Institute of Bioinformatics

$Infractructure$

Remya Raja, Ph.D.
Young Investigator (DST-Start-up research grant)

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

Education

	Ph.D. in Biotechnology, National Centre for Cell Science, Pune, India, 2013
	M.Sc. in Microbial Gene Technology, Madurai Kamaraj University, Madurai, India, 2005

Positions Held

	Young Investigator (DST-Start-up research grant) , Institute of Bioinformatics, Bangalore, 2016- Present
	Postdoctoral fellow, Institute of Bioinformatics, Bangalore, 2013-2015

Honors and Awards

	Start-up Research Grant for Young Scientist (Department of Science and Technology, India), 2016
	Thermo Global Science Alliance Scholar award, 2014
	Research associateship (Department of Biotechnology, India), 2014
	Maveeran Sundarlingam Endowment Scholarship from Madurai Kamaraj University, 2003-2005

Area of Specialization

	Genomics
	Proteomics
	Cancer Biology
	Cell Signaling

Major research areas

	Phosphoproteomic approaches to investigate tobacco-induced signaling pathways in oral and esophageal cancers
	NGS-based genomic approaches to identify molecular subtypes and actionable targets in gallbladder cancer

Biography

Dr. Remya Raja did her Ph.D. from National Centre for Cell Science, Pune, India. During her Ph.D., she worked on identifying the signaling pathways mediated by osteopontin in breast tumor growth and angiogenesis under hypoxic conditions. She has also studied the role of osteopontin in mediating tumor-macrophage interaction and its role in promoting melanoma growth using knock-out mouse models. At IOB, she is studying the long term effect of tobacco on progression of oral and esophageal cancer. She is also working on genomic analysis of gallbladder cancer to identify targetable driver mutations.

Publications

Research papers: 16; Review articles: 2

2016 (# Publications - 5)

Radhakrishnan, A., Nanjappa, V., Raja, R., Sathe, G., Puttamallesh, V. N., Jain, A. P., Pinto, S. M., Balaji, S. A., Chavan, S., Sahasrabuddhe, N. A., Mathur, P. P., Kumar, M. M., Prasad, T. S. K., Santosh, V., Sukumar, G., Califano, J. A., Rangarajan, A., Sidransky, D., Pandey, A., Gowda, H. and Chatterjee, A. (2016). A dual specificity kinase, DYRK1A, as a potential therapeutic target for head and neck squamous cell carcinoma. Scientific Reports. [PubMed]

Rajagopalan, P., Nanjappa, V., Raja, R. , Jain, A. P., Mangalparthi, K. K., Sathe, G. J., Babu, N., Patel, K., Cavusoglu, N., Soeur, J., Pandey, A., Roy, N., Breton, L., Chatterjee, A., Misra, N. and Gowda, H. (2016). How does chronic cigarette smoke exposure affect human skin? A global proteomics study in primary human keratinocytes. OMICS: A Journal of Integrative Biology. 20, 615-626. [PubMed]

Raja, R., Sahasrabuddhe, N. A., Radhakrishnan, A., Syed, N., Solanki, H. S., Puttamallesh V. N., Balaji S. A., Nanjappa V., Datta, K. K., Babu, N., Renuse, S., Patil, A. H., Izumchenko, E., Prasad, T. S., Chang X., Rangarajan A., Sidransky, D., Pandey, A., Gowda, H., Chatterjee, A. (2016). Chronic exposure to cigarette smoke leads to activation of p21 (RAC1)-activated kinase 6 (PAK6) in non-small cell lung cancer cells. Oncotarget. [PubMed]

Yelamanchi, S. D., Solanki, H. S., Radhakrishnan, A., Balakrishnan, L., Advani, J., Raja, R. , Sahasrabuddhe, N. A., Mathur, P. P., Dutta, P., Prasad, T. S. K., Korbonits, M., Chatterjee, A., Gowda, H., Mukherjee, K. K. (2016). Signaling network map of aryl hydrocarbon receptor. Journal of Cell Communication and Signaling. [PubMed]

