Publications

For more details please check out Deepak's Google scholar.

• Mahanty, S., Bergam, P., Belapurkar, V., Eluvathingal, L., Gupta, N., Goud, B., Nair, D., Raposo, G., & Setty, S. R. G. (2024). Biogenesis of specialized lysosomes in differentiated keratinocytes relies on close apposition with the Golgi apparatus. Cell Death and Disease, 15(7). [LINK]
  
  

• Fukata, Y., Fukata, M., MacGillavry, H. D., Nair, D., & Hosy, E. (2024). Celebrating the Birthday of AMPA Receptor Nanodomains: Illuminating the Nanoscale Organization of Excitatory Synapses with 10 Nanocandles. Journal of Neuroscience, 44(23), e2104232024. [LINK]
  
  

• Thumu, S. C. R., Jain, M., Soman, S., Das, S., Verma, V., Nandi, A., Gutmann, D. H., Jayaprakash, B., Nair, D., Clement, J. P., Marathe, S., & Ramanan, N. (2024). SRF-deficient astrocytes provide neuroprotection in mouse models of excitotoxicity and neurodegeneration. eLife, 13. [LINK]
  
  

• Belapurkar, V., Swamy, H. S. M., Singh, N., Kedia, S., Setty, S. R. G., Jose, M., & Nair, D. (2023). Real-time heterogeneity of supramolecular assembly of amyloid precursor protein is modulated by an endocytic risk factor PICALM. Cellular and Molecular Life Sciences, 80(10). [LINK]
  
  

• Mangalwedhekar, R., Singh, N., Thakur, C.S. et al. Achieving nanoscale precision using neuromorphic localization microscopy. Nat. Nanotechnol. 18, 380–389 (2023). [LINK]
  
  

• Haukedal, H., Corsi, G. I., Gadekar, V. P., Doncheva, N. T., Kedia, S., de Haan, N., Chandrasekaran, A., Jensen, P., Schiønning, P., Vallin, S., Marlet, F. R., Poon, A., Pires, C., Agha, F. K., Wandall, H. H., Cirera, S., Simonsen, A. H., Nielsen, T. T., Nielsen, J. E., ... Freude, K. (2023). Golgi fragmentation - One of the earliest organelle phenotypes in Alzheimer's disease neurons. Frontiers in Neuroscience, 17, Article 1120086. [LINK]
  
  

• D’Souza, M. N., Ramakrishna, S., Radhakrishna, B. K., Jhaveri, V., Ravindran, S., Yeramala, L., Nair, D., Palakodeti, D., & Muddashetty, R. S. (2022). Function of FMRP Domains in Regulating Distinct Roles of Neuronal Protein Synthesis. Molecular Neurobiology, 59(12), 7370–7392. [LINK]
  
  

• Rajeev, P., Singh, N., Kechkar, A., Butler, C., Ramanan, N., Sibarita, J.B., Jose, M., Nair, D., (2022) Nanoscale Regulation of Ca2+ Dependent Phase Transitions and Real-time Dynamics of SAP97/hDLG. Nature Communications 13 (1), 1-18 [LINK]
   

• Kumar, A.P., Singh, N., Nair, D., Justin A. (2022). Neuronal PET tracers for Alzheimer's disease, Biochemical and biophysical research communications 587, 58-62 [LINK]
   

• SG Dastidar, D Nair, (2022), A Ribosomal Perspective on Neuronal Local Protein Synthesis, Frontiers in Molecular Neuroscience, 18. [LINK]
   

• S Kedia, K Mandal, PR Netrakanti, M Jose, SS Sisodia, D Nair, (2021), Nanoscale organization of Nicastrin, the substrate receptor of the γ-secretase complex, as independent molecular domains, Molecular brain 14 (1), 1-6. [LINK]
   

• S Lankipalli, MS HS, D Selvam, D Samanta, D Nair, UA Ramagopal, (2021), Cryptic association of B7‐2 molecules and its implication for clustering, Protein Science 30 (9). [LINK]
   

• P Mandal, V Belapurkar, D Nair, N Ramanan, (2021), Vinculin-mediated axon growth requires interaction with actin but not talin in mouse neocortical neurons, Cellular and Molecular Life Sciences 78 (15), 5807-5826. [LINK]
   

• S Kedia, N Ramanan, D Nair, (2021), Quantifying molecular aggregation by super resolution microscopy within an excitatory synapse from mouse hippocampal neurons, STAR protocols 2 (2), 100470. [LINK]
   

