Peer-reviewed publications

2024

• Amunts K., Axer M., Banerjee S., Bitsch L., Bjaalie JG., Brauner P., Brovelli A., Calarco N., Carrere M., Caspers S., Charvet CJ., Cichon S., Cools R., Costantini I., D’Angelo EU., De Bonis G., Deco G., DeFelipe J., Destexhe A., Dickscheid T., Diesmann M., Düzel E., Eickhoff SB., Einevoll G., Eke D., Engel AK., Evans AC., Evers K., Fedorchenko N., Forkel SJ., Fousek J., Friederici AD., Friston K., Furber S., Geris L., Goebel R., Güntürkün O., Hamid AIA., Herold C., Hilgetag CC., Hölter SM., Ioannidis Y., Jirsa V., Kashyap S., Kasper BS., d’Exaerde AdK., Kooijmans R., Koren I., Kotaleski JH., Kiar G., Klijn W., Klüver L., Knoll AC., Krsnik Z., Kämpfer J., Larkum ME., Linne M-L., Lippert T., Abdullah JM., Maio PD., Magielse N., Maquet P., Mascaro ALA., Marinazzo D., Mejias J., Meyer-Lindenberg A., Migliore M., Michael J., Morel Y., Morin FO., Muckli L., Nagels G., Oden L., Palomero-Gallagher N., Panagiotaropoulos F., Paolucci PS., Pennartz C., Peeters LM., Petkoski S., Petkov N., Petro LS., Petrovici MA., Pezzulo G., Roelfsema P., Ris L., Ritter P., Rockland K., Rotter S., Rowald A., Ruland S., Ryvlin P., Salles A., Sanchez-Vives MV., Schemmel J., Senn W., de Sousa AA., Ströckens F., Thirion B., Uludağ K., Vanni S., van Albada SJ., Vanduffel W., Vezoli J., Vincenz-Donnelly L., Walter F., Zaborszky L. (2024) The coming decade of digital brain research: A vision for neuroscience at the intersection of technology and computing. Imaging Neuroscience. Imaging Neuroscience 2: 1–35
  DOI: 10.1162/imag_a_00137
  
  
• Balan, P. F., Zhu, Q., Li, X., Niu, M., Rapan, L., Funck, T., Bakker, R., Palomero-Gallagher, N. and Vanduffel, W. (2024) MEBRAINS 1.0: a new population-based macaque atlas. Imaging neuroscience 2:1-26 DOI: 10.1162/imag_a_00077
  
  
• Farisco M., Baldassarre G., Cartoni E., Leach A., Petrovici M. A., Rosemann A., Salles A., Stahl B., van Albada, S. J. (2024) A method for the ethical analysis of brain-inspired AI. Artificial Intelligence Review 57(6), 1-27
  DOI: 10.1007/s10462-024-10769-4
  
  
• Jiang H-J., Qi G., Duarte R., Feldmeyer D., Sacha J van Albada SJ. (2024) A Layered Microcircuit Model of Somatosensory Cortex with Three Interneuron Types and Cell-Type-Specific Short-Term Plasticity. Cerebral Cortex 34 (9), bhae378
  DOI: 10.1093/cercor/bhae378
  
  
• Merger CL., Albers J., Honerkamp C., Helias M. (2024) Spurious self-feedback of mean-field predictions inflates infection curves. Physical review E110(2):20 DOI: 10.1103/PhysRevE.110.024308
  
  
• Morales-Gregorio A., Kurth AC., Ito J., Kleinjohann A., Barthélémy FV., Brochier T., Grün S., van Albada SJ. (2024) Neural manifolds in V1 change with top-down signals from V4 targeting the foveal region. Cell Reports 43(7): 114371.
  DOI: 10.1016/j.celrep.2024.114371
  
  
• Pronold J., van Meegen A., Vollenbröker H., Shimoura R.O., Senden M., Hilgetag C.C., Bakker R., van Albada, S.J. (2024) Multi-Scale Spiking Network Model of Human Cerebral Cortex. Cerebral Cortex. DOI: 10.1093/cercor/bhae409
  
