Bast, A., Fruengel, R., de Kock, C.P.J., and Oberlaender, M. (2024). Network-neuron interactions underlying sensory responses of layer 5 pyramidal tract neurons in barrel cortex. PLoS Comput Biol 20, e1011468. 
Oberlaender, M. (2023). Anatomical and Physiological Basis for the Flow of Thalamocortical Inputs Across the Layers of the Primary Sensory Cortex. In The Cerebral Cortex and Thalamus, W.M. Usrey, and S.M. Sherman, eds. (Oxford University Press), pp. 55-64.
Boelts, J., Harth, P., Gao, R., Udvary, D., Yanez, F., Baum, D., Hege, H.-C., Oberlaender, M., and Macke, J.H. (2023). Simulation-based inference for efficient identification of generative models in computational connectomics. PLoS Comput. Biol. 19, e1011406.
Manubens-Gil, L., Zhou, Z., Chen, H., Ramanathan, A., Liu, X., Liu, Y., Bria, A., Gillette, T., Ruan, Z., Yang, J., et al. (2023). BigNeuron: a resource to benchmark and predict performance of algorithms for automated tracing of neurons in light microscopy datasets. Nat Methods 20, 824-835. 
Royero, P., Quatraccioni, A., Früngel, R., Silva, M.H., Bast, A., Ulas, T., Beyer, M., Opitz, T., Schultze, J.L., Graham, M.E., Oberlaender, M., Becker, A., Schoch, S., Beck, H. (2022). Circuit-selective cell-autonomous regulation of inhibition in pyramidal neurons by Ste20-like kinase. Cell Rep 41, 111757.
Udvary, D., Harth, P., Macke, J.H., Hege, H.-C., de Kock, C.P.J., Sakmann, B., and Oberlaender, M. (2022). The impact of neuron morphology on cortical network architecture. Cell Rep 39, 110677.
De Kock, C.P.J., Pie, J., Pieneman, A.W., Mease, R.A., Bast, A., Guest, J.M., Oberlaender, M., Mansvelder, H.D., and Sakmann, B. (2021). High-frequency burst spiking in layer 5 thick-tufted pyramids of rat primary somatosensory cortex encodes exploratory touch. Commun Biol 4, 709.
Egger, R., Narayanan, R.T., Guest, J.M., Bast, A., Udvary, D., Messore, L.F., Das, S., De Kock, C.P.J., and Oberlaender, M. (2020). Cortical output is gated by horizontally projecting neurons in the deep layers. Neuron 105, 122-137.
Leopold, D.A., Strick, P.L., Bassett, D.S., Bruno, R.M., Cuntz, H., Harris, K.M., Oberlaender, M., and Raichle, M.E. (2019). Functional architecture of the cerebral cortex. In The Neocortex, W. Singer, ed. (Cambridge, MA: MIT Press), pp. 141-164.
Oberlaender, M. (2019). Neuronal morphology and its significance. In The Neocortex, W. Singer, ed. (Cambridge, MA: MIT Press), pp. 125-139.
Benezra, S.E., Narayanan, R.T., Egger, R., Oberlaender, M., and Long, M.A. (2018). Morphological characterization of HVC projection neurons in the zebra finch (Taeniopygia guttata). J Comp Neurol 526, 1673-1689.
Guest, J.M., Seetharama, M.M., Wendel, E.S., Strick, P.L., and Oberlaender, M. (2018). 3D reconstruction and standardization of the rat facial nucleus for precise mapping of vibrissal motor networks. Neuroscience 368, 171-186.
Narayanan, R.T., Udvary, D., and Oberlaender, M. (2017). Cell type-specific structural organization of the six layers in rat barrel cortex. Front Neuroanat 11, 91.
Rojas-Piloni, G., Guest J.M., Egger, R., Johnson, A.S., Sakmann, B., and Oberlaender, M. (2017). Relationships between structure, in vivo function and long-range axonal target of cortical pyramidal tract neurons. Nat Commun 8, 870.
Kornfeld, J., Benezra, S.E., Narayanan, R.T., Svara, F., Egger, R., Oberlaender, M., Denk, W., and Long, M.A. (2017). EM connectomics reveals axonal target variation in a sequence-generating network. Elife 6, e24364.
