Prof. (Dr.) Bimal Kumar Sarkar

About

Prof. (Dr.) Bimal Kumar Sarkar is Professor and Dean (R & D) in Sharda University Agra. He did his Ph.D. from IACS, India, and pursued postdoctoral fellowship at UCLA, USA and National Sun Yat-sen University, Taiwan. He has visited in research positions at NSYSU, Taiwan, Max Planck Institute, Germany, Brano University of Technology, Slovak Technical University, Slovak Academy of Science. He is awardee of the European Fellowship SAIA, and PAEU Fellowship, Taiwan. His research interest is in the Computational Biophysics. He has been invited as Keynote Speaker, Invited Speaker to several National and International Conferences. He had more than 120 articles published in the international peer reviewed journals and conference proceedings.

Experience

37+ Years

Qualification

Ph.D. (IACS), Postdoc (USA, Taiwan)

Award & Recognition

SAIA (European Fellowship), PAEU (Taiwan)

Research

120 articles published in the international peer reviewed journals and conference proceedings.

My research interest is in interdisciplinary work that encompasses biophysical environmental complexity based on computational biophysics. We have examined entropy measures which may provide insights into the complexity and diversity of bio-physical systems.

A work on the environmental stress to seed germination was done earlier based on the analysis of experimental results.

We have investigated Entropy-driven Biophysical system based on Biophysical Computational approaches to understand how Monkeypox virus had spread from African countries to non-African countries during the recent outbreak and the transfer route of the infection.

We describe a novel algorithm for information recovery from DNA sequences by using a digital filter. This work proposes a three-part algorithm to decide the k-mer or q-gram word density.  Employing a finite impulse response (FIR) digital filter and using principal component analysis (PCA) supplemented by the entropy measure, we have analysed the molecular sequence.

We perform canonical correlation analysis as an unsupervised statistical tool to describe HIV-1 integration site as related views of the same semantic object for identifying patterns.

We address the cell signal pathway in the IRS protein cascades which play an important role in the insulin signaling pathway during downstream signal progression. We studied the structural topology in the conserved residues of IRS proteins to understand the surface conservation pattern.

[Ref: “Mapping the Structural Topology of IRS Family Cascades Through Computational Biology”: Chiranjib Chakraborty, C. George Priya Doss, Sanghamitra Bandyopadhyay, Bimal Kumar Sarkar, Cell Biochem Biophys 67 (2013) 1319-1331.

Shannon Entropy Model has been used to DNA quadruple bit streaming via the channel. The signaling architecture network is composed of four components: source (DNA), transmitter (mRNA), receiver (protein), and destination (another protein. The signal has been conveyed to the target protein.

HIGHLIGHTS

§ PAE Fellowship, Taiwan, Enhancement of Micro-MRI resolution.

J. Agric. Food Chem. 2009, 57, 18, 8213–8219.

§ Academic Excellence Program, Taiwan, Application of MRS in detection of Biomarker.

Front Biosci Landmark 2014, 19, 1186-201

§ Study of phonon dispersion, lattice dynamics based on Density Functional Theory.

Physica Scripta, 2014, 89 (7), 075704.

§ NSP European Fellowship, Slovakia, Structure, Mechanical and Thermal Properties of Zr-Al-Nb Alloy.

TMS 2015 144th Annual Meeting & Exhibition, 713-719.

§ SAIA Research Fellowship, Slovak Academy of Science. Investigation of Heat Transfer in the Porous Materials.

§ Molecular sequence study based on bio-inspired Electronic Filter.

nature Scientific reports, 2021, 11 (13701), 1-12.

SELECTED PUBLICATION (S):

• Sarkar, B.K., Bhattacharya, M., Agoramoorthy, G. et al., “Entropy-Driven, Integrative Bioinformatics Approaches Reveal the Recent Transmission of the Monkeypox Virus from Nigeria to Multiple Non-African Countries”, Molecular Biotechnology, 66, 2816–2829 (2024).

