Research:

Publications:

Patents awarded as principal inventor:
A system and method for analyzing videos of application or function for feature identification of the videos and related application or function.                 [Patent No. 472279 (2023)]
Soumen Roy et al.                                                                

  

https://orcid.org/0000-0002-0417-5751

* Corresponding / Co-corresponding  author

Foreword: special issue on statistical physics and complex systems
Indian Journal of Physics (Springer), 98, 3753-3755 (2024)
Deepak Dhar and Soumen Roy

An ab initio information-theoretic approach to proteins and protein-ligand interactions (2024)
bioRxiv 2024.03.06.583646
Deep Nath, Rajdeep Kaur Grewal, Devrani Mitra and Soumen Roy*

Assessing combinatorial diversity of Aureochrome bZIPs through genome-wide screening
Cells Tissues Organs [Karger], 213, 133-146 (2024) [Invited]    bioRxiv 2022.06.05.494858
Madhurima Khamaru, Deep Nath,  Devrani Mitra* and Soumen Roy*

Network approach to mutagenesis sheds insight on phage resistance in mycobacteria
Bioinformatics [Oxford], 37, 213-220 (2021)        PDF 
Saptarshi Sinha, Sourabh Samaddar, Sujoy Das Gupta and Soumen Roy* 
Summary     Popular coverage in:  Research Matters        Daily Hunt 

Scale-free networks may not necessarily witness cooperation
Euro Physics Letters [EPL], 134, 60002 (2021)        arXiv:2101.01167   
Deep Nath, Saptarshi Sinha and Soumen Roy*

Topology dependent payoffs can lead to escape from prisoner's dilemma
European Physical Journal B, 94, 80 (2021)         arXiv:2006.14593
Saptarshi Sinha, Deep Nath and Soumen Roy*

Mass testing and proactiveness affect epidemic spreading [Invited]
Special issue on "Emerging Trends in Modeling and Analysis of Complex Systems"
Journal of the Indian Institute of Science, 101, 371-380 (2021)       arXiv:2008.10387  
Saptarshi Sinha, Deep Nath and Soumen Roy*

Residue interaction dynamics in Vaucheria aureochrome1 light-oxygen-voltage: Bridging theory and experiments
Proteins: Structure, Function, and Bioinformatics [Wiley], 88, 1660-1674 (2020)
Anwesha Deb, Rajdeep Kaur Grewal, Soumen Roy* and Devrani Mitra*

Modeling phage-bacteria dynamics
Methods in Molecular Biology, 2131, 309-327 (2020) [Springer]
Saptarshi Sinha, Rajdeep Kaur Grewal and Soumen Roy*

A pedestrian review of games on structured populations [Invited review]     PDF

International Journal of Advances in Engineering Sciences and Applied Mathematics [Springer], 11, 138-152 (2019)  
Saptarshi Sinha, Susanta Ghosh and Soumen Roy*

Role of a 19S proteasome subunit - PSMD10 / Gankyrin in neurogenesis of human neuronal progenitor cells
International Journal of Stem Cells, 12, 463-473 (2019)
Indrajit Sahu, Padma Nanaware, Minal Mane,  Soumen Roy*, Prasanna Venkatraman*

Topologically inspired walks on randomly connected landscapes with correlated fitness
Frontiers in Physics [Frontiers] 6: 138 (2018)    PDF 
Rajdeep Kaur Grewal, Saptarshi Sinha and Soumen Roy*

Modeling bacteria-phage interactions and implications for phage therapy
Advances in Applied Microbiology [Academic Press], 103, 103-141 (2018)    
Saptarshi Sinha,  Rajdeep Kaur Grewal and Soumen Roy*

Dynamics of Mycobacteriophage-Mycobacterial host interaction - evidence for secondary mechanisms for host lethality
Applied and Environmental Microbiology [ASM] 82 124-133 (2016)     PDF    Supplementary Information
Sourabh Samaddar, RK Grewal, S Sinha, S Ghosh, Soumen Roy* and Sujoy Das Gupta*
Selected as article of significant interest by Editors for AEM Spotlight

Soumya Jyoti Banerjee, Mohammad Azharuddin, Debanjan Sen, Smruti  Savale, Himadri Datta, Anjan Dasgupta and Soumen Roy*

Slow poisoning and destruction of networks: Edge proximity and its implications for biological and infrastructure networks
Physical Review E [APS] 91 022807 (2015)     arxiv:1409.8268    PDF
Soumya Jyoti Banerjee, Saptarshi Sinha and Soumen Roy*

Mapping networks of light-dark transition in LOV photoreceptors
Bioinformatics [Oxford] 31 3608-3616 (2015)    Supplementary Information
Rajdeep Kaur Grewal, Devrani Mitra and Soumen Roy*

