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Chem Engg

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Associate Professor

Lopamudra Giri

A-604
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PhD: Ph.D,University of Iowa
Research Interests: Live cell imaging, Systems Biology, Image analysis
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“Integration of Time-lapse Microscopy and Systems Biology in understanding neurodegenerative diseases.”

Research Overview

The broad research theme of the group is around developing live imaging techniques to study dynamic response in cell systems. Cell-based disease models are devised for testing drugs for neurodegenerative diseases. Further we aim to build a digital twin of the experimental system by integrating Machine learning and Systems biology approach.

Research Highlights

Cellular Engineering

Application of engineering approaches to develop quantitative understanding of cell function and apply this understanding for deciphering the action of drugs. This approach was used to identify calcium channel blockers as potential anti-stroke drug.

Live cell imaging and quantitative microscopy

Development of live imaging techniques using confocal microscopy to measure dynamics of protein aggregation. This approach leads to observe the intracellular phase separation under neurodegenerative condition.

Disease models

Construction of cell-based disease model based on hypoxia/hyperglycemia and drug testing. Implementation of deep learning models for automated image segmentation.

Systems Biology

Construction of mathematical model for signaling network and parameter estimation using Monte Carlo sampling. Development of digital model of cell systems using machine learning and biophysical models.

Associated Projects

Ongoing

A vision for vision: A program to create an opportunity to study biology towards clinical application of novel gene therapy

Start Year: 2025

Sponsor: DST (Department of Science and Technology)

Ongoing

Portable Imaging Solutions towards offordable healthcare: Microfluidic devices for the detection of disease specific proteins FOF 2025

Start Year: 2025

Sponsor: Royal Academy of Engineering, UK

Co-PI: Dr.Kishalay Mitra Dr.Haripriya Narasimhan

Ongoing

Sustained dual drug release of Timolol Maleate and Latanoprost for Glaucoma Treatment: In vivo studies towards cross-linker free drug-polymer formulation for usage as eye drop

Start Year: 2024

Sponsor: Indian Council of Medical Research

Co-PI: Dr. Saptarshi Majumdar

Ongoing

Portable Imaging Solutions towards offordable healthcare: Microfluidic devices for the detection of disease specific proteins

Start Year: 2024

Sponsor: Royal Academy of Engineering, UK

Co-PI: Dr.Kishalay Mitra Dr.Haripriya Narasimhan

Completed

Development of computational and visualization software for evaluating GPCR targeting drugs with the aim of mitigating corona virus infection level

Start Year: 2020

Sponsor: SERB

Co-PI: Dr. Kishalaya Mitra

Completed

Investigation on role of neuronglical activation leading to neuronal loss as an early maker of diabetic retinopathy using transcriptomics and high resolution imaging based approaches

Start Year: 2018

Sponsor: SERB

Completed

Women Scientist Scheme A (WOS-A) "Design of a cost effective multi-well plate for high throughput drug screening platform : study on combination therapy"

Start Year: 2018

Sponsor: DST-Fellowship

Selected Publications

Formulation and In Vitro Assessment of a Hybrid Gel-Microparticle Composite for Ocular Delivery of Dual-Antiglaucoma Drugs

S K Panigrahi; D Saha; S Das; S Majumdar; L Giri

Journal: Macromolecular BioscienceYear: 2025DOI: 10.1002/mabi.202500270

Role of Calcium in Regulation of Chronic Stress-Induced Stress Granule Assembly in N2a Cells

D Saha; S Kumar; R K Gupta; A Karunarathne; L Giri

Journal: ACS Chemical NeuroscienceYear: 2025DOI: 10.1021/acschemneuro.5c00588

Single cell resolution imaging techniques in optic nerve models in vivo and in vitro

D Saha; R K Gupta; I Kaur; S Majumdar; L Giri

Journal: Proteomics & Systems Biology (Book Chapter)Year: 2025DOI: 10.1016/B978-0-443-15580-2.00005-9

An Overview of Virus-Free Protein Expression in Insect Cells: Rapid Manufacturing Platform for Therapeutics

Jagadeesh Mahadevan; Kishalay Mitra; Lopamudra Giri

Journal: Biotechnology and BioengineeringYear: 2025DOI: 10.1002/bit.28961

Biochemical Oscillations in HeLa Cells: Automated Time-Lapse Image Analysis and Two-Step Parameter Estimation

Satya Deepika Neelapala; Suman Gare; Vaibhav Dhyani; Kishalay Mitra; Soumya Jana; Lopamudra Giri

Journal: IEEE EMBC Conference ProceedingsYear: 2025DOI: 10.1109/EMBC58623.2025.11254818

Interaction-Based Perspective for Designing Polymer Biomaterial: A Strategic Approach to the Chitosan-Glycerophosphate System

Sougat Das; Lopamudra Giri; Saptarshi Majumdar

Journal: ACS Biomaterials Science & EngineeringYear: 2024DOI: 10.1021/acsbiomaterials.4c00723

Nonviral Platform for Expression of Recombinant Protein in Insect Cells

Jagadeesh Mahadevan; Kishalay Mitra; Lopamudra Giri

Journal: Methods in Molecular BiologyYear: 2024DOI: 10.1007/978-1-0716-3961-0_23

A Pipeline for Dynamic Analysis of Mitochondrial Content in Developing T Cells

Vaibhav Dhyani; Anchi S Chann; Lopamudra Giri; Sarah M Russell; Mirren Charnley

Journal: Imaging Cell SignalingYear: 2024DOI: 10.1007/978-1-0716-3834-7_12

Two-step fabrication of clear view SLA millifluidic device for long-term in-vitro cultures

Debasmita Saha; Rama Pandillapally; Vaibhav Dhyani; Kurre Sri Harsha; Sarpras Swain; Suhanya Duraiswamy; Lopamudra Giri

Journal: Rapid Prototyping JournalYear: 2024DOI: 10.1108/RPJ-02-2024-0071

Robust entropy rate estimation for nonstationary neuronal calcium spike trains based on empirical probabilities

Sathish Ande; Srinivas Avasarala; Sarpras Swain; Ajith Karunarathne; Lopamudra Giri; Soumya Jana

Journal: Journal of Neural EngineeringYear: 2024DOI: 10.1088/1741-2552/ad6cf4