Radhakrishnan, A., Nanjappa, V., Raja, R., Sathe, G. J., Chavan, S., Nirujogi, R. S., Patil, A., Solanki, H., Renuse, S., Sahasrabuddhe, N. A., Mathur, P. P., Prasad, T. S. K., Kumar, P., Califano, J. A., Sidransky, D., Pandey, A., Gowda, H. and Chatterjee, A. (2016). Dysregulation of splicing proteins in head and neck squamous cell carcinoma. Cancer Biology and Therapy. 17, 219-248. [PubMed]

2015 (# Publications - 4)

Nanjappa, V., Renuse, S., Raja, R., Syed, N., Sathe, G., Radhakrishnan, A., Subbannayya, Y., Sahasrabuddhe, N. A., Patil, A., Marimuthu, A., Guerrero-Preston, R., Somani, B. L., Nair, B., Prasad, T. S. K., Gowda, H., Califano, J. A., Sidransky, D., Pandey, A. and Chatterjee, A. (2015). Chronic exposure to chewing tobacco induces growth in normal oral cells via overexpression of Stearoyl-CoA desaturase. Cancer Biology and Therapy. 16, 1593-603. [PubMed]

Subbannayya, T., Rojas, P. L., Barbhuiya, M. A., Raja, R., Renuse, S., Sathe, G., Pinto, S. M., Syed, N., Nanjappa, V., Patil, A. H., Garcia, P., Nair, B., Guerrero-Preston, R., Navani, S., Sahasrabuddhe, N. A., Santosh, V., Tiwari, P. K., Prasad, T. S. K., Gowda, H., Sidransky, D., Pandey, A., Roa, J. C. and Chatterjee A. (2015). Macrophage migration inhibitory factor - a therapeutic target in gallbladder cancer. BMC Cancer. 15, 843 [PubMed]

Subbannayya, Y., Syed, N., Barbhuiya, M. A., Raja, R., Marimuthu, A., Sahasrabuddhe, N.,Pinto, S. M., Srikanth, S. M., Renuse, S., Manju, H. C., Zameer. M. A. L., Sharma, J., Kotteazeth, Srikumar., Rajagopalan, S., Waddell, K., Roa, J. C., Kumar, V., Kumar, K.V.V., Prasad, T. S. K., Ramaswamy, G., Kumar, R. V., Pandey, A., Gowda, H. and Chatterjee, A. (2015). Calcium calmodulin dependent kinase kinase 2 - a potential therapeutic target for gastric adenocarcinoma. Cancer Biology and Therapy. 16, 336-45 [PubMed]

Syed, N., Chavan, S., Sahasrabuddhe, N., Renuse, S., Sathe, G., Nanjappa, V.,Radhakrishnan, A., Raja, R., Srinivasan, A., Prasad, T.S.K., Srikumar, K., Gowda H., Santosh, V., Sidransky, D., Califano, J. A., Pandey, A. and Chatterjee, A. (2015). Silencing of high-mobility group box 2 (HMGB2) modulates cisplatin and 5-fluorouracil sensitivity in head and neck squamous cell carcinoma. Proteomics. 15, 383-93. [PubMed]

2014 (# Publications - 5)

Taware, R., Abnave, P., Patil, D., Rajamohanan, P. R., Raja, R., Soundararajan, G., Kundu ,G.C., Kharat, M. K. D., Pai, K. and Ahmed, A. (2014). Trichothecin from endophytic fungus Trichothecium sp. and its anticancer effect on murine melanoma and breast cancer cell lines. Current Biochemical Engineering. 2, 73-80. [PubMed]

Raja, R., Kale, S., Thorat, D., Soundararajan, G., Lohite, K., Mane, A., Karnik, S. and Kundu, G.C. (2014). Hypoxia driven osteopontin contributes to breast tumor progression through modulation of HIF1α mediated VEGF dependent angiogenesis. Oncogene. 33, 2053-2064. [PubMed]

