The University of Queensland

Bistability in virus–host interaction networks underlies the success of hepatitis C treatments

Padmanabhan, Pranesh, Raja, Rubesh and Dixit, Narendra M. (2020). Bistability in virus–host interaction networks underlies the success of hepatitis C treatments. Phenotypic Switching. (pp. 131-156) London, United Kingdom: Academic Press. doi: 10.1016/b978-0-12-817996-3.00024-4

Single-Molecule Imaging of Recycling Synaptic Vesicles in Live Neurons

Joensuu, Merja, Martínez-Mármol, Ramon, Mollazade, Mahdie, Padmanabhan, Pranesh and Meunier, Frédéric A. (2020). Single-Molecule Imaging of Recycling Synaptic Vesicles in Live Neurons. Single Molecule Microscopy in Neurobiology. (pp. 81-114) New York, NY United States: Springer. doi: 10.1007/978-1-0716-0532-5_5

Models of viral population dynamics

Padmanabhan, Pranesh and Dixit, Narendra M. (2016). Models of viral population dynamics. Quasispecies: from theory to experimental systems. (pp. 277-302) edited by Domingo, Esteban and Schuster, Peter. Cham, Switzerland: Springer International Publishing. doi: 10.1007/82_2015_458

Mechanistic models of COVID-19: insights into disease progression, vaccines, and therapeutics

Desikan, Rajat, Padmanabhan, Pranesh, Kierzek, Andrzej M. and van der Graaf, Piet H. (2022). Mechanistic models of COVID-19: insights into disease progression, vaccines, and therapeutics. International Journal of Antimicrobial Agents, 60 (1) 106606, 106606. doi: 10.1016/j.ijantimicag.2022.106606

Modeling how antibody responses may determine the efficacy of COVID-19 vaccines

Padmanabhan, Pranesh, Desikan, Rajat and Dixit, Narendra M. (2022). Modeling how antibody responses may determine the efficacy of COVID-19 vaccines. Nature Computational Science, 2 (2), 123-131. doi: 10.1038/s43588-022-00198-0

Increased B cell selection stringency in germinal centers can explain improved COVID-19 vaccine efficacies with low dose prime or delayed boost

Garg, Amar K., Mittal, Soumya, Padmanabhan, Pranesh, Desikan, Rajat and Dixit, Narendra M. (2021). Increased B cell selection stringency in germinal centers can explain improved COVID-19 vaccine efficacies with low dose prime or delayed boost. Frontiers in Immunology, 12 776933, 776933. doi: 10.3389/fimmu.2021.776933

Super-resolution microscopy: a closer look at synaptic dysfunction in Alzheimer disease

Padmanabhan, Pranesh, Kneynsberg, Andrew and Götz, Jürgen (2021). Super-resolution microscopy: a closer look at synaptic dysfunction in Alzheimer disease. Nature Reviews Neuroscience, 22 (12), 723-740. doi: 10.1038/s41583-021-00531-y

Targeting TMPRSS2 and Cathepsin B/L together may be synergistic against SARS-CoV-2 infection

Padmanabhan, Pranesh, Desikan, Rajat and Dixit, Narendra M. (2020). Targeting TMPRSS2 and Cathepsin B/L together may be synergistic against SARS-CoV-2 infection. PLoS Computational Biology, 16 (12) e1008461, e1008461. doi: 10.1371/journal.pcbi.1008461

Modular transient nanoclustering of activated β2-adrenergic receptors revealed by single-molecule tracking of conformation-specific nanobodies

Gormal, Rachel S., Padmanabhan, Pranesh, Kasula, Ravikiran, Bademosi, Adekunle T., Coakley, Sean, Giacomotto, Jean, Blum, Ailisa, Joensuu, Merja, Wallis, Tristan P., Lo, Harriet P., Budnar, Srikanth, Rae, James, Ferguson, Charles, Bastiani, Michele, Thomas, Walter G., Pardon, Els, Steyaert, Jan, Yap, Alpha S., Goodhill, Geoffrey J., Hilliard, Massimo A., Parton, Robert G. and Meunier, Frédéric A. (2020). Modular transient nanoclustering of activated β2-adrenergic receptors revealed by single-molecule tracking of conformation-specific nanobodies. Proceedings of the National Academy of Sciences of the United States of America, 117 (48), 30476-30487. doi: 10.1073/pnas.2007443117

Radial contractility of actomyosin rings facilitates axonal trafficking and structural stability