  
• Rostami V., Rost T., Schmitt F. J., van Albada S. J. , Riehle A., Nawrot M. P. (2024) Spiking attractor model of motor cortex explains modulation of neural and behavioral variability by prior target information. Nature Communications, 15 (1), 6304. DOI: 10.1038/s41467-024-49889-4
  
  
• Senden M., van Albada S. J., Pezzulo G., Falotico E., Hashim I., Kroner A., Kurth A.C., Lanillos P., Narayanan V., Pennartz C., Petrovici M.A., Steffen L., Weidler T., Goebel R. (2024) Modular-integrative modeling: a new framework for building brain models that blend biological realism and functional performance. National Science Review 11(5),
  DOI: 10.1093/nsr/nwad318
  
  
• Senk J., Hagen E., van Albada S.J., Diesmann M. (2024) Reconciliation of weak pairwise spike-train correlations and highly coherent local field potentials across space. Cerebral Cortex. 34(10). DOI: 10.1093/cercor/bhae405

2023

• Morales-Gregorio A., van Meegen A., van Albada SJ. (2023) Ubiquitous lognormal distribution of neuron densities across mammalian cerebral cortex. Cerebral Cortex 33(6):9439–9449
  DOI: 10.1093/cercor/bhad160
  
  
• Timonidis N., Bakker R., Rubio-Teves M., Alonso-Martínez C., Garcia-Amado M., Clascá F., Tiesinga PHE. (2023) Translating single-neuron axonal reconstructions into meso-scale connectivity statistics in the mouse somatosensory thalamus. Front. Neuroinform. 17:1272243. DOI: 10.3389/fninf.2023.1272243
  
  

2022

• Chen X., Morales-Gregorio A., Sprenger J., Kleinjohann A., Sridhar S., van Albada SJ., Grün S., Roelfsema P. (2022) 1024-channel electrophysiological recordings in macaque V1 and V4 during resting state. Scientific Data 9:77.
  DOI: 10.1038/s41597-022-01180-1
  
  
• Korcsak-Gorzo A., Müller MG., Baumbach A., Leng L., Breitwieser OJ., van Albada SJ., Senn W., Meier K., Legenstein R., Petrocivi MA. (2022) Cortical oscillations support sampling-based computations in spiking neural networks. PLoS Computational Biology 18(3):e1009753.
  DOI: 10.1371/journal.pcbi.1009753
  
  
• Nowotny T., van Albada S., Fellous J.-M., Haas J. S., Jolivet R. B., Metzner C., Sharpee T. (2022) Editorial: Advances in Computational Neuroscience. Frontiers in Computational Neuroscience 15:824899.
  DOI: 10.3389/fncom.2021.824899
  
  
• Senk J., Kriener B., Djurfeldt M., Voges N., Jiang HJ., Schüttler L., Gramelsberger G., Diesmann M., Plesser HE., van Albada SJ. (2022) Connectivity concepts in neuronal network modeling. PLoS Computational Biology 18(9):e1010086.
  DOI: 10.1371/journal.pcbi.1010086
  
  
• Tiddia G., Golosio B., Albers J., Senk J., Simula F., Pronold J., Fanti V., Pastorelli E., Pier Stanislao P., van Albada SJ. (2022) Fast simulation of a multi-area spiking network model of macaque cortex on an MPI-GPU cluster. Frontiers in Neuroinformatics 16:883333.
  DOI: 10.3389/fninf.2022.883333

2021

• van Meegen A., van Albada SJ. (2021) Microscopic theory of intrinsic timescales in spiking neural networks. Physical Review Research 3(4):043077.
  DOI: 10.1103/PhysRevResearch.3.043077
  
  
• van Meegen A., Kühn T., Helias, M. (2021) Large-Deviation Approach to Random Recurrent Neuronal Networks: Parameter Inference and Fluctuation-Induced Transitions. Physical Review Letters 127(15):158302.
  DOI: 10.1103/PhysRevLett.127.158302

2020

• Timonidis N., Bakker R., Tiesinga P. (2020) Prediction of a Cell-Class-Specific Mouse Mesoconnectome Using Gene Expression Data. Neuroinformatics 18(4):611-626.
  DOI: 10.1007/s12021-020-09471-x