Kale, S., Raja, R., Thorat, D., Soundararajan, G., Patil, T. and Kundu, G.C. (2014). Osteopontin signaling upregulates cyclooxygenase-2 expression in tumor-associated macrophages leading to enhanced angiogenesis and melanoma growth via α9β1 integrin. Oncogene. 33, 2295-2306. [PubMed]

Taware, R. V., Abnave, P. B., Patil, D., Rajamohanan, P. R., Raja, R., Soundararajan, G., Kundu, G. C. and Ahmad, A. (2014). Isolation, purification and characterization of Trichothecinol-A produced by endophytic fungus Trichothecium sp. and its antifungal, anticancer and antimetastatic activities. Sustainable Chemical Processes. 2; 8.

Bandopadhyay, M., Bulbule, A., Butti, R., Chakraborty, G., Ghorpade, P., Ghosh, P., Gorain, M., Kale,S., Kumar, D., Kumar, S., Roy, G., Sharma, P., Shetti, D., Soundararajan, G., Thorat, D., Tomar, D., Nalukurthi, R., Raja, R., Mishra, R., Totakura, S., Yadav, A. and Kundu, G.C. (2014). Osteopontin as a therapeutic target for cancer. Expert Opinion on Therapeutic Targets. 18: 883-895. [PubMed]

2013 (# Publications - 1)

Syed A, Raja R., Kundu G. C., Gambhir S. and Ahmad A. (2013). Extracellular Biosynthesisof Monodispersed Gold Nanoparticles, Their Characterization, Cytotoxicity Assay, Biodistribution and Conjugation with Doxorubicin. Journal of Nanomedicine and Nanotechnology. 4: 156. [PubMed]

2011 (# Publications - 1)

Ahmed, M., Behera, R., Chakraborty, G., Jain, S., Kumar, V., Sharma, P., Bulbule, A., Kale, S., Kumar, S., Mishra, R., Raja, R., Saraswati, S., Kaur, R., Soundararajan, G., Kumar, D., Sanyal, M., Ramdasi, A., Ghosh, P. and Kundu, G. C. (2011). Osteopontin: a potentially important therapeutic target in cancer. Expert Opinion on Therapeutic Targets. 15, 1113-1126. [PubMed]

2008 (# Publications - 2)

Jain, S., Chakraborty, G., Raja, R., Kale, S. and Kundu, G. C. (2008). Prostaglandin E2 regulates tumor angiogenesis in prostate cancer. Cancer Research. 68, 7750-7759. [PubMed]

Chakraborty G., Jain, S., Kale, S., Raja, R., Kumar, S., Mishra, R. and Kundu, G. C. (2008). Curcumin suppresses breast tumor angiogenesis by abrogating osteopontin-induced VEGF expression. Molecular Medicine Reports. 1, 641-646. [PubMed]

Scientific meetings attended

	Poster Presentation - “Role of various splice variants of osteopontin in regulation of VEGF expression and angiogenesis in breast cancer”. 78th Annual Conference of Society of Biological Chemists; Pune, India. 2009.
	Oral presentation - Osteopontin regulates hypoxia inducible factor 1α mediated vascular endothelial growth factor dependent angiogenesis in breast cancer” in the Fourth International Symposium on Translational Research: Recent developments in Cancer prevention; Udaipur, 2011.
	Poster presentation - “Osteopontin contributes to breast tumor progression through modulation of HIF-1 alpha mediated VEGF dependent angiogenesis”. 5th Mayo clinic angiogenesis symposium: Angiogenesis and Tumor microenvironment: basic science to clinical practice; Minneapolis 2012 (Awarded Best Poster).
	Poster Presentation - “Multi-pronged approach to identify potential biomarkers for gastric adenocarcinoma”. In 6th Proteomic Society of India, Indian Institute of Technology, Mumbai, 2014.
	Invited Speaker - “Osteopontin contributes to breast tumor progression through modulation of HIF-1 alpha mediated VEGF dependent angiogenesis” 1st International Conference on Translational Research: From Basic Science to Clinical Application, Bhubaneshwar