Dhyani, V., Kumar, S., Manne, S.R., Kaur, I., Jana, S., Russell, S., Sarkar, R. and Giri, L., 2023. Three-Dimensional Tracking of Intracellular Calcium and Redox State during Real-Time Control in a Hypoxic Gradient in Microglia Culture: Comparison of the Channel Blocker and Reoxygenation under Ischemic Shock. ACS Chemical Neuroscience, 14(10), pp.1810-1825. Impact factor: 5.8
Dhyani, V., George, K., Gare, S., Venkatesh, K.V., Mitra, K. and Giri, L., 2023. A computational model to uncover the biophysical underpinnings of neural firing heterogeneity in dissociated hippocampal cultures. Hippocampus. Impact factor: 3.5
Saha D, Vishwakarma S, Gupta RK, Pant A, Dhyani V, Sharma S, Majumdar S, Kaur I, Giri L. Non-prophylactic resveratrol-mediated protection of neurite integrity under chronic hypoxia is associated with reduction of Cav1.2 channel expression and calcium overloading. Neurochem Int. 2023 164:105466. Impact factor: 4.3
Sharma, S., Sarkar, R., Mitra, K. and Giri, L., 2023. Computational framework to understand the clinical stages of COVID-19 and visualization of time course for various treatment strategies. Biotechnology and bioengineering, 120(6), pp.1640-1656. Impact factor: 4.530
Saha, D., Dhyani, V. and Giri, L., In vitro laser scanning confocal microscopy and unsupervised segmentation: Quantification of cytosolic calcium and RNA distribution in hypoxic neurons. In 2023 45th Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE.
Saha, D., Hadule, S. and Giri, L., A deep learning approach for automation in neurite tracing and cell size estimation from differential contrast images under healthy and hypoxic conditions. In 2023 45th Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE.
Sehanobish, D., Dhyani, V., Gare, S., Mitra, K. and Giri, L., 2023, April. Microstate analysis of GABA B and mGluR Mediated Modulation of Calcium Spiking in Hippocampal Neurons. In 2023 11th International IEEE/EMBS Conference on Neural Engineering (NER) (pp. 1-4). IEEE.
Dhyani, V., Venkatesh, K.V. and Giri, L., 2023, April. Computational Framework for in Silico Analysis of Neural Hyperactivity and Loss of Neural Activity in a Population of Interconnected Neurons. In 2023 11th International IEEE/EMBS Conference on Neural Engineering (NER) (pp. 1-4). IEEE.
Das, S., Majumdar, S. and Giri, L., 2022. Imaging Methods for the Assessment of a Complex Hydrogel as an Ocular Drug Delivery System for Glaucoma Treatment: Opportunities and Challenges in Preclinical Evaluation. Molecular Pharmaceutics, 19(3), pp.733-748. Impact factor: 5.36
A. Dey, S. Gare (Equal contribution), S. Swain, P. Bhattacharya, V. Dhyani, S. Neogi, L. Giri (2022) “3D imaging and quantification of PLL coated fluorescent ZnO NP distribution and ROS accumulation using LSCM”, AICHE journal , 68(9). Impact factor: 4.16
Gare, S., Chel, S., Abhinav, T.K., Dhyani, V., Jana, S. and Giri, L., 2022. Mapping of structural arrangement of cells and collective calcium transients: an integrated framework combining live cell imaging using confocal microscopy and UMAP-assisted HDBSCAN-based approach. Integrative Biology, 14(8-12), pp.184-203. Impact factor: 3.392
Sharma, S., Giri, L. and Mitra, K., 2022, December. Multi-objective Optimization and control under Uncertainty for performance improvement of a Baculovirus Expression Vector System. In 2022 Eighth Indian Control Conference (ICC) (pp. 416-421). IEEE.
Gare, S., Chel, S., Pantula, P.D., Saxena, A., Mitra, K., Sarkar, R. and Giri, L., 2022, July. Analytics Pipeline for Visualization of Single Cell RNA Sequencing Data from Brochoaveolar Fluid in COVID-19 Patients: Assessment of Neuro Fuzzy-C-Means and HDBSCAN. In 2022 44th Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC) (pp. 1634-1637). IEEE
Manohar, K., Gupta, R. K., Gupta, P., Saha, D., Gare, S., Sarkar, R., ... & Giri, L. (2021). FDA approved L-type channel blocker Nifedipine reduces cell death in hypoxic A549 cells through modulation of mitochondrial calcium and superoxide generation. Free Radical Biology and Medicine, 177, 189-200. Impact factor: 8.101
Kankanamge, D., Ubeysinghe, S., Tennakoon, M., Pantula, P. D., Mitra, K., Giri, L., & Karunarathne, A. (2021). Dissociation of the G protein βγ from the Gq–PLCβ complex partially attenuates PIP2 hydrolysis. Journal of Biological Chemistry, 296. Impact factor: 5.486
Manohar, K., Gare, S., Chel, S., Dhyani, V., & Giri, L. (2021). Quantitative confocal microscopy for grouping of dose–response data: deciphering calcium sequestration and subsequent cell death in the presence of excess norepinephrine. SLAS TECHNOLOGY: Translating Life Sciences Innovation, 26(5), 454-467. Impact factor: 3.14
Sharma, S., Pujari, K.N., Miriyala, S.S., Giri, L. and Mitra, K., 2021, December. Unstructured modeling and RNN Surrogate development for optimizing vaccine production in Baculovirus Expression Vector System. In 2021 Seventh Indian Control Conference (ICC) (pp. 406-411). IEEE.
