Institute of Bioinformatics

$Infractructure$

Renu Verma, Ph.D.
Faculty Scientist and DBT Ramalingaswami Fellow
Adjunct Faculty MAHE, Manipal University

Institute of Bioinformatics
Discoverer Building, International Tech Park, Whitefield
Bangalore - 560 066
E-mail: renuvarma at ibioinformatics dot org
Phone: +91-80-28416140 Fax: +91-80-28416132

Education

	Ph.D. in Biotechonology (Infectious Diseases) from KIIT University and Institute of Bioinformatics, Bangalore, Karnataka, India
	M.Sc. in Biotechnology from Mysore University, Mysore, Karnataka, India

Positions Held

	Faculty Scientist, Institute of Bioinformatics, Bangalore, India, 2023-Present
	Post-Doctoral Fellow (Infectious Diseases), Stanford University School of Medicine, Division of Infectious Diseases & Geographic Medicine, California, USA 2018-2022
	Biotech Consortium India Limited (BCIL) Fellow, Department of Biotechnology, Government of India at Shodaka life Sciences, IBAB, Bangalore, Karnataka, India 2010-2011

Area of Specialization

	Infectious Diseases (Tuberculosis)
	Pharmacogenomics
	qPCR and sequencing-based molecular assay developement

Publications

Research papers: 23

Verma, R.,Ellappan, K., Kempsell, E.K., Joseph, N,M. (2024). Triage test for diagnosis of presumptive pulmonary tuberculosis. The Lancet Global Health. In press.

Verma, R., Patil, S., Zang, N., Martinez, F., Vitorio, M., Santos,A., Wallace, E., Gnanashanmugam, D., Persing, D., Savic, R., Croda, J., Andrews, J. (2021). A rapid pharmacogenomic assay to detect NAT2 polymorphisms and guide isoniazid dosing for tuberculosis treatment. American Journal of Respiratory and Critical Care Medicine. 204(11):1317-1326. [PubMed]

Walter, K.S., Kim, E., Verma, R., Altamirano, J., Leary, S., Carrington, Y.J., Jagannathan, P., Singh, U., Holubar, M., Subramanian, A., Khosla, C., Maldonado, Y., Andrews, J.R. (2023). Challenges in Harnessing Shared Within-Host Severe Acute Respiratory Syndrome Coronavirus 2 Variation for Transmission Inference. Open Forum Infectious Diseases . 7;10(2):ofad001 [PubMed]

Verma, R., Moreira, F.M.F., do Prado Morais, A.O., Walter, K.S., Dos Santos, P.C.P., Kim, E., Soares, T.R., de Araujo, R.C.P., da Silva, B.O., da Silva Santos, A., Croda, J., Andrews, J.R. (2022). Detection of M. tuberculosis in the environment as a tool for identifying high-risk locations for tuberculosis transmission. Science of the Total Environment. 15;843:156970. [PubMed]

Martínez, G., Ratnasiri, K., Chen, H., Jiang, S., Zanley, E., Rustagi, A., Verma R, Andrews, R., Azagury, D., Boyd, J., Nolan, G., Schüuerch, C., Matter, M., Blish, C., Tracey, L., McLaughlin. (2022). S ARS-CoV-2 infection drives an inflammatory response in human adipose tissue through infection of adipocytes and macrophages. Science Translational Medicine. 7;14(674). [PubMed]

Dos Santos, P.C.P., da Silva Santos, A., de Oliveira, R.D., da Silva, B.O., Soares, T.R., Martinez, L, Verma, R., Andrews, J.R., Croda, J. (2022).Pooling Sputum Samples for Efficient Mass Tuberculosis Screening in Prisons. . Clinical Infectious Diseases. 6;74(12):2115-2121. [PubMed]

Natrajan, A., Zlitni, S., Brooks, E., Vance, S., Dahlen, A., Hedlin, H., Park, M., Han, A., Schmidtke, D., Verma, R., Jacobson, K., Parsonnet, J., Bonilla, H., Singh, U., Andrews. J.R., Jagannathan, P., Pinsky, B., Ploeg, K., Bhatt, A. (2015). Hunter syndrome with late age of presentation: clinical description of a case and review of literature. Bio Medical Journal Case Reports. 14(5). [PubMed]

Styczynski, A., Hemlock, C., Hoque, K., Verma, R., LeBoa, C., Bhuiyan, M., Nag, A., Harun, M., Amin, B., Andrews, J.R. (2022). Clinical manifestations of 17 patients affected with mucopolysaccharidosis type VI and eight novel ARSB mutations. American Journal of Medical Genetics A. 164A(6), 1443-1453. [PubMed]

Verma, R., Kim, E., Degner, N., Walter, K., Singh, U., Andrews, J.R.(2021). Assessing impact of ventilation on airborne transmission of SARS-CoV-2: a cross-sectional analysis of naturally ventilated healthcare settings in Bangladesh. BMJ Open. 5;12(4):e055206. [PubMed]