Landau, I.D., Egger, R., Dercksen, V.J., Oberlaender, M., and Sompolinsky, H. (2016). The impact of structural heterogeneity on excitation-inhibition balance in cortical networks. Neuron 92, 1106-1121.
Narayanan, R.T., Egger, R., de Kock, C.P.J., and Oberlaender, M. (2016). Neuronal cell types in the neocortex [Chapter 9]. In Axons and brain architecture, K.S. Rockland, ed. (San Diego: Academic Press), pp. 183-202.
Egger, R., Schmitt, A.C., Wallace, D.J., Sakmann, B., Oberlaender, M., and Kerr, J.N. (2015).
Robustness of sensory-evoked excitation is increased by inhibitory inputs to distal apical tuft dendrites. Proc Natl Acad Sci U S A 112, 14072-14077.
Egger, R., and Oberlaender, M. (2015). Cell Types in the cerebral cortex: an overview from the rat vibrissal cortex. In Brain Mapping: An Encyclopedic Reference. A.W. Toga, ed. (Amsterdam, The Netherlands: Academic Press), Vol 2, pp. 59-64.
Narayanan, R.T., Egger, R., Johnson, A.S., Mansvelder, H.D., Sakmann, B., de Kock, C.P., and Oberlaender, M. (2015).
Beyond columnar organization: cell type- and target layer-specific principles of horizontal axon projection patterns in rat vibrissal cortex. Cereb. Cortex 25, 4450-4468.
Egger, R., Dercksen, V., De Kock, C., and Oberlaender, M. (2014). Reverse engineering the 3D structure and sensory-evoked signal flow of rat vibrissal cortex. In The computing dendrite: From structure to function, H. Cuntz, M.W.H. Remme, and B. Torben-Nielsen, eds (New York, NY, USA: Springer), pp. 127-145.
Egger, R., Dercksen, V.J., Udvary, D., Hege, H.C., and Oberlaender, M. (2014). Generation of dense statistical connectomes from sparse morphological data. Front Neuroanat 8, 129.
Dercksen, V.J., Hege, H.C., and Oberlaender, M. (2014). The filament editor: an interactive software environment for visualization, proof-editing and analysis of 3D neuron morphology. Neuroinformatics 12, 325-339.
Haberl, M., da Silva, S.V., Guest, J.M., Ginger, K., Ghanem, A., Mulle, C., Oberlaender, M., Conzelmann, K., and Frick, A. (2014). An anterograde rabies virus vector for high-resolution large-scale reconstruction of 3D neuron morphology. Brain Struct Funct 220, 1369-1379.
Meyer, H.S,, Egger, R., Guest, J.M., Foerster, R., Reissl, S., and Oberlaender, M. (2013). Cellular organization of cortical barrel columns is whisker-specific. Proc Natl Acad Sci U S A 110, 19113-19118.
Egger, R., Narayanan, R.T., Helmstaedter, .M, de Kock, C.P.J., and Oberlaender, M. (2012).
3D reconstruction and standardization of rat vibrissal cortex for precise registration of single neuron morphology. PLoS Comput Biol 8, e1002837.
Oberlaender, M., Ramirez, A., and Bruno, R.M. (2012). Sensory experience restructures thalamocortical axons during adulthood. Neuron 74, 648-655.
Dercksen, V.J., Oberlaender, M., Sakmann, B., and Hege, H.C. (2012). Interactive Visualization as a key prerequisite for reconstruction of anatomically realistic neural networks. In Visualization in medical and life sciences II: Progress and new challenges, L. Linsen, H. Hagen, B. Hamann, and H.-C. Hege, eds (Berlin, Germany: Springer), pp. 27-44.
Oberlaender, M, de Kock, C.P., Bruno, R.M., Ramirez, A., Meyer, H.S., Dercksen, V.J., Helmstaedter, M., and Sakmann, B. (2012). Cell type-specific three-dimensional structure of thalamocortical circuits in a column of rat vibrissal cortex. Cereb Cortex 22, 2375-2391.