• Kedia, S., Ramakrishna, P., Netrakanti, P. R., Singh, N., Sisodia, S. S., Jose, M., Kumar, S., Mahadevan, A., Ramanan, N., Nadkarni, S., & Nair, D. (2020). Alteration in synaptic nanoscale organization dictates amyloidogenic processing in Alzheimer’s disease. iScience, 24(1), 101924. [LINK]
   

• M Tanwar, S Kateriya, D Nair, M Jose, (2021), Optogenetic modulation of real-time nanoscale dynamics of HCN channels using photoactivated adenylyl cyclases, RSC chemical biology 2 (3), 863-875. [LINK]
   

• Marathe, P., HS, M. S., Nair, D., & Bhattacharyya, D. (2020). mEosBrite Are Bright Variants of mEos3.2 Developed by Semirational Protein Engineering. Journal of Fluorescence, 30(3), 703–715. [LINK]
   

• Kedia, S., & Nair, D. (2020). Nanoscale rearrangement of APP organization as a therapeutic target for Alzheimer’s disease. Medical Hypotheses, 143, 110143. [LINK]
   

• Venkatesan, S., Subramaniam, S., Rajeev, P., Chopra, Y., Jose, M., & Nair, D. (2020). Differential Scaling of Synaptic Molecules within Functional Zones of an Excitatory Synapse during Homeostatic Plasticity. eNeuro, 7(2), ENEURO.0407-19.2020.  [LINK]
   

• Kedia, S., Ramakrishna, P., Netrakanti, P. R., Jose, M., Sibarita, J., Nadkarni, S., & Nair, D. (2020). Real-time nanoscale organization of amyloid precursor protein. Nanoscale, 12(15), 8200–8215. [LINK]
   

• Koltun, B., Ironi, S., Gershoni-Emek, N., Barrera, I., Hleihil, M., Nanguneri, S., Sasmal, R., Agasti, S. S., Nair, D., & Rosenblum, K. (2020). Measuring mRNA translation in neuronal processes and somata by tRNA-FRET. Nucleic Acids Research, 48(6), e32. [LINK]
   

• Kommaddi, R. P., Tomar, D. S., Karunakaran, S., Bapat, D., Nanguneri, S., Ray, A., Schneider, B. L., Nair, D., & Ravindranath, V. (2019). Glutaredoxin1 Diminishes Amyloid Beta-Mediated Oxidation of F-Actin and Reverses Cognitive Deficits in an Alzheimer’s Disease Mouse Model. Antioxidants and Redox Signaling, 31(18), 1321–1338. [LINK]
   

• Nanguneri, S., Pramod, R. T., Efimova, N., Das, D., Jose, M., Svitkina, T., & Nair, D. (2019). Characterization of Nanoscale Organization of F-Actin in Morphologically Distinct Dendritic SpinesIn Vitro Using Supervised Learning. eNeuro, 6(4), ENEURO.0425-18.2019.  [LINK]
   

• Venkatachalapathy, M., Belapurkar, V., Jose, M., Gautier, A., & Nair, D. (2019b). Live cell super resolution imaging by radial fluctuations using fluorogen binding tags. Nanoscale, 11(8), 3626–3632. [LINK]
   

• Kommaddi, R. P., Das, D., Karunakaran, S., Nanguneri, S., Bapat, D., Ray, A., Shaw, E., Bennett, D. A., Nair, D., & Ravindranath, V. (2017). Aβ mediates F-actin disassembly in dendritic spines leading to cognitive deficits in Alzheimer’s disease. Journal of Neuroscience, 38(5), 1085–1099. [LINK]
   

• Widera, D., Klenke, C., Nair, D., Heidbreder, M., Malkusch, S., Sibarita, J., Choquet, D., Kaltschmidt, B., Heilemann, M., & Kaltschmidt, C. (2016). Single-particle tracking uncovers dynamics of glutamate-induced retrograde transport of NF-κB p65 in living neurons. Neurophotonics, 3(4), 041804. [LINK]
   

• Harper, C. B., Papadopulos, A., Martin, S., Matthews, D. R., Morgan, G. P., Nguyen, T. H., Wang, T., Nair, D., Choquet, D., & Meunier, F. A. (2016). Botulinum neurotoxin type-A enters a non-recycling pool of synaptic vesicles. Scientific Reports, 6(1). [LINK]
   

• Jose, M., Tollis, S., Nair, D., Mitteau, R., Velours, C., Massoni-Laporte, A., Royou, A., Sibarita, J., & McCusker, D. (2015). A quantitative imaging-based screen reveals the exocyst as a network hub connecting endocytosis and exocytosis. Molecular Biology of the Cell, 26(13), 2519–2534.  [LINK]
   