Moreira, F.M.F., Verma, R., Pereira Dos Santos, P.C., Leite, A., da Silva Santos, A., de Araujo, R.C.P., da Silva, B.O., de Sá Queiroz, J.H.F, Persing, D.H., Södersten, E., Gnanashanmugam, D., Khatri, P., Croda, J., Andrews, J.R. (2021). Blood-based host biomarker diagnostics in active case finding for pulmonary tuberculosis: A diagnostic case-control study. The Lancet eClinicalMedicine. 6;33:100776. [PubMed]

Verma R, Kim E, Martinez-Colón GM, Jagannathan P, Rustagi A, Parsonnet J, Bonilla H, Khosla C, Holubar M, Subramanian A, Singh U, Maldonado Y, Blish C, Andrews J.R. (2021). SARS-CoV-2 subgenomic RNA kinetics in longitudinal clinical samples. Open Forum Infectious Diseases. ofab310. [PubMed]

Martinez, L., Verma, R., Croda, J., Horsburgh, C.R. Jr., Walter, K.S., Degner, N., Middelkoop, K., Koch, A., Hermans, S., Warner, D.F., Wood, R., Cobelens, F., Andrews, J.R. (2019). Detection, survival and infectious potential of Mycobacterium tuberculosis in the environment: a review of the evidence and epidemiological implications. European Respiratory Journal. 27;53(6):1802302. [PubMed]

Advani, J., Verma, R., Chatterjee, O., Pachouri, P.K., Upadhyay, P., Singh, R., Yadav, J., Naaz, F., Ravikumar, R., Buggi, S., Suar, M., Gupta, U.D., Pandey, A., Chauhan, D.S., Tripathy, S.P., Gowda, H., Prasad, T.S.K.(2019). Whole Genome Sequencing of Mycobacterium tuberculosis Clinical Isolates From India Reveals Genetic Heterogeneity and Region-Specific Variations That Might Affect Drug Susceptibility Frontiers in Microbiology. 26;10:309. [PubMed]

Advani, J., Verma, R., Chatterjee, O., Devasahayam, Arokia, Balaya, R., Najar, M.A., Ravishankara, N., Suresh, S., Pachori, P.K., Gupta, U.D., Pinto, S.M., Chauhan, D.S., Tripathy, S.P., Gowda, H., Prasad, T.S.K.(2019). Rise of Clinical Microbial Proteogenomics: A Multiomics Approach to Nontuberculous Mycobacterium-The Case of Mycobacterium abscessus UC22. OMICS: A Journal of Integrative Biology. 23(1):1-16. [PubMed]

Pinto, S.M., Verma, R., Advani, J., Chatterjee, O., Patil, A.H., Kapoor, S., Subbannayya, Y., Raja, R., Gandotra, S., Prasad, T.S.K. (2018). Integrated Multi-Omic Analysis of Mycobacterium tuberculosis H37Ra Redefines Virulence Attributes. Frontiers in Microbiology. 19;9:1314. [PubMed]

Verma, R., Pinto, S.M., Patil, A.H., Advani, J., Subba, P., Kumar, M., Sharma, J., Dey, G., Ravikumar, R., Buggi, S., Satishchandra, P., Sharma, K., Suar, M., Tripathy, S.P., Chauhan, D.S., Gowda, H., Pandey, A., Gandotra, S., Prasad, T.S. (2015). Quantitative Proteomic and Phosphoproteomic Analysis of H37Ra and H37Rv Strains of Mycobacterium tuberculosis . Journal of Proteome Research. 7;16(4):1632-1645. [PubMed]

Sharma, K., Verma, R., Advani, J., Chatterjee, O., Solanki, H.S., Sharma, A., Varma, S., Modi, M., Ray, P., Mukherjee, K.K., Sharma, M., Dhillion, M.S., Suar, M., Chatterjee, A., Pandey, A., Prasad, T.S.K., Gowda, H. (2017). Whole Genome Sequencing of Mycobacterium tuberculosis Isolates From Extrapulmonary Sites. . OMICS: A Journal of Integrative Biology 21(7):413-425. [PubMed]

Prasad, T.S., Mohanty, A.K., Kumar, M., Sreenivasamurthy, S.K., Dey, G., Nirujogi, R.S., Pinto, S.M., Madugundu, A.K., Patil, A.H., Advani, J., Manda, S.S., Gupta, M.K., Dwivedi, S.B., Kelkar, D.S., Hall, B., Jiang, X., Peery, A., Rajagopalan, P., Yelamanchi, S.D., Solanki, H.S., Raja, R., Sathe, G.J., Chavan, S., Verma, R., Patel, K.M., Jain, A.P., Syed, N., Datta, K.K., Khan, A.A., Dammalli, M., Jayaram, S., Radhakrishnan, A., Mitchell, C.J., Na, C.H., Kumar, N., Sinnis, P., Sharakhov, I.V., Wang, C., Gowda, H., Tu, Z., Kumar, A., Pandey, A. (2017). Integrating transcriptomic and proteomic data for accurate assembly and annotation of genomes . Genome Research. 27(1):133-144. [PubMed]

