{"entity": "researcher", "timestamp": "2026-08-20T20:49:51.965Z", "family": "Hjorth", "given": "J J Johannes", "initials": "JJJ", "orcid": "0000-0002-9302-0750", "affiliations": ["Science for Life Laboratory, School of Electrical Engineering and Computer Science, KTH Royal Institute of Technology, SE-10044, Stockholm, Sweden. hjorth@kth.se."], "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/researcher/ec9300bb976d4038a766d908fcd0ce86.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/researcher/ec9300bb976d4038a766d908fcd0ce86"}}, "publications": [{"entity": "publication", "iuid": "e799bf76a2334aad9c686bb13e7bc707", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/e799bf76a2334aad9c686bb13e7bc707.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/e799bf76a2334aad9c686bb13e7bc707"}}, "title": "The impact of Parkinson's disease on striatal network connectivity and corticostriatal drive: An in silico study.", "authors": [{"family": "Carannante", "given": "Ilaria", "initials": "I", "orcid": "0000-0001-8210-8709", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d94ae668884641ec9ba2713e0db64d61.json"}}, {"family": "Scolamiero", "given": "Martina", "initials": "M"}, {"family": "Hjorth", "given": "J J Johannes", "initials": "JJJ", "orcid": "0000-0002-9302-0750", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ec9300bb976d4038a766d908fcd0ce86.json"}}, {"family": "Kozlov", "given": "Alexander", "initials": "A"}, {"family": "Bekkouche", "given": "Bo", "initials": "B"}, {"family": "Guo", "given": "Lihao", "initials": "L", "orcid": "0000-0002-9982-6229", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/d3adb76adf48468092952ae4809796d2.json"}}, {"family": "Kumar", "given": "Arvind", "initials": "A", "orcid": "0000-0002-8044-9195", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/cf2fe30252074acb8d09f88f6c9b55f3.json"}}, {"family": "Chach\u00f3lski", "given": "Wojciech", "initials": "W", "orcid": "0000-0002-2665-9001", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/59be49fa28984d38ac328e451be56820.json"}}, {"family": "Kotaleski", "given": "Jeanette Hellgren", "initials": "JH", "orcid": "0000-0002-0550-0739", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a920517bd1c142878f03bee05e843b62.json"}}], "type": "journal article", "published": "2024-12-10", "journal": {"title": "Netw Neurosci", "issn": "2472-1751", "volume": "8", "issue": "4", "pages": "1149-1172", "issn-l": null}, "abstract": "Striatum, the input stage of the basal ganglia, is important for sensory-motor integration, initiation and selection of behavior, as well as reward learning. Striatum receives glutamatergic inputs from mainly cortex and thalamus. In rodents, the striatal projection neurons (SPNs), giving rise to the direct and the indirect pathway (dSPNs and iSPNs, respectively), account for 95% of the neurons, and the remaining 5% are GABAergic and cholinergic interneurons. Interneuron axon terminals as well as local dSPN and iSPN axon collaterals form an intricate striatal network. Following chronic dopamine depletion as in Parkinson's disease (PD), both morphological and electrophysiological striatal neuronal features have been shown to be altered in rodent models. Our goal with this in silico study is twofold: (a) to predict and quantify how the intrastriatal network connectivity structure becomes altered as a consequence of the morphological changes reported at the single-neuron level and (b) to investigate how the effective glutamatergic drive to the SPNs would need to be altered to account for the activity level seen in SPNs during PD. In summary, we predict that the richness of the connectivity motifs in the striatal network is significantly decreased during PD while, at the same time, a substantial enhancement of the effective glutamatergic drive to striatum is present.", "doi": "10.1162/netn_a_00394", "pmid": "39735495", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC11674317"}, {"db": "pii", "key": "netn_a_00394"}], "notes": [], "created": "2026-08-20T12:16:23.614Z", "modified": "2026-08-20T12:16:23.766Z"}, {"entity": "publication", "iuid": "b3c5a34d9afc4b5c8febfa44e3feae9d", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/b3c5a34d9afc4b5c8febfa44e3feae9d.