Haberl M.G., Viana da Silva, S., Phan S, Bushong E., Deerinck TJ, Ellisman M.H. Deep mapping of the endomembrane system of cerebellar Purkinje neurons. (2025) bioRxiv, DOI: 10.1101/2025.07.08.663701
Javed M.H., Robles-Hernandez E.M., Patel R., Haberl M.G.*, Viana da Silva S.* cfos principal cells and interneurons are strongly reactivated by sharp wave ripples. bioRxiv, 2024.12. 17.628897. DOI: 10.1101/2024.12.17.628897 *shared last author
Uytiepo M., Zhu Y., Bushong E., Chou K., Polli FS, Zhao E., Kim K-Y., Luu D., Chang L., Yang D., Ma TC, Kim M., Zhang Y., Walton G., Quach T., Haberl M., Patapoutian L., Shahbazi A., Zhang Y., Beutter E., Zhang W., Dong B., Khoury A., Gu A., McCue E., Stowers L., Ellisman M., Maximov A. Synaptic architecture of a memory engram in the mouse hippocampus. (2025) Science, 6740 ,DOI: 10.1126/science.ado8316
Viana da Silva, S., Haberl M.G., Gaur K., Patel R., Narayan G., Ledakis M., Fu M.L., de Castro Vieira M., Koo E.H., Leutgeb J.K., Leutgeb S. Localized APP expression results in progressive network dysfunction by disorganizing spike timing. (2024) Neuron, 112 (1), 124-140. e6, DOI: 10.1016/j.neuron.2023.10.001
Zhu, Y., Uytiepo, M., Bushong, EA, Haberl M.G., Beutter E., Scheiwe F., Zhang W., Chang L., Luu D., Chui B., Ellisman M., Maximov A. Nanoscale 3D EM reconstructions reveal intrinsic mechanisms of structural diversity of chemical synapses. (2021) Cell Reports 35 (1), 108953. DOI: 10.1016/j.celrep.2021.108953
Steinkellner T., Madany M., Haberl M.G., Zell V., Li C., Hu J., Mackey M., Ramachandra R., Adams S., Ellisman M.H., Hnasko T.S., and Boassa D. Genetic Probe for Visualizing Glutamatergic Synapses and Vesicles by 3D Electron Microscopy (2021) ACS Chemical Neuroscience 12 (4), 626-639. DOI: 10.1021/acschemneuro.0c00643
Merlini M*., Rafalski V.*, Ma K., Kim K.Y., Bushong E., Coronado P., Yan Z., Mendiola A., Sozmen E., Ryu J., Haberl M.G., Madany M., Sampson D., Petersen M., Bardehle S., Tognatta R., Dean T., Acevedo R., Cabriga B., Thomas R., Coughlin S., Ellisman MH., Palop J., Akassoglou K., Microglial Gi-dependent dynamics regulate brain network hyperexcitability. (2021) Nature Neuroscience DOI:10.1038/s41593-020-00756-7
Haberl M.G., Arrojo E Drigo R., Hetzer M.W., Ellisman M.H. Towards high resolution intracellular maps in space and time. (2020) Computational Modeling: From Chemistry To Materials To Biology – Proceedings Of The 25th Solvay Conference On Chemistry
Haberl M.G., Wong W., Penticoff S., Je J., Madany M., Borchhardt A., Boassa D., Peltier S.T., Ellisman M.H. CDeep3M-preview: Online segmentation using the deep neural network model zoo. bioRxiv DOI: https://doi.org/10.1101/2020.03.26.010660
Viana da Silva, S.*, Pei Zhang*, Haberl, M.G., Labrousse, V., Grosjean N., Blanchet, C., Frick, A., Mulle, C. Hippocampal mossy fibers synapses in CA3 pyramidal cells are altered at an early stage in a mouse model of Alzheimer’s disease. (2019) Journal of Neuroscience; 39 (21) 4193-4205. DOI: 10.1523/JNeurosci.2868-18.2019
