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Sangeeta

Prime Minister's Research Fellow
School of Computational &Integrative Sciences,
Jawaharlal Nehru University
New Delhi.

About Me

I am currently a research scholar under Prime Minister's Research Fellow (PMRF) scheme at Jawaharlal Nehru University, New Delhi advised by Dr. Arnab Bhattacherjee. My research is centered around the interaction between protein and Deoxyribonucleic acid (DNA) molecules, especially addressing the biophysical aspects of cellular transport and trafficking of proteins on DNA track. This aims to understand the role of single stranded DNA binding proteins in its association with ssDNA and the role of DNA conformational dynamics in protein diffusion in different genetic processes, for example, DNA replication, recombination and repair.

  • Education

    Jawaharlal Nehru University, New Delhi
    Prime Minister's Research Fellow (PMRF)
    Ph.D. (Computational Biology)
    Supervisor: Dr. Arnab Bhattacherjee
    July 2019 - Present

    University of Delhi, New Delhi
    Masters in Science,
    Physical Chemistry Specialization
    July 2016 - June 2018
     
    University of Delhi, New Delhi
    Bachelors in Science
    Chemistry Honours
    July 2013 - June 2016

    Research Experience

    July, 2018 - June, 2019
    Project Assistant, Jawaharlal Nehru University.
    Project title “Understanding the role of DNA flexibility in Protein-DNA recognitions”.
    Supervised by: Dr. Arnab Bhattacherjee, School of Computational & Integrative Sciences.

    July, 2017 - May, 2018
    Masters Dissertation, University of Delhi.
    Dissertation title “Polymeric Nanoparticles in Cancer Therapy”.
    Supervised by: Prof. Indrajit Roy, Department of Chemistry. 

    September, 2015 - May, 2016
    Project Assistant, University of Delhi.
    Innovation project KC-302 title "Microbial Fuel Cell: An efficient benign set up for Electrochemical Cell for removing of impurities from laboratory generated waste water".
    Supervised by: Dr. Tarkeshwar (Department of Zoology, Kalindi College, University of Delhi) and Dr. Amit Kumar (Department of Chemistry, Jamia Millia Islamia University).

    Research

    Broad Research Area: Protein-Nucleic Acid interaction.

  • Publications

    2024:

    1. Sangeeta and Arnab Bhattacherjee*, "Exploring the protein-ssDNA binding specificity through computational ssDNA screening using Multisequence Hybrid Monte Carlo approach" manuscript is under preparation, 2024.
    2. Babita Bisht, Sangeeta, Pinki Dey, Praveen Kujur, Avinash Singh, Shahnoor Ali, Sandeep, Sanjay Pant, Rana P. Singh, Mohan S. Mahata, "Insight into mechanism of non-radiative energy transfer via DY8-BSA complex: In vitro cytotoxicity studies" communicated, 2024.
    3. Sangeeta and Arnab Bhattacherjee*, “Nick Induced Dynamics in Supercoiled DNA Facilitates Protein Target Search Process”, The Journal of Physical Chemistry B, 128(34):8246-8258, 2024.
    4. Sangeeta, Sujeet Kumar Mishra and Arnab Bhattacherjee*, “Role of shape deformation of DNA binding sites in regulating the efficiency and specificity in their recognition by DNA binding proteins”, JACS Au, 4(7):2640-2655, 2024.
    5. Sangeeta#, Shrawan Kumar Choudhary#, Pinki Dey, and Arnab Bhattacherjee*, “Modeling Facilitated Diffusion of Proteins in Crowded Environment”, accepted, Springer, 2024 (Book Chapter).
      (#These authors contributed equally).
    6. Sujeet Kumar Mishra, Sangeeta, Dieter W. Heermann and Arnab Bhattacherjee*, “The Role of Nucleotide Opening Dynamics in Facilitated Target Search by DNA-Repair Proteins”, BBA - Gene Regulatory Mechanisms, 1867(2):195026, 2024.
    7. Sumiran Kumar Gurung, Sangeeta, Priyanka Dubey, Abhik Saha, Fatima Akhtar, Arnab Bhattacherjee* and Suman Kumar Dhar*, "Unusual weak and delayed GTPase activity of FtsZ from human pathogenic bacteria Helicobacter pylori", The Journal of Biochemistry, 175(4):405–417, 2024.

      2023:
    8. Sangeeta, Arnab Bhattacherjee*, "Unraveling the molecular basis of protein search on ssDNA track and binding specificity of the ssDNA sequences", Biophysical Journal, 122(3), SUPPLEMENT 1, 215a, 2023 (Conference Abstract).
    9. Sangeeta, Arnab Bhattacherjee*, "Interdomain dynamics in human Replication Protein A regulates kinetics and thermodynamics of its binding to ssDNA", PLoS ONE, 18(1):e0278396, 2023.
    10. Sangeeta, Shipli Khurana, Amit Kumar. “Translational transport of e-waste and implications on human well beings and the environment", Elsevier, 2022, 125-142 (Book Chapter).