Sharma, S., Saxena, A., Chel, S., Mitra, K. and Giri, L., 2021, November. Mathematical modeling of viral infection dynamics and immune response in SARS-CoV-2: A computational framework for testing drug efficacy. In 2021 43rd Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC) (pp. 4370-4373). IEEE.
Gare, S., Chel, S., Kuruba, M., Jana, S. and Giri, L., 2021, July. Dimension reduction and clustering of single cell calcium spiking: comparison of t-SNE and UMAP. In 2021 National Conference on Communications (NCC) (pp. 1-6). IEEE.
Ande, S., Avasarala, S., Karunarathne, A., Giri, L. and Jana, S., 2021, July. Statistical Dependence between Neuronal Spike Train Pairs: Quantification based on Empirical Mutual Information Rate. In 2021 IEEE EMBS International Conference on Biomedical and Health Informatics (BHI) (pp. 1-4). IEEE.
Dhyani, V., Jana, S. and Giri, L., 2021, May. Gaussian mixture modeling of single-neuron responses obtained from confocal-calcium-imaging of dissociated rat hippocampal neurons. In 2021 10th International IEEE/EMBS Conference on Neural Engineering (NER) (pp. 145-148). IEEE.
Ande, S., Regatti, J.R., Pandey, N., Karunarathne, A., Giri, L. and Jana, S., 2021, May. Heterogeneity in Neuronal Calcium Spike Trains based on Empirical Distance. In 2021 10th International IEEE/EMBS Conference on Neural Engineering (NER) (pp. 141-144). IEEE.
Jain S, Swain S, Das L, Swain S, Giri L, Kondapi AK, Narayanan Unni H, Microfluidic Protein Imaging Platform: Study of Tau Protein Aggregation and Alzheimer Drug Response. (2020) Bioengineering 7(4):162. Impact factor: 5.04.
Singh, R. Sharma, S.R., K., Kareenhali, V. V, Mitra, K., Giri, L., Mitra., Experimental investigation into indole production using passaging of E. coli and B. subtilis along with unstructured modeling and parameter estimation using dynamic optimization: An integrated framework, 2020, Biochemical Engineering Journal, 163, Impact factor: 3.5.
V. Dhyani, S. Gare, R. Gupta, S. Swain, K. V. Venkatesh, L. Giri, GPCR mediated control of calcium dynamics: A systems perspective, Cellular Signaling, 2020 ,74, Impact factor: 4.8.
Saxena, A., Ravutla, S., Upadhyaay, V., Jana, S., Murhammer,D., Giri, L. Statistical modeling of cell to cell variability in viral infection during passaging in suspension cell culture: Application in Monte Carlo simulation, 2020, Biotechnology and Bioengineering, 117:5, 1483 – 1501. Impact factor: 4.26
Das, S. Dutta, M. Sen, A. Saxena, J. Kumar, L. Giri, D. W. Murhammer, J. Chakraborty,A detailed model and Monte Carlo simulation for predicting DIP genome length distribution in baculovirus infection of insect cells, 2020, Biotechnology and Bioengineering, Impact factor: 4.26.
Venkateswarlu, K., Suman, G., Dhyani, V., Swain, S., Giri, L. and Samavedi, S., 2020. Three‐dimensional imaging and quantification of real‐time cytosolic calcium oscillations in microglial cells cultured on electrospun matrices using laser scanning confocal microscopy. Biotechnology and Bioengineering, 117(10), pp.3108-3123. Impact factor: 4.26.
Detection of Specific Templates in Calcium Spiking in HeLa Cells Using Hierarchical DBSCAN: Clustering and Visualization of Cell-Drug Interaction at Multiple Doses, IEEE Engineering in Medicine & Biology Society (EMBC) (2020), Montreal, Canada.
Saxena A, Dhyani V, Jana S, Giri L Application of kohonen-self organizing map to cluster drug induced Ca2+ response in hippocampal neurons at different drug dose, IEEE International Symposium on Biomedical Imaging, (2020), April, Iowa City, USA.