Wang, Tong, Li, Wei, Martin, Sally, Papadopulos, Andreas, Joensuu, Merja, Liu, Chunxia, Jiang, Anmin, Shamsollahi, Golnoosh, Amor, Rumelo, Lanoue, Vanessa, Padmanabhan, Pranesh and Meunier, Frédéric A. (2020). Radial contractility of actomyosin rings facilitates axonal trafficking and structural stability. Journal of Cell Biology, 219 (5) e201902001, 1-S7. doi: 10.1083/jcb.201902001

Opening of smaller toxin pores by lipid micelle formation

Desikan, Rajat, Padmanabhan, Pranesh and Ganapathy Ayappa, K. (2020). Opening of smaller toxin pores by lipid micelle formation. Proceedings of the National Academy of Sciences of the United States of America, 117 (10), 5107-5108. doi: 10.1073/pnas.1921467117

Frontotemporal dementia mutant Tau promotes aberrant Fyn nanoclustering in hippocampal dendritic spines

Padmanabhan, Pranesh, Martínez-Mármol, Ramón, Xia, Di, Götz, Jürgen and Meunier, Frédéric A. (2019). Frontotemporal dementia mutant Tau promotes aberrant Fyn nanoclustering in hippocampal dendritic spines. eLife, 8 e45040. doi: 10.7554/elife.45040

Need for speed: Super-resolving the dynamic nanoclustering of syntaxin-1 at exocytic fusion sites

Padmanabhan, Pranesh, Bademosi, Adekunle T., Kasula, Ravikiran, Lauwers, Elsa, Verstreken, Patrik and Meunier, Frédéric A. (2019). Need for speed: Super-resolving the dynamic nanoclustering of syntaxin-1 at exocytic fusion sites. Neuropharmacology, 169 107554, 107554. doi: 10.1016/j.neuropharm.2019.02.036

VAMP2 Binding to Munc18-1 Domain 3a Controls the Nanoscale Reorganization of the Plasma Membrane and Vesicle Interface During Vesicular Priming

Kasula, Ravikiran, Blum, Ailisa, Salla-Martret, Merce, Chai, Ye Jin, Jiang, Anmin, Wallis, Tristan P., Gormal, Rachel S., Brouillet, Julie Z., Padmanabhan, Pranesh, Weeratunga, Saroja K., Livingstone, Emma K., Mollazade, Mahdie, Joensuu, Merja, Martínez-Mármol, Ramón, Collins, Brett M. and Meunier, Frederic (2019). VAMP2 Binding to Munc18-1 Domain 3a Controls the Nanoscale Reorganization of the Plasma Membrane and Vesicle Interface During Vesicular Priming. SSRN Electronic Journal. doi: 10.2139/ssrn.3362260

Modelling how responsiveness to interferon improves interferon-free treatment of hepatitis C virus infection

Venugopal, Vishnu, Padmanabhan, Pranesh, Raja, Rubesh and Dixit, Narendra M (2018). Modelling how responsiveness to interferon improves interferon-free treatment of hepatitis C virus infection. PLoS Computational Biology, 14 (7) e1006335, e1006335. doi: 10.1371/journal.pcbi.1006335

Axon growth regulation by a bistable molecular switch

Padmanabhan, Pranesh and Goodhill, Geoffrey J. (2018). Axon growth regulation by a bistable molecular switch. Proceedings of the Royal Society of London B: Biological Sciences, 285 (1877) 20172618, 20172618. doi: 10.1098/rspb.2017.2618

Visualizing endocytic recycling and trafficking in live neurons by subdiffractional tracking of internalized molecules

Joensuu, Merja, Martinez-Marmol, Ramon, Padmanabhan, Pranesh, Glass, Nick R., Durisic, Nela, Pelekanos, Matthew, Mollazade, Mahdie, Balistreri, Giuseppe, Amor, Rumelo, Cooper-White, Justin J., Goodhill, Geoffrey J. and Meunier, Frederic A. (2017). Visualizing endocytic recycling and trafficking in live neurons by subdiffractional tracking of internalized molecules. Nature Protocols, 12 (12), 2590-2622. doi: 10.1038/nprot.2017.116

Inhibitors of hepatitis C virus entry may be potent ingredients of optimal drug combinations

Padmanabhan, Pranesh and Dixit, Narendra M. (2017). Inhibitors of hepatitis C virus entry may be potent ingredients of optimal drug combinations. Proceedings of the National Academy of Sciences, 114 (23), E4524-E4526. doi: 10.1073/pnas.1704531114