Haberl M.G., Churas C, Tindall L, Boassa D, Phan S, Bushong EA, Madany M, Akay R, Deerinck TJ, Peltier ST, Ellisman MH. CDeep3M – Plug-and-Play cloud based deep learning for image segmentation. (2018) Nature Methods Vol. 15, p677–680. DOI: 10.1038/s41592-018-0106-z
Zerbi V, Ielacqua GD, Markicevic M, Haberl M.G., Ellisman MH, A-Bhaskaran A, Frick A, Rudin M, Wenderoth N. Dysfunctional Autism Risk Genes Cause Circuit-Specific Connectivity Deficits With Distinct Developmental Trajectories. (2018) Cerebral Cortex 28 (7), 2495-2506. DOI: 10.1093/cercor/bhy046
Katchalski, T., Case, T., Kim, K.Y., Ramachandra, R., Bushong, E.A., Deerinck, T.J., Haberl, M.G., Mackey, M.R., Peltier, S.T., Castillon, G.A., Fujikawa, N., Lawrence, A.R., Ellisman, M.H. Iron-specific Signal Separation from within Heavy Metal Stained Biological Samples Using X-Ray Microtomography with Polychromatic Source and Energy-Integrating Detectors. Scientific Reports 2018 May 15;8(1):7553.
DOI: 10.1038/s41598-018-25099-z
Aloisi E., Le Corf K., Dupuis J.P., Zhang P., Ginger, M., Labrousse V., Spatuzza M., Haberl M.G., Costa L., Shigemoto R., Tappe-Theodor A., Drago F., Piazza P.V., Mulle C., Groc L., Ciranna L., §Catania M.V. and §Frick A. Altered surface mGluR5 dynamics provoke synaptic NMDAR dysfunction and cognitive defects in Fmr1 knockout mice. (2018) Nature Communications 8 (1), 1103. DOI: 10.1038/s41467-017-01191-2
Haberl, M.G., Ginger, M. and Frick, A. Dual anterograde and retrograde viral tracing of reciprocal connectivity. (2017) Methods in Molecular Biology, 1538, 321.
DOI: 10.1007/978-1-4939-6688-2_21
Viana da Silva, S., Haberl, M.G., Zhang, P., Bethge, P., Lemos, C., Goncalves, N., Gorlewicz, A., Malezieux, M., Goncalves, F.Q., Grosjean, N., Frick, A., Nagerl, UV., Cunha, R., Mulle, C. Early synaptic deficits in the APP/PS1 mouse model of Alzheimer’s disease involve neuronal adenosine A2A receptors Nature Communications 2016 Jun 17;7:11915. DOI: 10.1038/ncomms11915
Haberl, M.G, Zerbi, V., Veltien, A., Ginger, M., Heerschap, A. and Frick, A. (2015) Structural and functional connectivity deficits in neocortical circuits of Fragile X mice. Science Advances; 2015 Nov 20;1(10):e1500775. DOI: 10.1126/sciadv.1500775
Haberl, M.G.*, Viana da Silva, S.*, Guest, M., Ghanem, A., Ginger, M., Mulle, C., Oberlaender, M., Conzelmann, K.K., Frick, A. An anterograde rabies virus vector for high-resolution large-scale reconstruction of 3D neuron morphology. *equal contributions. (2015) Brain Structure and Function 220 (3), 1369-1379. 10.1007/s00429-014-0730-z
Ginger M.*, Bony G.*, Haberl M.G. and Frick A. (2015) Use of Rhabdoviruses to Study Neural Circuitry. *equal contributions (Book Chapter) Biology and Pathogenesis of Rhabdo- and Filoviruses, 263-287. DOI: 10.1142/9789814635349_0011
Ginger, M.*, Haberl, M.*, Conzelmann, K.K., Schwarz, M.K., Frick, A. Revealing the secrets of neuronal circuits with recombinant rabies virus technology. Front Neural Circuits. 2013;7:2. *equal contributions.10.3389/fncir.2013.00002
Haberl Lab 