Oberlaender, M., Boudewijns, Z.S., Kleele, T., Mansvelder, H.D., Sakmann, B., and de Kock, C.P. (2011). Three-dimensional axon morphologies of individual layer 5 neurons indicate cell type-specific intracortical pathways for whisker motion and touch. Proc Natl Acad Sci U S A 108, 4188-4193.
Lang, S., Dercksen, V.J., Sakmann, B., and Oberlaender, M. (2011). Simulation of signal flow in 3D reconstructions of anatomically realistic neural networks. Neural Netw 24, 998-1011.
Kleinfeld, D., Bharioke, A., Blinder, P., Bock, D.D., Briggman, K.L., Chklovskii, D.B., Denk, W., Helmstaedter, M., Kaufhold, J.P., Lee, W.C., Meyer, H.S.M., Micheva, K.D., Oberlaender, M., Prohaska, S., Reid, R.C., Smith, S.J., Takemura, S., Tsai, P.S., and Sakmann, B. (2011). Large-scale automated histology in the pursuit of connectomes. J Neurosci 31, 16125-16138.
Boudewijns, Z.S.R.M., Kleele, T., Mansvelder, H.D., Sakmann, B., de Kock, C.P.J., and Oberlaender, M. (2011). Semi-automated three-dimensional reconstructions of individual neurons reveal cell type-specific circuits in cortex. Commun Integr Biol 4, 486-488.
Meyer, H.S.M., Wimmer, V.C., Oberlaender, M., de Kock, C.P.J., Sakmann, B., and Helmstaedter, M. (2010).
Number and laminar distribution of neurons in a thalamocortical projection column of rat vibrissal cortex. Cereb Cortex 20, 2277-2286.
Oberlaender, M., Dercksen, V.J., Egger, R., Gensel, M., Sakmann, B., and Hege, H.C. (2009). Automated three-dimensional detection and counting of neuron somata. J Neurosci Methods 180, 147-160.
Oberlaender, M., Broser, P.J., Sakmann, B., and Hippler, S. (2009). Shack-Hartmann wave front measurements in cortical tissue for deconvolution of large 3D mosaic transmitted light brightfield micrographs. J Microsc 233, 275-289.
Oberlaender, M., Bruno, R.M., Sakmann, B., and Broser, P.J. (2007). Transmitted light brightfield mosaic microscopy for three-dimensional tracing of single neuron morphology. J Biomed Opt 12, 064029.
Leopold, D.A., Strick, P.L., Bassett, D.S., Bruno, R.M., Cuntz, H., Harris, K.M., Oberlaender, M., and Raichle, M.E. (2019). Functional architecture of the cerebral cortex. In The neocortex, W. Singer, T.J. Sejnowski, and P. Rakic, eds. (Cambridge, MA: The MIT Press), pp. 141-164.
Oberlaender, M. (2019). Neuronal morphology and its significance. In The neocortex, W. Singer, T.J. Sejnowski, and P. Rakic, eds. (Cambridge, MA: The MIT Press), pp. 125-139.
Barth, A., Burkhalter, A., Callaway, E.M., Connors, B.W., Cauli, B., DeFelipe, J., Feldmeyer, D., Freund, T., Kawaguchi, Y., Kisvarday, Z., Kubota, Y., McBain, C., Oberlaender, M., Rossier, J., Rudy, B., Staiger, J.F., Somogyi, P., Tamas, G., and Yuste, R. (2016). Comment on "Principles of connectivity among morphologically defined cell types in adult neocortex". Science 353, 1108.
Dercksen, V., Egger, R., Hege, H.-C., and Oberlaender, M. (2012). Synaptic connectivity in anatomically realistic neural networks: modeling and visual analysis. In Eurographics Workshop on Visual Computing for Biology and Medicine, T. Ropinski, A. Ynnerman, C. Botha, and J. Roerdink, eds. (Goslar, Germany: Eurographics Association), pp. 17-24.
Dercksen, V., Weber, B., Gunther, D., Oberlaender, M., Prohaska, S., and Hege, H.-C. (2009). Automatic alignment of stacks of filament data. In 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, (Piscataway, NJ, USA: IEEE), pp. 971-974.