Erratum: In vivo single-molecule imaging of syntaxin1A reveals polyphosphoinositide- and activity-dependent trapping in presynaptic nanoclusters

Bademosi, Adekunle T., Lauwers, Elsa, Padmanabhan, Pranesh, Odierna, Lorenzo, Chai, Ye Jin, Papadopulos, Andreas, Goodhill, Geoffrey J., Verstreken, Patrik, van Swinderen, Bruno and Meunier, Frédéric A (2017). Erratum: In vivo single-molecule imaging of syntaxin1A reveals polyphosphoinositide- and activity-dependent trapping in presynaptic nanoclusters. Nature Communications, 8 (1) 14492. doi: 10.1038/ncomms14492

In vivo single-molecule imaging of syntaxin1A reveals polyphosphoinositide- and activity-dependent trapping in presynaptic nanoclusters

Bademosi, Adekunle T., Lauwers, Elsa, Padmanabhan, Pranesh, Odierna, Lorenzo, Chai, Ye Jin, Papadopulos, Andreas, Goodhill, Geoffrey J., Verstreken, Patrik, Van Swinderen, Bruno and Meunier, Frederic A. (2016). In vivo single-molecule imaging of syntaxin1A reveals polyphosphoinositide- and activity-dependent trapping in presynaptic nanoclusters. Nature Communications, 7 (1) 13660, 13660. doi: 10.1038/ncomms13660

Subdiffractional tracking of internalized molecules reveals heterogeneous motion states of synaptic vesicles

Joensuu, Merja, Padmanabhan, Pranesh, Durisic, Nela, Bademosi, Adekunle T. D., Cooper-Williams, Elizabeth, Morrow, Isabel C., Harper, Callista B., Jung, WooRam, Parton, Robert G., Goodhill, Geoffrey J., Papadopulos, Andreas and Meunier, Frederic A. (2016). Subdiffractional tracking of internalized molecules reveals heterogeneous motion states of synaptic vesicles. Journal of Cell Biology, 215 (2), 277-292. doi: 10.1083/jcb.201604001

Modeling Suggests a Mechanism of Synergy between Hepatitis C Virus Entry Inhibitors and Drugs of Other Classes

Padmanabhan, P. and Dixit, N.M. (2015). Modeling Suggests a Mechanism of Synergy between Hepatitis C Virus Entry Inhibitors and Drugs of Other Classes. CPT: Pharmacometrics and Systems Pharmacology, 4 (8), 445-453. doi: 10.1002/psp4.12005

Emergent properties of the interferon-signalling network may underlie the success of hepatitis C treatment

Padmanabhan, Pranesh, Garaigorta, Urtzi and Dixit, Narendra M. (2014). Emergent properties of the interferon-signalling network may underlie the success of hepatitis C treatment. Nature Communications, 5 (1) 3872, 1-9. doi: 10.1038/ncomms4872

Viral kinetics suggests a reconciliation of the disparate observations of the modulation of claudin-1 expression on cells exposed to hepatitis C virus

Padmanabhan, Pranesh and Dixit, Narendra M. (2012). Viral kinetics suggests a reconciliation of the disparate observations of the modulation of claudin-1 expression on cells exposed to hepatitis C virus. PLoS One, 7 (4) e36107, e36107-e36107. doi: 10.1371/journal.pone.0036107

Mathematical model of viral kinetics in vitro estimates the number of E2-CD81 complexes necessary for hepatitis C virus entry

Padmanabhan, Pranesh and Dixit, Narendra M. (2011). Mathematical model of viral kinetics in vitro estimates the number of E2-CD81 complexes necessary for hepatitis C virus entry. PLoS Computational Biology, 7 (12) e1002307, e1002307-e1002307. doi: 10.1371/journal.pcbi.1002307

Super-resolving botulinum neurotoxin type A molecules: from surface landing to internalization in synaptic vesicles

Joensuu, Merja, Blum, Ailisa, Mollazade, Mahdie, Lanoue, Vanessa, Padmanabhan, Pranesh, Small, Christopher, Mahrhold, Stefan, Krez, Nadja, Rummel, Andreas and Meunier, Frederic A. (2018). Super-resolving botulinum neurotoxin type A molecules: from surface landing to internalization in synaptic vesicles. TOXINS 2019: Basic Science and Clinical Aspects of Botulinum and Other Neurotoxins, Copenhagen, Denmark, 16-19 January 2019. Kidlington, Oxford, United Kingdom: Pergamon Press. doi: 10.1016/j.toxicon.2018.11.122