically and commonly manifests with symptoms such as nasal obstruction, epistaxis (nosebleeds), and related complications due to its location. The molecular and genetic understanding of JNA is still evolving, but research has shed light on certain molecular and genetic factors that may contribute to the development of this rare tumor. We aim to functionally characterize the mutational spectrum and roles of various non-coding RNAs involved in JNA pathogenesis.

2- Characterizing mutations in Indian AT patients (Division of Genetics, Department of Paediatrics, AIIMS, New Delhi):

Ataxia telangiectasia is an autosomal recessive, rare inherited childhood neurological disorder characterized by progressive neurological impairment and cerebellar ataxia. It is caused by mutations in the ATM gene (ataxia telangiectasia mutated). Here, we are characterizing Indian AT patients in terms of their effects on pre-mRNA splicing, NMD decay of mRNA, etc., and aiming to target these mutations with ASO therapy.



Publications: 


Google Scholar ID: https://scholar.google.com/citations?user=VkkZ9xAAAAAJ&hl=en
Scopus ID: https://orcid.org/0000-0003-1731-5335

  1. Madhry D, Roy R, Verma B. Biotin-Based Northern Blotting (BiNoB): A Cost-Efficient Alternative for Detection of Small RNAs. Current Protocols. Dec;4(12):e70065.

  2. Madhry, D., Kumari, K., Meena, V., Roy, R., & Verma, B. (2024). Unravelling tRNA Fragments in DENV Pathogenesis: Insights from RNA Sequencing. Scientific Reports, 14(1), 18357.
    DOI: https://doi.org/10.1038/s41598-024-69391-7

  3. Sinha, S., Singh, K., Ravi Kumar, Y.S., Roy, R., Phadnis, S., Meena, V., Bhattacharyya, S. and Verma, B. (2024). Dengue virus pathogenesis and host molecular machineries. Journal of Biomedical Science, 31(1), p.43.
    DOI: https://doi.org/10.1186/s12929-024-01030-9

  4. Kumari, K., Afroj, S., Madhry, D., Verma, Y., Kairo, A, K., Thakar, A., Sikka, K., Verma, H., & Verma, B. (2024). Comprehensive Analysis of Juvenile Nasopharyngeal Angiofibromas via Whole Exome Sequencing. Genes, Chromosome and Cancer,
    DOI: 10.1002/gcc.23265. DOI: https://doi.org/10.1002/gcc.23265

  5. Basu, V., Shabnam., Murghai, Y., Ali, M., Sahu, S., Verma, B. K., & Seervi, M. (2024). ONC212, alone or in synergistic conjunction with Navitoclax (ABT-263), promotes cancer cell apoptosis via unconventional mitochondrial-independent caspase-3 activation. Cell Communication and Signaling , 22(1), 1-20. DOI: https://doi.org/10.1186/s12964-024-01817-1

  6. Sankar, A., Ravi Kumar Y,S., Singh, A., Roy, R., Shukla, R., & Verma, B. (2024). Next-Generation Therapeutics for Rare Genetic Disorders. Mutagenesis, 39(1), 157-171.
    DOI: https://doi.org/10.1093/mutage/geae002

  7. Madhry, D., Malvankar, S., Phadnis, S., Srivastava, R. K., Bhattacharyya, S., & Verma, B. (2023). Synergistic correlation between host angiogenin and Dengue virus replication. RNA biology, 20(1), 805-816.
    DOI: https://doi.org/10.1080/15476286.2023.2264003

  8. Malvankar, S., Singh, A., Ravi Kumar Y,S., Sahu, S., Shah, M., Murghai, Y., Seervi, M., Srivastava, R, K., & Verma, B. (2023). Modulation of various host cellular machinery during COVID-19 infection Reviews in Medical Virology, e2481.
    DOI: https://doi.org/10.1002/rmv.2481

  9. Singh, A., Pandey, K.K., Kumar, S., Srivastava, R. K., & Verma, B. (2023). The SARS CoV-2 UTR’s Intrudes host RBPs and Modulates Cellular Splicing Advances in Virology. Apr 5;2023.
    DOI: https://doi.org/10.1155/2023/2995443

  10. Rai S, Bharti PS, Singh R, Rastogi S, Rani K, Sharma V, Gorai PK, Rani N, Verma BK , Reddy TJ, Modi GP, Inampudi KK, Pandey HC, Yadac S, Rajan R, Nikolajeff F, and Kumar S.(2023) Circulating plasma miR-23b-3p as a biomarker target for idiopathic Parkinson's disease: comparison with small extracellular vesicle miRNA. Frontiers in Neuroscience. 2023;17.
    DOI: https://doi.org/10.3389/fnins.2023.1174951

  11. Singh, A., Malvankar, S., Kumar, Y. R., Seervi, M., Srivastava, R. K., & Verma, B. (2022). Role of various non-coding RNAs in EMT, cancer, and metastasis: Recent trends and future perspective. Advances in Cancer Biology-Metastasis, 100039.
    DOI: https://doi.org/10.1016/j.adcanc.2022.100039

