Research

Soumen Basak

M. Sc.
Calcutta University, Kolkata, India

Ph. D.
Calcutta University, Kolkata, India

Postdoctoral Research   
University of California, San Diego, USA

Email
sobasak@nii.ac.in

 

Research Interest

In a multidisciplinary research program, we aim to characterize regulatory circuitries that enable crosstalk between various immune activating and homeostatic cues using systems biology tools.In sum, we are interested in understanding physiological and patho-physiological consequences of such cross-regulations in the context of

i) bacterial pathogenesis
ii) neoplastic disorders
iii) cell differentiation and tissue and organ development
iv) viral immunity

Group Members

Sachendra Singh Bais, Budhaditya Chatterjee, Meenakshi Chawla, Yashika Ratra, Uday Aditya Sarkar, Manti Kumar Saha, Alvina Deka, Naveen Kumar (PhD student); Vijendra Kumar (Laboratory Technician);

Summary of Research

Mammalian cells receive and process signals from a variety of extra-cellular stimuli those engage “dedicated” signaling pathways to elicit appropriate cellular responses. In physiological settings, however, a variety of different stimuli are often impinged upon a single cell simultaneously activating multiple signaling pathways; thereby generatingthe possibility for crosstalk between these apparently insulated cell-signaling pathways. Our research interest lies in exploring the interplay between these “dedicated” signaling pathways and understanding the implications of such interdependent regulations in physiology and patho-physiology.

In particular, the NF-kappaB signaling system has the remarkable capacity to process signals from a variety of extracellular as well as intracellular cues, those include pathogen derived substances, host-derived cytokines, cell-differentiating and developmental cues, reactive oxygen species or metabolic substances.  The NF-kappaB system receives signals through either the canonical or the non-canonical arms to potentially activate a dozen of transcription factors. In our laboratory, we have considered the pleiotropic NF-kB systemas a potential playerin mediating signaling crosstalk in varied physiological context. In a multidisciplinary research program that combines biochemistry, molecular biology, cell biology, mouse genetics and mathematical modeling, we aim to identify and characterize the crossregulatory elements embedded within the NF-kB system that enable crosstalk between immune activating and homeostatic cues.  By simulating a computational model, we are generating conceptual framework in silicoon plausible crosstalk regulations. Using biochemical assays, such as Immunoblot analysis, EMSA, Real Time PCR etc., and genetic tools, including a panel of knockout cells,we are testing signaling crosstalk ex vivo. Finally, we are examining potential physiological or pathophysiological ramification of pathway crosstalks in vivo in murine model. One long-term objective of our research program is to eventually define connectivities between the NF-kB system and other important immune pathways, such as type-1 IFN system.

Our systems based approach not only promises new mechanistic insights into the dynamic control of immune responses but also has therapeutic importance.  Targeting the proposed crosstalk components in inflammatory diseases and in pathogenesis bears the promise to reduce the devastating side effects that are often associated with the treatment regimes that target signaling hub molecules.

Awards / Fellowships

2003 : Young Scientist Award from the Indian Science Congress Association in the 90th Indian Science Congress held at Bangalore.
2010 : Ramachandran fellowship, National Institute of Immunology, Department of Biotechnology, India.
2010-2015 : Intermediate Fellowship, Wellcome Trust-DBT India Alliance.
2017 : Elected as a member of the Guha Research Conference.
2018 : Received the National Bioscience Award for Career Development in recognition of the research in the area of immunology and cell signaling.

Selected Publications

  • Abdul Ahad, Mathias Stevanin, Shuchi Smita, Gyan P. Mishra, Dheerendra Gupta, Sebastian M. Waszak, Uday Aditya Sarkar, Soumen Basak, Bhawna Gupta, Hans Acha-Orbea, Sunil K. Raghav. NCoR1: putting the brakes on the dendritic cell immune tolerance. (Accepted, iScience)
  • Bais SS, Ratra Y, Khan NA, Pandey R, Kushawaha PK, Tomar S, Medigeshi G, Singh A, Basak S#. Chandipura virus utilizes the pro-survival function of RelA NF-κB for its propagation. # corresponding author, Journal of Virology. 2019 Jun 28; 93(14).
  • Budhadittya Chatterjee, Payel Roy, Uday Aditya Sarkar, Mingming Zhao, Yashika Ratra, Amit Singh, Meenakshi Chawla, Supriyo De, James Gomes,  Ranjan Sen, Soumen Basak#. p100 enforces dynamical control and gene-expression specificity of TNF-induced canonical NF-κB signaling. # corresponding author, *contributed equally, Frontiers in Immunology. 2019 May 7; 10:997.
  • Payel Roy, Uday Aditya Sarkar, Soumen Basak*. NF-kappaB activating pathways in Multiple Myeloma. corresponding author, Biomedicines, 6(2); May 16 2018.
  • Tapas Mukherjee, Budhadittya Chatterjee, Atika Dhar, Sachendra S. Bais, Meenakshi Chawla,  Payel Roy, Anna George, Vineeta Bal, Satyajit Rath, Soumen Basak#. A TNF-p100 pathway subverts LTβR-mediated noncanonical NF-κB signaling and restricts naïve lymphocyte ingress in inflamed secondary lymphoid organs. # corresponding author, EMBO J. 2017 Dec 1;36(23):3501-3516.
  • Budhaditya Chatterjee1,2, *, Balaji Banoth1, *, Bharath Vijayaragavan1, Tapas Mukherjee1, James Gomes2, Soumen Basak1, #. Late-phase synthesis of IκBα insulates the TLR4-activated canonical NF-κB pathway from noncanonical NF-κB signaling in macrophages. # corresponding author, *contributed equally, Science Signaling, 2016 Dec 6, 9 (457):ra 120
  • Payel Roy1, Budhaditya Chatterjee1, Tapas Mukherjee1, Bharath Vijayaragavan1, Balaji Banoth1, Soumen Basak1,#; Non-canonical NFκB mutations reinforce pro-survival TNF response in multiple myeloma through an autoregulatory RelB:p50 NFκB pathway. #corresponding author, Oncogene. 2017 Mar;36(10):1417-1429.
  • Balaji Banoth, Bharath Vijayaragavan, Budhaditya Chatterjee, M.V. R. Prasad, Payel Roy, Soumen Basak#; Stimulus-selective crosstalk via the NF-κB signaling system reinforces innate immune response to alleviate gut infection. eLife, 2015, Apr 23; 4. # corresponding author
  • Rachel Tsui, Jeff Kearns, Candace Lynch, Don Vu, Kim Ngo, Soumen Basak, Gourisankar Ghosh, Alexander Hoffmann., The Rel-NFκB dimer generation module: monomer competition and a function for IκBβ. Nature Communication, 2015 May 7;6:7068. 
  • Almaden JV, Tsui R, Liu YC, Birnbaum H, Shokhirev MN, Ngo KA, Davis-Turak JC, Otero D, Basak S, Rickert RC, Hoffmann A. A Pathway Switch Directs BAFF Signaling to Distinct NFκB Transcription Factors in Maturing and Proliferating B Cells. Cell Reports, 2014 Dec 24;9(6):2098-111.

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