Ande, S., Avasarala, S., Regatti, J.R., Pandey, N., Swain, S., Karunarathne, A., Giri, L. and Jana, S., 2021, March. Information content in neuronal calcium spike trains: Entropy rate estimation based on empirical probabilities. In 2020 IEEE-EMBS Conference on Biomedical Engineering and Sciences (IECBES) (pp. 103-108). IEEE.
Pantula, P.D., Miriyala, S.S., Giri, L. and Mitra, K., 2020, December. Synchronicity identification in hippocampal neurons using artificial neural network assisted fuzzy c-means clustering. In 2020 IEEE Symposium Series on Computational Intelligence (SSCI) (pp. 1594-1600). IEEE.
Chel, S., Gare, S. and Giri, L., 2020, July. Detection of Specific Templates in Calcium Spiking in HeLa Cells Using Hierarchical DBSCAN: Clustering and Visualization of CellDrug Interaction at Multiple Doses. In 2020 42nd Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC) (pp. 2425-2428). IEEE.
Suman, G., Saxena, A. and Giri, L., 2020, April. Confocal imaging of intercellular calcium in HeLa cells for monitoring drug-response: Biophysical framework for visualization of the time-lapse images. In 2020 IEEE 17th International Symposium on Biomedical Imaging (ISBI) (pp. 1-4). IEEE.
Saxena, A., Dhyani, V., Jana, S. and Giri, L., 2020, February. Application of kohonen-self organizing map to cluster drug induced Ca 2+ response in hippocampal neurons at different drug dose. In 2020 National Conference on Communications (NCC) (pp. 1-6). IEEE
Shahulhameed, S., Swain, S., Jana, S., Chhablani, J., Ali, M.J., Pappuru, R.R., Tyagi, M., Vishwakarma, S., Sailaja, N., Chakrabarti, S. and Giri, L., Kaur, Inderjeet, 2019. A Robust Model System for Retinal Hypoxia: Live Imaging of Calcium Dynamics and Gene Expression Studies in Primary Human Mixed Retinal Culture. Frontiers in Neuroscience, 13, p.1445., Impact factor 3.77.
Singh R, Saxena A, Giri L, Single Neuron Imaging Reveals Metabotropic Glutamate Receptor Mediated Bursting and Delay in Calcium Oscillation in Hippocampal Neurons, 41st Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC) (2019), July, Berlin, Germany.
Saxena A, Dhyani V, Gare V, Giri L, Effect of Topology and Time Window on Probability Distribution Underlying Baclofen Induced Ca2+ Response in Hippocampal Neurons, 41st Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC) (2019), July, Berlin, Germany.
Upadhyay, V, Ravutla, ST, Dhyani,V, George, K, Swain, S, Mitra, K, and Giri, L "A model screening framework for the generation of Ca2+ oscillations in hippocampal neurons using differential evolution", 9th IEEE, EMBS neuronal engineering conference (NER) 2019, 20-23 March 2019, San Francisco, CA, USA.
Swain S, Gupta RK, Ratnayake K, Priyanka PD, Singh R, Jana S, Mitra K, Karunarathne A, Giri L, “Confocal imaging and k-means clustering of GABAB and mGluR mediated modulation of Ca2+ spiking in hippocampal neurons”, 2018, ACS Chemical Neuroscience. , 9(12), 3094-3107, Impact factor 4.22.
Saxena, A. Byram, P.K., Singh S.K., Chakraborty, J. Murhammer, D.W., Giri, L., “A structured review of baculovirus infection process: integration of mathematical models and biomolecular information on cell–virus interaction” 2018,99:9, Journal of General Virology, Impact factor: 2.83.
Sahu, S., Kumar G V P, Paul, B, Singh, R, Jana, S, Giri, L and Singh,S G “Towards Early Detection of Hypoxia: Fabrication of Facile, Robust, Cobalt Doped ZnO Nano Fiber for in situ Sensing of Dissolved Oxygen”, IEEE Micro and nanotechnology in medicine conference, Kauai, Hawaii, USA, Dec 10-14, 2018.
Soumitri, S, Pantula P D, Giri L. and Mitra, K, Smart Data Analytics Approach to Model Complex Biochemical Oscillations in Hippocampal Neurons, (2335), 40th International IEEE Conference, Engineering in Medicine and Biology Society (EMBC), Hawaii 17-21 July, 2018.
Swain S, Pantula P D, Mitra K and Giri L. 2018. Confocal imaging of cytosolic Ca2+ and fuzzy clustering reveal the circuit topology details underlying synchronization in hippocampal neurons. 40th International IEEE Conference, Engineering in Medicine and Biology Society (EMBC), Hawaii 17-21 July, 2018.