Modeling proteins as residue interaction networks [Invited review]
Protein & peptide letters 22 923-933 (2015) 
Rajdeep Kaur Grewal and Soumen Roy*

Perspectives in systems biology
Editorial for special issue
Systems and Synthetic Biology [Springer] (2014) 8: 1-2    PDF
Soumen Roy*

Efficient scheduling using complex networks
arxiv:1206.2866
Osamu Yamaguchi, Soumen Roy* and Raissa M. D'Souza

Systems biology beyond degree, hubs and scale-free networks: the case for multiple metrics in complex networks
Systems and Synthetic Biology [Springer] (2012)  6: 31-34  arxiv:1205.2318     PDF
Soumen Roy*

Enhanced Thermodynamic efficiency in time asymmetric ratchets
J. Stat. Mech. (2005) P04012    cond-mat/0412303  PDF
Raishma Krishnan,  Soumen Roy* and A. M. Jayannavar

"Allostery and networks" in "Advances in Biology"
Nova, New York, USA (2023)
 Swati Sharma, Deep Nath and Soumen Roy*

"Systems biology in plant cells and their organelles" in "Plant cells and their organelles"
John Wiley & Sons Ltd, UK (2017). Editors: Dashek and Miglani
Rajdeep Kaur Grewal, Saptarshi Sinha and Soumen Roy*
        [Book Review: "Perhaps the most important chapter in this book ...",
          Elizabeth Friar, Crop Science (2017) 57 3360 - 3361 ]

"Complex networks and systems biology" in "Systems and Synthetic Biology"
Springer Netherlands (2015).  Editors: Singh and Dhar
Ushasi Roy, Rajdeep Kaur Grewal and Soumen Roy*

"Networks, metrics and systems biology" in "A systems theoretic approach to systems and synthetic biology I: models and system characterizations"
Springer Netherlands (2014). Editors: Kulkarni, Stan and Raman
Soumen Roy*

Recognition:

• Regular Associate, International Centre for Theoretical Physics (UNESCO), Trieste, Italy, Since 2017
• Academic Editor, PLOS ONE, Since 2018
• Hon. Assoc Editor, Indian Journal of Physics (Springer), Since 2012
• Editor, Special Issue on Statistical Physics and Complex Systems, IJP (Springer), 2024
• Editor, Special Issue Systems and Synthetic Biology, 2014
• Member, SSBRN Task Force, 12'th V-year Plan (2012-2017), Planning Commission, Govt. of India, 2012

Teaching:

Students:

Image	Name	Designation	Department	Campus	Contact number	Email
	Arijit Roy	Junior Research Fellow	Physics	Unified		arijitroy@jcbose.ac.in
	Ramnarayan Bera	Junior Research Fellow	Physics	Unified		ramnarayan97@jcbose.ac.in
	Swati Sharma	Junior Research Fellow	Physics	Unified		swatisharma@jcbose.ac.in

Former:

Former Doctoral Fellows:

	Dr. Saptarshi Sinha Current / next affiliation: Univ. of California, San Diego, USA B. Sc. (Microbiology Hons): St. Xavier's College, Kolkata M. Sc. (Microbiology):University of Pune Ph.D. (Microbiology): University of Calcutta Ph.D. thesis title: Competition and cooperation in microbes
	Dr. Rajdeep Kaur Grewal  Current / next affiliation: Ohio State University, USA B. Sc. (Maths. Hons): Bethune College, Kolkata M. Sc. (Applied Mathematics): University of Calcutta Ph. D. (Applied Mathematics): University of Calcutta Ph.D. thesis title: Studies on Biological Networks
	Dr. Soumya Jyoti Banerjee Current / next affiliation:  TCS Research and Innovation B.Sc. (Maths. Hons): Ramakrishna Mission Vidyamandira, Belur M. Sc. (Applied Mathematics): University of Calcutta Ph. D. (Applied Mathematics): University of Calcutta Ph.D. thesis title: Structural aspects of complex networks and their applications
	Deep Nath Current / next affiliation: Ph.D. Thesis submitted B. Sc. (Physics): Krishnath College, Kalyani University  M. Sc. (Physics): Banaras Hindu University, Varanasi Ph.D. Registration: University of Calcutta (Theoretical Physics) Ph.D. thesis title: Information, games and graphs
	Former Doctoral Fellows supervised as Associate Supervisor:
	Sumana Gop Current / next affiliation: Officer, Indian Railways B. Sc. (Physics): Visva-Bharati University, Santiniketan M. Sc. (Physics): Indian Institute of Technology (IIT), Kharagpur Ph.D. Registration: University of Calcutta (Theoretical Physics) Ph.D. thesis title: Binding mechanism of anti-cancer agents with DNA bases and base pairs using density functional theory

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