Verma, R., Balakrishnan, L., Sharma, K., Khan, A.A., Advani, J., Gowda, H., Tripathy, S.P., Suar, M., Pandey, A., Gandotra, S., Prasad, T.S., Shankar, S. (2016). network map of Interleukin-10 signaling pathway. Journal of Cell Communication and Signaling. 10(1):61-7. [PubMed]

Advani, J., Verma, R., Sharma, K., Chatterjee, O., Solanki, H.S., Sharma, A., Varma, S., Modi, M., Ray, P., Sharma, M., Dhillion, M.S., Pandey, A., Gowda, H., Prasad, T.S.K. (2018). ). Data on whole genome sequencing of extrapulmonary tuberculosis clinical isolates from India. .Data Brief 24;20:617-622. [PubMed]

Prasad, T.S., Verma, R., Kumar, S., Nirujogi, R.S., Sathe, G.J., Madugundu, A.K., Sharma, J., Puttamallesh, V.N., Ganjiwale, A., Myneedu, V.P., Chatterjee, A., Pandey, A., Harsha, H., Narayana, J. (2013). Proteomic analysis of purified protein derivative of Mycobacterium tuberculosis . Clinical Proteomics. 19;10(1):8. [PubMed]

Sandhya, V.K., Raju, R., Verma, R., Advani, J., Sharma, R., Radhakrishnan, A., Nanjappa, V., Narayana, J., Somani, B.L., Mukherjee, K.K., Pandey, A., Christopher, R., Prasad, T.S. (2013). A network map of BDNF/TRKB and BDNF/p75NTR signaling system. Journal of Cell Communication and Signaling. 7(4):301-7. [PubMed]

Bhattacharjee, M., Sharma, R., Goel, R., Balakrishnan, L., Renuse, S., Advani, J., Gupta, S.T., Verma, R., Pinto, S.M., Sekhar, N.R., Nair, B., Prasad, T.S.K., Harsha, H.C., Jois, R., Shankar, S., Pandey, A. (2013). A multilectin affinity approach for comparative glycoprotein profiling of rheumatoid arthritis and spondyloarthropathy.Clinical Proteomics. 6;10(1):11. [PubMed]

Research Support

	Title of Project	Funding Agency	Role
1	Development of a Nanopore-based long read sequencing panel for culture-free detection of drug resistance in Mycobacterium tuberculosis	Indian Council of Medical Research	PI
2	Development of a Nanopore-based sequencing panel to detect host pharmacogenomic markers for personalizing TB treatment	Department of Biotechnology (DBT) Government. of India	PI

Patent Application and Disclosured

	Title of Patent		Granting Agency		Role
1	WO2021188834 - DETECTION OF GENE POLYMORPHISMS, International Application No. PCT/US2021/023029		United States Patent and Trademark application		Inventor

Honors and Awards

	Received Ramalingaswami re-entry Fellowship awarded by Department of Biotechnology (DBT), Government of India. (2023)
	Five-year Scholarship in biotechnology awarded by the Council of Scientific and Industrial Research (CSIR)-UGC, Government of India: All India rank-65. (2011)
	Certificate of qualification: National Eligibility test (NET) for Lectureship in the field of Life Science awarded by CSIR, Government of India. (2011)
	Certificate of qualification: All-India Graduate Aptitude Test in Engineering -GATE, Biotechnology, awarded by Department of Biotechnology (DBT), Government of India (98.3 percentile). All India rank: 225. (2011)
	Fellowship and contingency funds from BCIL (Biotech Consortium India Limited), awarded by Department of Biotechnology (DBT), Government of India. (2010)
	Contingency support awarded by Department of Biotechnology, Government. of India for MSc. dissertation project done at Triesta Sciences (R&D), HCG Hospitals Bangalore.(2009)
	Two years M.Sc. scholarship awarded by Department of Biotechnology (DBT) Government. of India. All India rank: 206 (2008)

Contributions to novel technology development
	Developed a novel GeneXpert cartridge-based point-of-care pharmacogenomic assay to personalize tuberculosis treatment. [PubMed]
	Developed a novel mask sampling tool (impactor) to detect and sequence SARS-CoV-2 in exhaled breath for variant surveillance and disease transmission studies. [PubMed]
	Developed novel molecular viability assays to detect and quantify SARS-CoV-2 subgenomic RNA in longitudinal clinical samples. [PubMed]
	Designed sloppy molecular Beacon probes-based qPCR assays to detect and quantify Mycobacterium tuberculosis from environment as a novel tool to study tuberculosis transmission. [PubMed]
	Developed a targeted Nanopore sequencing-based pharmacogenomic panel to personalize drug dosing in drug sensitive and multi-drug resistant- TB patients. [PubMed]