• B K Sarkar, C Chakraborty, A R Sharma, G Sharma, J-E Lee, “Determination of k-mer density in a DNA sequence and subsequent cluster formation algorithm based on the application of electronic filter”, Scientific Reports, 11 (Article 13701), 1-12 (2021).

• B K Sarkar, C Chakraborty, A R Sharma, G Sharma, J-E Lee, "Understanding the Molecular Evolution of tiger diversity through DNA barcoding marker ND4 and NADH dehydrogenase complex using computational biology", Genes and Genomics, 43, 759–773 (2021).

• C Chakraborty, A R Sharma, B K Sarkar, G Sharma, J-E Lee, S-S Lee, “The novel strategies for next-generation cancer treatment: miRNA combined with chemotherapeutic agents for the treatment of cancer”, Oncotarget, 9, 10164-10174 (2018).

• PS Deviprasadh, W Madhuri, AS Verma, BK Sarkar, “Photoacoustic Spectroscopic Study of Optical Properties of Cu₂GeTe₃ in Temperature Range from 80 K to 300 K “, Int J Thermophys 37, 50 (2016).

• B K Sarkar, C. Chakraborty, “DNA pattern recognition using canonical correlation algorithm”, Biosciences, 40, 709-719 (2015).

• BK Sarkar, C Chakraborty, AR Sharma, KJ Bae, G Sharma, GP Doss, Novel biomarker for prostate cancer diagnosis by MRS, Front Biosci Landmark 19, 1186-201 (2014).

• BK Sarkar, AS Verma, S Sharma, SK Kundu, First-principles calculations of the structural, phonon and thermal properties of ZnX (X= S, Se, Te) chalcogenides, Physica Scripta 89, 075704 (2014).

• C Chakraborty, CGP Doss, S Bandyopadhyay, BK Sarkar, “Mapping the structural topology of IRS family cascades through computational biology”, Cell Biochemistry and Biophysics 67, 1319-1331 (2013).
• KGS Gopinath, S Pal, P Samui, BK Sarkar, “Support Vector Machine and Relevance Vector Machine for Prediction of Alumina and Pore Volume Fraction in Bioceramics”, J. of Appl. Ceramic Techn 10, E240-E246 (2013).

• BK Sarkar, AS Verma, S Sharma, R Bhandari, VK Jindal, “Elastic properties of chalcopyrite structured solids”, Materials Chemistry and Physics 132, 416-420 (2012).

• C Chakraborty, P Patel, G Agoramoorthy, B K Sarkar, “Information Processing in Network Architecture of Genome Controlled Signal Transduction Circuit: a Proposed Theoretical Explanation”, Theoretical biology forum, 105, 67-75 (2012).

• AS Verma, N Pal, BK Sarkar, R Bhandari, VK Jindal, “Dielectric constants of zinc-blende semiconductors”, Physica Scripta 85, 015705 (2011).

• BK Sarkar, AS Verma, PS Deviprasad, “Temperature induced band gap shrinkage in Cu₂GeSe₃: Role of electron–phonon interaction”, Physica B 406, 2847-2850 (2011).

• BK Sarkar, AS Verma, RC Gupta, K Singh, “Thermal and Optical Properties of Zn_1-xMn _xTe Diluted Magnetic Semiconductor Studied by Photoacoustic Spectroscopic Method”, J. Thermophysics, 31, 620-629 (2010).

• Verma, AS; Sarkar, BK; Jindal, VK; "Inherent properties of binary tetrahedral semiconductors", Physica B, 405, 1737-1739 (2010).

• BK Sarkar, AS Verma, RC Gupta, “Temperature dependence of elastic constants for ionic solids”, Physica B 404, 4106-4110 (2009).

• BK Sarkar, BK Chaudhuri, Photoacoustic Spectroscopic Study of Optical Band Gap of Zn1-xBexSe Semiconductors, Int. J. Thermophysics 26, 295-303 (2005).

