Risultati finali Other (18) D4.4.1 All Models of Key Cognitive Processes developed during SGA2 Presentation of all models developed by WP4.4 during the SGA2, including: functions and performance, validation (by SP4, by rest of the HBP and/or by third parties), how results compare to targeted impact, and links to models and related datasets in publicly accessible online repositories. D2.4.1 Software tool for brain structure - phenotype associations Software tool for brain structure - phenotype associations implemented (T2.4.2); software available for usage D9.1.1 Working prototype of a Collaboratory app for graphical model building Collaboratory app usable by an SP9 member outside the developer team D5.6.1 Interactive classifier training via the new Viewer Users can train machine learning algorithms interactively by giving annotations in the web-based Viewer (T5.6.1) D2.6.1 Tool for Morphological classification of neurons Tool for Morphological classification of neurons (T2.6.4) made available; storage of software on HBP Collab D5.3.1 New release of interactive spatial alignment tool We will deploy the 2nd release of the interactive spatial alignment tool started in SGA1. The release will provide a significantly streamlined user interface, especially a much better user experience in terms of landmark management and interactive navigation. (T5.3.3) D7.3.1 Multi-compartment benchmark and validation suites on HPC systems The validation and benchmark suites for multi- compartment simulators are deployed and their associated documentation can be downloaded from public repositories; the continuous integration framework is publishing up to date validation and benchmark results from HPC systems used in the HBP. D9.5.1 Temporal filtering network Network for temporal filtering running on SpiNNaker (Task 9.5.1) D2.3.1 Alignment strategy of datasets from TPFM, 3D-PLI, and dMRI Alignment strategy of datasets from TPFM, 3D-PLI, and dMRI implemented (T2.3.4); Datasets made available in the HBP human brain atlas D9.3.1 PyNN 0.9 on SpiNNaker As complete a PyNN 0.9 implementation on SpiNNaker as possible (Task 9.3.3) D5.7.1 Representations of optical imaging data in the Neo data object model This is a release of the Neo library that contains support for the representations of optical imaging data. This feature will facilitate the analysis of activity data obtained from optical imaging experiments using tools built on the Neo data model. Successful representation of a dataset in the Neo object model, and the subsequent application of an analysis function of the Elephant framework on that data object, will be shown (T5.7.1-2) D4.3.1 All Models of Plasticity, Learning and Memory developed during SGA2 Presentation of all models developed by WP4.3 during the SGA2, including: functions and performance, validation (by SP4, by rest of the HBP and/or by third parties), how results compare to targeted impact, and links to models and related datasets in publicly accessible online repositories. D4.5.1 All Whole-Brain Models developed during SGA2 and Comparison with Experiments Presentation of all models developed by WP4.5 during the SGA2, including: functions and performance, validation (by SP4, by rest of the HBP and/or by third parties), how results compare to targeted impact, and links to models and related datasets in publicly accessible online repositories. D2.1.1 Comparison of Deep-learning based cytoarchitectonic mapping of cortex in the big brain against gold standard cytoarchitectonic map Deep-learning based cytoarchitectonic mapping of cortex in the big brain and comparison against gold standard cytoarchitectonic map (T2.1.4); map made available in the HBP human brain atlas D8.5.3 Μedical Informatics Platform Releases - SOFTWARE & REPORT Μedical Informatics Platform Releases - SOFTWARE & REPORT D5.4.1 First release of software adapted to new Viewer Architecture Coordinated release of several services related to atlas viewers, adapted to a more unified viewer infrastructure. The architecture of this unified viewer ecosystem will be specified by SP5 towards the end of SGA1 and become the basis for this work. (T5.4.3) D4.2.1 All Models of Brain Circuits developed during SGA2 Presentation of all models developed by WP4.2 during the SGA2, including: functions and performance, validation (by SP4, by rest of the HBP and/or by third parties), how results compare to targeted impact, and links to models and related datasets in publicly accessible online