• Chazeau, A., Mehidi, A., Nair, D., Gautier, J. J., Leduc, C., Chamma, I., Kage, F., Kechkar, A., Thoumine, O., Rottner, K., Choquet, D., Gautreau, A., Sibarita, J., & Giannone, G. (2014). Nanoscale segregation of actin nucleation and elongation factors determines dendritic spine protrusion. The EMBO Journal, 33(23), 2745–2764.   [LINK]
  
  

• Jose M, Tollis S, Nair D, Sibarita JB, McCusker D., (2013), Robust polarity establishment occurs via an endocytosis-based cortical corralling mechanism, J Cell Biol, 407-418, jcb. 201206081. [LINK]
   

• Nair D, Hosy E, Petersen JD, Constals A, Giannone G, Choquet D, Sibarita JB., (2013), Super-resolution imaging reveals that AMPA receptors inside synapses are dynamically organized in nanodomains regulated by PSD95, Journal of Neuroscience, 33 , 13204-13224. [LINK]
   

• Kechkar, A., Nair, D., Heilemann, M., Choquet, D., & Sibarita, J. (2013). Real-Time Analysis and Visualization for Single-Molecule Based Super-Resolution Microscopy. PLoS ONE, 8(4), e62918 [LINK]
  
  

• Fraisier, V., Kasri, A., Miserey-Lenkei, S., Sibarita, J., Nair, D., Mayeux, A., Bardin, S., Toyoda, Y., Poser, I., Poznyakovskiy, A., Goud, B., Hyman, A. A., & Dimitrov, A. (2013). C11ORF24 Is a Novel Type I Membrane Protein That Cycles between the Golgi Apparatus and the Plasma Membrane in Rab6-Positive Vesicles. PLoS ONE, 8(12), e82223. [LINK]
   

• Izeddin I, Boulanger J, Racine V, Specht CG, Kechkar A, Nair D, Triller A, Choquet D, Dahan M, Sibarita JB., (2012), Wavelet analysis for single molecule localization microscopy, Optics express, 20, 2081-2095.  [LINK]
   

• Rossier, O., Octeau, V., Sibarita, J., Leduc, C., Tessier, B., Nair, D., Gatterdam, V., Destaing, O., Albigès-Rizo, C., Tampé, R., Cognet, L., Choquet, D., Lounis, B., & Giannone, G. (2012). Integrins β1 and β3 exhibit distinct dynamic nanoscale organizations inside focal adhesions. Nature Cell Biology, 14(10), 1057–1067. [LINK]
   

• Hoze N, Nair D, Hosy E, Sieben C, Manley S, Herrmann A, Sibarita JB, Choquet D, Holcman D., (2012), Heterogeneity of AMPA receptor trafficking and molecular interactions revealed by superresolution analysis of live cell imaging, Proceedings of the National Academy of Sciences, 109, 17052-17057.  [LINK]
   

• Heidbreder, M., Zander, C., Malkusch, S., Widera, D., Kaltschmidt, B., Kaltschmidt, C., Nair, D., Choquet, D., Sibarita, J., & Heilemann, M. (2012). TNF-α influences the lateral dynamics of TNF receptor I in living cells. Biochimica Et Biophysica Acta (BBA) - Molecular Cell Research, 1823(10), 1984–1989.  [LINK]
  
  

• Izeddin, I., Boulanger, J., Racine, V., Specht, C., Kechkar, A., Nair, D., Triller, A., Choquet, D., Dahan, M., & Sibarita, J. (2012). Wavelet analysis for single molecule localization microscopy. Optics Express, 20(3), 2081. [LINK]
  
  

• Jose, M., Nair, D. K., Altrock, W. D., Dresbach, T., Gundelfinger, E. D., & Zuschratter, W. (2007). Investigating Interactions Mediated by the Presynaptic Protein Bassoon in Living Cells by Foerster’s Resonance Energy Transfer and Fluorescence Lifetime Imaging Microscopy. Biophysical Journal, 94(4), 1483–1496. [LINK]
  
  

• Jose, M., Nair, D. K., Reissner, C., Hartig, R., & Zuschratter, W. (2006b). Photophysics of Clomeleon by FLIM: Discriminating Excited State Reactions along Neuronal Development. Biophysical Journal, 92(6), 2237–2254. [LINK]
  
  

• Nair, D. K., Jose, M., Kuner, T., Zuschratter, W., & Hartig, R. (2006). FRET-FLIM at nanometer spectral resolution from living cells. Optics Express, 14(25), 12217. [LINK]