2019

• Gleeson P., Cantarelli M., Marin B., Quintana A., Earnshaw M., Sadeh S., Piasini E., Birgiolas J., Cannon RC., Cayco-Gajic NA., Crook S., Davison AP., Dura-Bernal S., Ecker A., Hines ML., Idili G., Lanore F., Larson SD., Lytton WW., Majumdara A., McDougal RA., Sivagnanam S., Solinas S., Stanislovas R., van Albada SJ., van Geit W., Silver RA. (2019) Open Source Brain: A Collaborative Resource for Visualizing, Analyzing, Simulating, and Developing Standardized Models of Neurons and Circuits. Neuron 103:395-411.e5.
  DOI: 10.1016/j.neuron.2019.05.019
  
  
• Hilgetag CC., Beul SF., van Albada SJ., Goulas A. (2019) An architectonic type principle integrates macroscopic cortico-cortical connections with intrinsic cortical circuits of the primate brain. Network Neuroscience 3:905-923.
  DOI: 10.1162/netn_a_00100
  
  
• Zajzon B., Morales-Gregorio A. (2019) Trans-thalamic Pathways: Strong Candidates for Supporting Communication between Functionally Distinct Cortical Areas. Journal of Neuroscience 39:7034-7036.
  DOI: 10.1523/JNEUROSCI.0656-19.2019

2018

• van Albada SJ., Rowley AG., Senk J., Hopkins M., Schmidt M., Stokes AB., Lester DR., Diesmann M., Furber SB. (2018) Performance Comparison of the Digital Neuromorphic Hardware SpiNNaker and the Neural Network Simulation Software NEST for a Full-Scale Cortical Microcircuit Model. Frontiers in Neuroscience 12:291.
  DOI: 10.3389/fnins.2018.00291
  
  
• Maksimov A., Diesmann M., van Albada SJ. (2018) Criteria on Balance, Stability and Excitability in Cortical Networks for Constraining Computational Models. Frontiers in Computational Neuroscience 12:44.
  DOI: 10.3389/fncom.2018.00044
  
  
• Schmidt M., Bakker R., Hilgetag CC., Diesmann M., van Albada SJ. (2018) Multi-scale account of the network structure of macaque visual cortex. Brain Structure and Function 223:1409-1435.
  DOI: 10.1007/s00429-017-1554-4.
  
  
• Schmidt M., Bakker R., Shen K., Bezgin G., Diesmann M., van Albada SJ. (2018) A multi-scale layer-resolved spiking network model of resting-state dynamics in macaque visual cortical areas. PLoS Computational Biology 14:e1006359.
  DOI: 10.1371/journal.pcbi.1006359

2017

• Bezgin G., Solodkin A., Bakker R., Ritter P., McIntosh AR. (2017) Mapping complementary features of cross-species structural connectivity to construct realistic “Virtual Brains”. Human Brain Mapping 38:2080–2093.
  DOI: 10.1002/hbm.23506.
  
  
• Hinne M., Meijers A., Bakker R., Tiesinga PHE., Mørup M., van Gerven MAJ. (2017) The missing link: Predicting connectomes from noisy and partially observed tract tracing data. PLoS Computational Biology 13:e1005374.
  DOI: 10.1371/journal.pcbi.1005374.
  
  
• Müller EJ., van Albada SJ., Kim JW., Robinson PA. (2017) Unified neural field theory of brain dynamics underlying oscillations in Parkinson’s disease and generalized epilepsies. Journal of Theoretical Biology 428:132–146.
  DOI: 10.1016/j.jtbi.2017.06.016.
  
  
• Schuecker J., Schmidt M., van Albada SJ., Diesmann M., Helias M. (2017) Fundamental Activity Constraints Lead to Specific Interpretations of the Connectome. PLoS Computational Biology 13:e1005179.
  DOI: 10.1371/journal.pcbi.1005179.

2016

• Hagen E., Dahmen D., Stavrinou ML., Lindén H., Tetzlaff T., van Albada SJ., Grün S., Diesmann M., Einevoll GT. (2016) Hybrid Scheme for Modeling Local Field Potentials from Point-Neuron Networks. Cerebral Cortex 26:4461–4496.
  DOI: 10.1093/cercor/bhw237.
  