R. Gupta, S Swain, D Kankanamge, P Devi Priyanka1, R Singh1, K Mitra1, A Karunarathne, and L Giri, “Comparison of Calcium Dynamics and Specific Features for G Protein–Coupled Receptor–Targeting Drugs Using Live Cell Imaging and Automated Analysis”, 2017, SLAS Discovery, 22(7) 858-868, Impact factor: 2.355.
Rathi S, Jalali S, Patnaik S, Shahulhameed S, Musada G. R., Balakrishnan D, Rani P K, Kekunnaya R, Chhablani P P, Swain S., Giri L, Chakrabarti S & Kaur I. “Abnormal Complement Activation and Inflammation in the Pathogenesis of Retinopathy of Prematurity” 2017 Frontiers in Immunology, 8, 1868, Impact factor: 6.42.
Singh, R. Srinivas, S.R., Giri, L., Mitra, K., Kareenhali, V. V. “Identification of unstructured model for subtilin production through Bacillus subtilis using hybrid genetic algorithm”, 2017, Process Biochemistry, 60 (1-2). Impact factor: 2.63.
Swain S, Ande S and Suryateja R, Jana S and Giri L. 2017. Spatially resolved calcium spiking in hippocampal neurons: Estimation via confocal imaging and model-based simulation. International IEEE, EMBS Conference on Neural Engineering (NER), Sanghai, 25-28 May, 2017.
Shahna S, Giri L, Swain S, Chhablani J, Papparu RR, Tyagi M, Chakrabarti S, Kaur I. 2017. Effect of Hyperglycemic and hypoxic stresses on the primary cultures of retinal neuron and glial populations: a model system to understand the role of glia in diabetic retinopathy. ARVO, 7-11 May, 2017.
Joseph, J.G. Nanda, S., Vennamalla, S., Bhure, G, Singh,R, Jana, S., Giri, L., Integrated quantification based on confocal imaging: Cell crowding modulates heterogeneity in GPCR-mediated calcium oscillation, 38th International IEEE Conference, Engineering in Medicine and Biology Society (EMBC), Florida, 16th Aug, 2016.
Reddy, P., Shukla, S., Karunarathne, A., Jana, S, Giri L. 2017. Segmentation of neurons and measurement of optically programed neurite growth: Fast automation via Bayesian thresholding, IEEE, EMBS Conference on Neural Engineering (NER),2015.
P R.O'Neill, L. Giri, W. K. Ajith Karunarathne, A. K. Patel., K.V. Venkatesh and N. Gautam, "The structure of dynamic GPCR signaling networks" WIRES Systems Biology and Medicine, 6(1): 115-123, 2013. Imapact factor: 3.676
W. K. Ajith Karunarathne, L. Giri, A. K. Patel., K. V. Venkatesh, and N. Gautam, "Optical control demonstrates switch-like PIP3 dynamics underlying the initiation of immune cell migration" Proceedings of the National Academy of Sciences, 110(17):E1575-83, 2013. Impact factor: 9.68
W. K. Ajith Karunarathne, L. Giri, V. Kalyanraman, and N. Gautam, "Optically triggering spatiotemporally confined GPCR activity in a cell and programming neurite initiation and extension" Proceedings of the National Academy of Sciences, 110 (17) E1565-E1574 , 2013. Impact factor: 9.68
L. Giri, M. Feiss, B. C. Bonning, and D. W. Murhammer "Production of baculovirus defective interfering particles during serial passage is delayed by removing transposon target sites in fp25k," Journal of General Virology, 93:2, 389-399, 2012. Impact factor: 3.36
L. Giri, D. Sandgren, H. Li, M. Feiss, R. Roller, B. C. Bonning , and D. W. Murhammer, "Removal of transposon target sites from the AcMNPV fp25k gene delays, but does not prevent, accumulation of the few polyhedra phenotype," Journal of General Virology 91:12 3053-3064, 2010. Impact factor: 3.36
L. Giri, V. K. Mutalik and K. V. Venkatesh, "A steady state analysis indicates that negative feedback regulation of PTP1B by Akt elicits bistability in insulin-stimulated GLUT4 translocation," Theoretical Biology and Medical Modeling, 1:2 2004. Impact factor: 1.86
V. Dhyani, A. S. Chann, L. Giri, S. M. Russell, and M. Charnley, “A pipeline for dynamic analysis of mitochondrial content in developing T cells: bridging the gap between high throughput flow cytometry and single-cell microscopy analysis”, In Methods in Molecular Biology, Springer Nature, 2023
V. Dhyani, S. Swain, R.K. Gupta, A. Saxena, R. Singh, L. Giri, “Role of Metabotropic Glutamate Receptors (mGluRs) in the Regulation of Cellular Calcium Signaling: Theory, Protocols, and Data Analysis.” In: Metabotropic Glutamate Receptor Technologies, Neuromethods, vol. 164, Springer Nature, 2021.