      2022:
    11. Anupam Mondal, Sangeeta, Arnab Bhattacherjee*, "Torsional behaviour of supercoiled DNA regulates protein-DNA recognition". Nucleic Acids Research, 50(12): 6671-6686, 2022.

      2021:

    12. Sangeeta, Poorna Khanna, Kapinder, Tarkeshwar, Amit Kumar, "Microbial fuel cell: a greener way to protect the environment", Academic Press, 2021, 575-584 (Book Chapter).
    13. Pinki Dey, Sangeeta, Review of: "Impact of crowded environments on binding between protein and single-stranded DNA", Qeios, CC-BY 4.0, 2021, https://doi.org/10.32388/9D6S2W (Qeios Review).

    Teaching

    • Taught “Science” at Kendriya Vidyalaya, New Mehrauli Road, J.N.U, Old JNU Campus, New Delhi (April 2024 - July 2024).
    • Taught “Chemistry” at Department of Chemistry, Jamia Millia Islamia (A Central University), New Delhi (April 2023 - March 2024).
    • Taught “Chemistry” to undergraduate students at Ramjas College, University of Delhi (April 2022 - March 2023).
    • Taught “Research Writing and Communication Skill Management Course” at Hansraj College, University of Delhi (September 2021 - March 2022).

    Supervisor

    Image
    Dr. Arnab Bhattacherjee

  • Associate Professor
    School of Computational and Integrative Sciences,
    Jawaharlal Nehru University, India

    Email: arnab@jnu.ac.in

    Dr. Arnab Bhattacherjee is currently working as an Associate Professor in the School of Computational & Integrative Sciences at Jawaharlal Nehru University, New Delhi.

    Dr. Arnab Bhattacherjee's broad area of interest is to decipher the molecular details of protein folding, dynamics and interactions with other biomolecules such as protein/peptide/nucleic acids that have long term implications for combating medical conditions such as Creuzfeld-Jacob (Mad Cow disease), Alzheimer’s, and cancer.     He primarily adopts theoretical and different molecular simulation techniques at various levels of complexity to adress the problems. On a recent note, he has started investigating the mechanism and biophysics of different molecular motors and nanomachines from a system perspective. 

    Ph.D. Course Work

    S.N.

    COURSE NAME

    CREDITS

    GRADE

    1

    RESEARCH METHODOLOGY

    3.0

    A PLUS

    2

    BIOMOLECULAR SIMULATION THEORY AND APPLICATION (BIOSIMULATION)