  
• Maksimov A, van Albada SJ. , Diesmann M. (2016) [Re] Cellular and Network Mechanisms of Slow Oscillatory Activity (<1 Hz) and Wave Propagations in a Cortical Network Model. ReScience 2(1).
  DOI:10.5281/zenodo.161526

2015

• van Albada SJ., Helias M., Diesmann M. (2015) Scalability of Asynchronous Networks Is Limited by One-to-One Mapping between Effective Connectivity and Correlations. PLoS Computational Biology 11:e1004490.
  DOI: 10.1371/journal.pcbi.1004490.
  
  
• Bakker R., Tiesinga P., Kötter R. (2015) The Scalable Brain Atlas: Instant Web-Based Access to Public Brain Atlases and Related Content. Neuroinformatics 13:353–366.
  DOI: 10.1007/s12021-014-9258-x.
  
  
• Sergejeva M., Papp EA., Bakker R., Gaudnek MA., Okamura-Oho Y., Boline J., Bjaalie JG., Hess A. (2015) Anatomical landmarks for registration of experimental image data to volumetric rodent brain atlasing templates. Journal of Neuroscience Methods 240:161–169.
  DOI: 10.1016/j.jneumeth.2014.11.005.
  
  
• Tiesinga P., Bakker R., Hill S., Bjaalie JG. (2015) Feeding the human brain model. Current Opinion in Neurobiology 32:107–114.
  DOI: 10.1016/j.conb.2015.02.003.

2014

• Bezgin G., Rybacki K., van Opstal AJ., Bakker R., Shen K., Vakorin VA., McIntosh AR., Kötter R. (2014) Auditory–prefrontal axonal connectivity in the macaque cortex: Quantitative assessment of processing streams. Brain and Language 135:73–84.
  DOI: 10.1016/j.bandl.2014.05.006.

2013

• van Albada SJ., Robinson PA. (2013) Relationships between electroencephalographic spectral peaks across frequency bands. Frontiers in Human Neuroscience 7:56.
  DOI: 10.3389/fnhum.2013.00056
  
  
• Kerr CC., van Albada SJ., Neymotin SA., Chadderdon GL., Robinson PA., Lytton WW. (2013) Cortical information flow in Parkinson’s disease: a composite network/field model. Frontiers in Computational Neuroscience 7:39.
  DOI: 10.3389/fncom.2013.00039
  
  
• Nowke C., Hentschel B., Kuhlen T., Schmidt M., van Albada SJ., Eppler JM., Bakker R., Diesmann M. (2013) VisNEST – interactive analysis of neural activity data. IEEE BioVis 65-72.
  DOI: 10.1109/BioVis.2013.6664348
  

2012

• Bakker R., Wachtler T., Diesmann M. (2012) CoCoMac 2.0 and the future of tract-tracing databases. Frontiers in Neuroinformatics 6:30.
  DOI: 10.3389/fninf.2012.00030.
  
  
• Bezgin G., Vakorin VA., van Opstal AJ., McIntosh AR., Bakker R. (2012) Hundreds of brain maps in one atlas: registering coordinate-independent primate neuro-anatomical data to a standard brain. NeuroImage 62:67–76.
  DOI: 10.1016/j.neuroimage.2012.04.013.
  
  
• Crook SM., Bednar JA., Berger S., Cannon R., Davison AP., Djurfeldt M., Eppler J., Kriener B., Furber S., Graham B., Plesser HE., Schwabe L., Smith L., Steuber V., van Albada SJ. (2012) Creating, documenting and sharing network models. Network: Computation in Neural Systems 23:131–149.
  DOI: 10.3109/0954898X.2012.722743.

2011

• Chiang AKI., Rennie CJ., Robinson PA., van Albada SJ., Kerr CC. (2011) Age trends and sex differences of alpha rhythms including split alpha peaks. Clinical Neurophysiology 122:1505–1517.
  DOI: 10.1016/j.clinph.2011.01.040.