• BK Sarkar, AK Ghosh, BK Chaudhuri, “A photoacoustic spectroscopic investigation of the optical energy gap in Zn–Mn–Se type dilute magnetic semiconductors”, Solid state communications 113, 41-45 (1999).

• BK Sarkar, S Chatterjee, RK Mukherjee, BK Chaudhuri, “Photo-acoustic study on the thermal properties of high T c superconducting oxide Bi₆ Pb_0.4Sr₂Ca₂Cu₃O_x”, J. Mat. Sci. Lett. 16, 1499-1502 (1997).

• PK Dey, KK Som, KR Chowdhury, BK Sarkar, BK Chaudhuri, “Heat-capacity anomalies in NaKC₄H₆ O₆⋅4H₂O studied with a conduction-type calorimeter”, Physical Review B 47, 3001 (1993).

INVITED TALK

• “Entropy study to monitor the complexity and health of a forest ecosystem”, Brno University of Technology, Czech Republic, October 25, 2024. (Invited Talk)
• “Entropy to understand the complexity and diversity of forest ecosystems”, Technical University in Zvolen, Slovakia, October 23, 2024. (Invited Talk)
• “Temperature dependence of elastic constants for ionic solids”, Thermophysics2023, Dalešice, Czech Republic, October 3-5, 2023. (Invited Speech)
• “Topological entropy calculations on the molecular sequences”, Thermophysics2022, Dalešice, Czech Republic, October 4-6, 2022. (Invited Speech)
• “DFT Calculations of Thermo-Mechanical Properties Of Be-Chalcogenides”, Thermophysics2021, Dalešice, Czech Republic, September 7-9, 2021. (Keynote Speech)
• “Photoacoustic Spectroscopy: A tool for Optical Properties Study”, Thermophysics2020, Smolenice Castle, Slovak Republic, September 7-9, 2020. (Keynote Speech)
• “Zr-Alloys at high temperature and pressure”, Institute of Physics, Slovak Academy of Sciences, Bratislava, October 29, 2019. (Invited Speech)
• “Pattern recognition analysis to explore molecular sequence”, ICEMP 2018, Prague, June 15-18, 2018. (Keynote Speech & Chairing)
• “Photoacoustic Spectroscopic Application for the Properties of Solids”, NAA2017, Bangkok, January 3-5, 2017. (Invited Speech & Chairing)
• “The study of the thermal and optical properties of smart materials: An application of Photoacoustic Spectroscopy”, ICAEM2016, Jupiter Constanta, Romania, June 29-July 2, 2016. (Keynote Speech & Chairing)
• “Canonical Correlation Analysis in pattern recognition: Application to HIV integration site”, ICEMP 2015, Kuala Lumpur, June 11-12, 2015. (Keynote Speech & Chairing)
• “Photoacoustic Spectroscopy for the investigation of thermal and optical properties of solids”, New Advances in Acoustics (NAA2015), Shanghai, China. January 31 to February 2, 2015.
• “Computational simulation of materials properties”, ICEMP 2014, Hong Kong, June 14-15, 2014. (Keynote Speech & Chairing)
• “Application of DFT in Material Properties Calculation”, ICEMP 2013, Colombo, June 15-16, 2013. (Keynote Speech & Chairing)
• “Photoacoustic Spectroscopy: A tool for the investigation of thermal and optical properties of solids”, Czech Technical University, Prague, Czech Republic, Nov. 3, 2011. (Keynote Speech & Chairing)
• “Diluted Magnetic Semiconductors”, VIT University, Vellore, India, March 11, 2010
• “Progress of Nuclear Magnetic Resonance Micro-imaging: Methodologies and Applications”, LNM Institute of Information Technology, Jaypur, India, Feb. 6-7, 2010. (Keynote Speech)

FOR DETAILED PUBLICATION

Google Scholar: Total Citation 3231, h-index: 21; i10-index: 42

Area of Interest

Computational Biophysics