  12. Siddappa, R. Y., Aditya Rao, S. J., Usha, B. M., Verma, B., & Mahadevappa, P. (2022). Anti-proliferative Activity of Labdane Diterpenes Isolated from Polyalthia cerasoides and their Molecular Interaction Studies. Current Drug Discovery Technologies, 19(5), 78-85.
    DOI: https://doi.org/10.2174/1570163819666220511154837

  13. Bhardwaj, A., Sapra, L., Saini, C., Azam, Z., Mishra, P.K., Verma, B.,Mishra GC, Srivastava R.K. (2022). COVID-19: immunology, immunopathogenesis and potential therapies. International reviews of immunology 2022 Feb 21;41(2):171-206
    DOI: 10.1080/08830185.2021.1883600

  14. Pandey, K.K., Madhry, D., Ravi Kumar Y.S., Malvankar, S., Sapra, L., Srivastava, R., Bhattacharyya, S., and Verma, B (2021). Regulatory roles of tRNA-derived RNA fragments in human pathophysiology. Molecular Therapy- Nucleic Acids, 26, 161-173.
    DOI: https://doi.org/10.1016/j.omtn.2021.06.023

  15. Madhrey, D., Pandey, K,K., Kaur, J., Rawat, Y., Sapra, Y., Ravikumar Y. S., Srivastava, R., Bhattacharyya, S., and Verma, B (2021). Role of non-coding RNAs in Dengue virus-host interaction. Frontiers in Bioscience. 13 (1), 44–55.
    DOI: https://doi.org/10.52586/S552

  16. Sapra, L., Bhardwaj, A., Azam, Z., Madhry, D., Verma, B., Rathore S, Srivastava RK. (2021). Phytotherapy for treatment of cytokine storm in COVID-19. Frontiers In Bioscience, Landmark.. 2021 Apr 30;26(5):51-75
    DOI: https://doi.org/10.52586/4924

  17. Verma, B., Akinyi, M., Norppa, A., and Frilander, M. J. (2018). Minor splicing and diseases. Seminar in Cell and Developmental Biology, 79, 103-112.
    DOI: https://doi.org/10.1016/j.semcdb.2017.09.036

  18. Norppa, A., Kauppala, T.M., Heikkinen, H.A., Verma B, Iwai, H. and Frilander, M. J. (2018). Mutations in the U11/U12-65K protein associated with isolated growth hormone deficiency lead to structural destabilization and impaired binding of U12 snRNA. RNA, 24(3), 396-409.
    DOI: 10.1261/rna.062844.117

  19. Verbeeren, J., Verma, B., Niemela, EH., Yap, K., Makeyev, EV., and Frilander, MJ. (2017) Alternate 3’-terminal exon definition events control the choice between retention of U11/U12-65K mRNA in the nucleus and its export to the cytoplasm. PLOS Genetics. 13, e1006824.
    DOI: https://doi.org/10.1371/journal.pgen.1006824

  20. Argente, J., Flores, R., Gutiérrez-Arumí, A≠., Verma, B≠., Martos-Moreno, G.A., Cuscó, I., Oghabian, A., Chowen, J.A., Frilander, M.J., and Pérez-Jurado, L.A. (2014). Defective minor spliceosome mRNA processing results in isolated familial growth hormone deficiency. EMBO Molecular Medicine. 6 (3), 299-306.
    DOI: https://doi.org/10.1002/emmm.201303573
    (≠ Equal contribution).

  21. Turunen, J. J., Verma, B., Nyman, T. A., & Frilander, M. J. (2013). HnRNPH1/H2, U1 snRNP, and U11 snRNP cooperate to regulate the stability of the U11-48K pre-mRNA. RNA, 19(3), 380-389.
    DOI: 10.1261/rna.036715.112

  22. Turunen, J. J., Niemelä, E. H., Verma, B., & Frilander, M. J. (2013). The significant other: splicing by the minor spliceosome. Wiley Interdisciplinary Reviews: RNA, 4(1), 61-76.
    DOI: 10.1002/wrna.1141

  23. Verma, B., Ponnuswamy, A., Gnanasundram, S.V. and Das, S. (2011). Cryptic AUG is important for 48S ribosomal assembly during internal initiation of Coxsackievirus B3 RNA. Journal of General Virology. 92, 2310 - 2319.
    DOI: https://doi.org/10.1099/vir.0.032151-0

  24. Verma, B., Bhattacharyya, S. and Das, S. (2010). Polypyrimidine tract binding protein interacts with Coxsackievirus B3 RNA and influences its translation. Journal of General Virology. 91, 1245-1255.
    DOI: https://doi.org/10.1099/vir.0.018507-0

  25. Bhattacharyya, S1.,Verma, B1., Pandey, G. and Das, S. (2008). The structure and function of a cis-acting element located upstream of the IRES that influences Coxsackievirus B3 RNA translation. Virology. 377(2):345-354 (Joint first author).
    DOI: https://doi.org/10.1016/j.virol.2008.04.019



I am open to discussing and supporting self-motivated, diligent, and talented candidates who are seeking Post-doctoral fellowships or scientist positions funded by agencies such as DBT/DST and ICMR. Prospective candidates are encouraged to reach out via email, providing a 1-page write-up, CV, and three references.



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