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/b3c5a34d9afc4b5c8febfa44e3feae9d"}}, "title": "Predicting Synaptic Connectivity for Large-Scale Microcircuit Simulations Using Snudda.", "authors": [{"family": "Hjorth", "given": "J J Johannes", "initials": "JJJ", "orcid": "0000-0002-9302-0750", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ec9300bb976d4038a766d908fcd0ce86.json"}}, {"family": "Hellgren Kotaleski", "given": "Jeanette", "initials": "J", "orcid": "0000-0002-0550-0739", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a920517bd1c142878f03bee05e843b62.json"}}, {"family": "Kozlov", "given": "Alexander", "initials": "A", "orcid": "0000-0003-3994-0799", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/bcd020bb912c4ff59b2cd86e28ac8d5c.json"}}], "type": "journal article", "published": "2021-10-00", "journal": {"title": "Neuroinformatics", "issn": "1559-0089", "volume": "19", "issue": "4", "pages": "685-701", "issn-l": null}, "abstract": "Simulation of large-scale networks of neurons is an important approach to understanding and interpreting experimental data from healthy and diseased brains. Owing to the rapid development of simulation software and the accumulation of quantitative data of different neuronal types, it is possible to predict both computational and dynamical properties of local microcircuits in a 'bottom-up' manner. Simulated data from these models can be compared with experiments and 'top-down' modelling approaches, successively bridging the scales. Here we describe an open source pipeline, using the software Snudda, for predicting microcircuit connectivity and for setting up simulations using the NEURON simulation environment in a reproducible way. We also illustrate how to further 'curate' data on single neuron morphologies acquired from public databases. This model building pipeline was used to set up a first version of a full-scale cellular level model of mouse dorsal striatum. Model components from that work are here used to illustrate the different steps that are needed when modelling subcortical nuclei, such as the basal ganglia.", "doi": "10.1007/s12021-021-09531-w", "pmid": "34282528", "labels": [], "xrefs": [{"db": "pmc", "key": "PMC8566446"}, {"db": "pii", "key": "10.1007/s12021-021-09531-w"}], "notes": [], "created": "2026-08-20T06:40:25.552Z", "modified": "2026-08-20T06:40:25.705Z"}, {"entity": "publication", "iuid": "93f150f40d0145e4bc4fc2c746510f4b", "links": {"self": {"href": "https://publications-affiliated.scilifelab.se/publication/93f150f40d0145e4bc4fc2c746510f4b.json"}, "display": {"href": "https://publications-affiliated.scilifelab.se/publication/93f150f40d0145e4bc4fc2c746510f4b"}}, "title": "Predicting synaptic connectivity for large-scale microcircuit simulations using Snudda", "authors": [{"family": "Hjorth", "given": "J J Johannes", "initials": "JJJ", "orcid": "0000-0002-9302-0750", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/ec9300bb976d4038a766d908fcd0ce86.json"}}, {"family": "Kotaleski", "given": "Jeanette Hellgren", "initials": "JH", "orcid": "0000-0002-0550-0739", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/a920517bd1c142878f03bee05e843b62.json"}}, {"family": "Kozlov", "given": "Alexander", "initials": "A", "orcid": "0000-0003-3994-0799", "researcher": {"href": "https://publications-affiliated.scilifelab.se/researcher/bcd020bb912c4ff59b2cd86e28ac8d5c.json"}}], "type": "posted-content", "published": "2021-04-15", "journal": {"issn-l": null}, "abstract": null, "doi": "10.1101/2021.04.15.439985", "pmid": null, "labels": [], "xrefs": [], "notes": [], "created": "2026-08-20T10:03:59.797Z", "modified": "2026-08-20T10:03:59.860Z"}]}