    3.0

    A PLUS

    3

    NUMERICAL TECHNIQUES AND PROGRAMMING LAB

    3.0

    A PLUS

    4

    READING COURSE

    2.0

    A ONLY

  • Conferences & Workshops

    • Poster Presentation at IUPAB Congress 2024 held at Kyoto International Conference Centre, Kyoto, Japan (June, 2024).
    • Poster Presentation at Physical Chemistry Symposium - 2023 (SoPhyC-2023) organized by Society of Physical Chemistry (SoPhyC) and Department of Chemistry, IIT Kanpur (October, 2023) (Won CHPHI Elsevier Award for best poster presentation).
    • Oral Presentation at 4th Annual Ph.D. Symposium held at School of Computational & Inetgrative Sciences, Jawaharlal Nehru University, New Delhi (October, 2023) (Won Best Oral Presentation Award).
    • Review Presentation entitled "Molecular Trafficking on DNA: How Computers Can Help to Break Transcription Code" under Prime Minister Research Fellowship (PMRF) Review 2023 (June 2023).
    • Poster Presentation at Biophysical Society (BPS) Annual Meeting 2023 held at San Diego Convention Center, San Diego, United State of America (February, 2023).
    • Student Talk at Molecular Simulation: Focus on Method held at Tata Institute of Fundamental Research, Hyderabad, India (December, 2022).
    • Short Talk at Statistical Biological Physics: From Single Molecule to Cell Program held at International Centre for Theoretical Sciences, Tata Institute of Fundamental Research, Bengaluru, India (October, 2022).
    • Flash Talk and Poster Presentation at India | EMBO Lecture Course Functional nucleic acids: Recent landscapes and therapeutic applications held at Regional Centre of Biotechnology, Faridabad, India in the hybrid mode (August, 2022).
    • Review Presentation entitled "Molecular Trafficking on DNA: How Computers Can Help to Break Transcription Code" under Prime Minister Research Fellowship (PMRF) Review 2022 (May, 2022).
    • E-Poster Presentation at the Conference IBS−2022 Conceptual Advances in Biophysics and its Applications held at ACTREC, Tata Memorial Centre, Navi Mumbai in the hybrid mode (March, 2022).
    • Review Presentation entitled "Shielding ssDNA and maintain Genomic Integrity: How do cells achieve that??" under Prime Minister Research Fellowship (PMRF) Review 2021 (December, 2021).
    • Participated in the Conference SMCB – 2021 Statistical Mechanics in Chemistry and Biology (2021).
    • Participated in the International Conference on MSMM’21 (ONLINE) Multiscale Simulation & Mathematical Modelling of Complex Biological Systems organized by Jawaharlal Nehru University, New Delhi (March, 2021).
    • Participated in International Conference, ICTS program, on Statistical Biological Physics: From Single Molecule to Cell (Online) organized by Tata Institute of Fundamental Research, Bengaluru (December, 2020).
    • Participated in AAJ series webinar on Self Reliant India: Aspirations & Opportunities organized by Jawaharlal Nehru University (2020).
    • Participated in The First Online India-UK Bilateral SPARC symposium on Transcriptional Dynamics in Developmental Biology organized by SciWhyLab, School of Computational & Integrative Sciences (SC&IS), Jawaharlal Nehru University (JNU), New Delhi, India, (2020).
    • Participated in a workshop on DNA Bubble Formation: From Physics to Biological Functions held at Department of Physics, Banaras Hindu University, Varanasi (February, 2020).
    • Paper Presentation at National Conference on Recent Advances in Agriculture, Food Tech and Human Health held at Sam Higginbottom University of Agriculture, Technology and Sciences, Prayagraj (November, 2019).
    • Participated in Pre-Conference workshop on Multiscale Simulation & Mathematical Modelling of Complex Biological Systems held at Jawaharlal Nehru University, New Delhi (January, 2019).
    • Poster Presentation at International Conference cum workshop on Multiscale Simulation & Mathematical Modelling of Complex Biological Systems held at Jawaharlal Nehru University, New Delhi (January, 2019).
    • Participated in a workshop on InCOB 2018 Workshop On Programmatic Access to Protein Sequence, Function and Structure with UniProt and PDBe held at Jawaharlal Nehru University, New Delhi (2018).
    • Participated in International Conference on Emerging Trends in Drugs Development and Natural Products (ETDDNP-2018) held at Department of Chemistry, University of Delhi, New Delhi (2018).
    • Participated in workshop on Skill Training Programme in Science Communication, Science Journalism and Scientific Writing organized by University of Delhi, New Delhi and NISCAIR, New Delhi (2017).
    • Participated in Indo-EU Workshop on Electrochemical Technologies held at Department of Chemical Engineering, IIT Delhi, New Delhi (2017).
    • Poster Presentation at National Seminar on A Paradigm Shift Towards Empowerment of Women held at Kalindi College, University of Delhi, New Delhi (2017).
    • Participated in National Symposium on Environment: Greener Future & Awareness held at Deshbandhu College, University of Delhi, New Delhi (2016).
    • Paper Presentation at Inter College Fest SCINTILLATIONS - 2015 held at Gargi College, University of Delhi, New Delhi (2015).

  • Awards & Achievements

    • Received International Travel Grant under SERB International Travel Scheme for attending the 21st IUPAB Congress 2024 in Kyoto, Japan in June 2024 (May 2024).
    • Recieved CHPHI Elsevier Award for best poster presentation at Physical Chemistry Symposium - 2023 (SoPhyC-2023) organized by Society of Physical Chemistry (SoPhyC) and Department of Chemistry, IIT Kanpur (October, 2023).
    • Received Best Oral Presentation Award at 4th Annual Ph.D. Symposium held at School of Computational & Inetgrative Sciences, Jawaharlal Nehru University, New Delhi (October, 2023).
    • Receiving Prime Minister Research Fellowship, Ministry of Human Resource Development (MHRD), Government of India (2020 Onward).
    • Recipient of Prime Minister Research Fellowship, Ministry of Human Resource Development (MHRD), Government of India (2020).
    • Received Junior Research Fellowship, Council of Scientific & Industrial Research (CSIR) (2019-2020).
    • Ranked 58 in JRF in Chemical Science, Council of Scientific & Industrial Research (CSIR) (June, 2018).
    • Received offer letter for DST − Inspire fellowship under Assured Opportunity for Research Careers (2018).
    • Scored 1st Rank in Bachelors in Chemistry, Kalindi College, University of Delhi (2013-2016).
    • First Prize in Poster Presentation at National Symposium on “Trends in Research and Innovations in Life Sciences at Undergraduate Level” held at Deen Dayal Upadhyaya College, University of Delhi (2016).
    • DST − Inspire Scholarship for acquiring good academic marks in 12th standard in Haryana Board (2013-2018).