repositories. D4.1.1 All Models for Bridging Scales developed during Presentation of all models developed by WP4.1 during the SGA2, including: functions and performance, validation (by SP4, by rest of the HBP and/or by third parties), how results compare to targeted impact, and links to models and related datasets in publicly accessible online repositories. Documents, reports (62) D6.1.1 SP6 Annual Compound Deliverable Year 1 Overview of key results and impact achieved in M1-M12, tailored for presentation to the relevant audiences (research/industry/public). References to HBP/SP/CDP objectives and use cases for navigation between multiple Subprojects. Linkage of results to components/a set of component factsheets (lower-level information: component ownership, technology readiness level, performed quality control checks, etc.). D12.4.1 Data Policy Manual Having a set of data-related policies is a requirement for the HBP in order to: -Ensure that expectations with regards to data handling are clear -Comply with all data-related regulations and legislation, in particular those related to data protection -Ensure that all data registered and used in the HBP comply with ethical and other requirements -Demonstrate good management and leadership and implement good practice in data management Milestone verified by upload of the Data Policy Manual. D1.6.2 SP1 Mouse Brain Organisation and Interspecies Comparisons - Second Data Results package (update on implementation of the DMP - M24) WPs involved: WP1.1, WP1.2, WP1.3, WP1.4, WP1.5, and WP1.6 Contents: final report on the SP1 planned deliveries. This report will include the datasets generated in the SGA2 on whole brain and four major brain circuits (neocortex, cerebellum, basal ganglia, and hippocampus) data. This report will also include the final results on the integration of molecular, cellular and functional data (neocortex, cerebellum, basal ganglia, and hippocampus) and its application for modelling. D1.3.2 CDP1 Annual Compound Deliverable Year 2 CDP1 Annual Compound Deliverable Year 2 Overview of Key Results and Impact achieved in M13 to M24, tailored for presentation to the relevant audiences (research/industry/public) References to HBP/SP/CDP objectives and Use Cases for navigation between multiple Sub-Projects Linkage of Results to components/a set of component fact sheets (lower level information: Component ownership, Technology Readiness level, performed Quality Control checks, etc.) D5.1.1 Completion of SGA1 data/model curation into NIP meta data database Table showing link between data/model components in PLA and curated data/models in NIP (T5.1.1-2) D8.6.1 CDP6 Results SGA2 Year 1 Implementation for accurate HPC-based screening protocols of neuro-drug candidates CDP6 Results SGA2 Year 1 Implementation for accurate HPC-based screening protocols of neuro-drug candidates. CDP6 Annual compound deliverable Year 1 Overview of Key Results and Impact achieved in M1 to M12, tailored for presentation to the relevant audiences (research/industry/public) References to HBP/SP/CDP objectives and Use Cases for navigation between multiple Sub-Projects Linkage of Results to components/a set of component fact sheets (lower level information: Component ownership, Technology Readiness level, performed Quality Control checks, etc.) This deliverable will also refer to results for SGA2_HPC-based chemical optimisation codes and increasing ligand specificity toward receptors' subclasses D12.5.2 SGA2 - SP12 M24 reporting (Component id: 2328) Progress report SP12 M24 SGA2 D9.6.2 SP9 Neuromorphic Computing Platform - Results from SGA2 year 2 The summary of SP 9 results for project months M13-24, broken down by task. WPs involved: WP9.1, WP9.2, WP9.3, WP9.4, WP9.5 and WP9.6 In order to report fully, the Deliverable may need to include information that the SP does not wish to make public at the time of the report. This material will be included in the Deliverable for the EC and Reviewers, but not in the version published publicly. D6.4.1 CDP2 Annual Compound Deliverable Year 2 Overview of key results and impact achieved in M13-M24, tailored for presentation to the relevant audiences (research/industry/public). References to HBP/SP/CDP objectives and use cases for navigation between multiple Subprojects. Linkage of results to components/a set of component factsheets (lower-level information: component ownership, technology readiness level, performed quality control checks, etc.). D2.7.3 CDP3 Results for SGA2 Year 1 CDP3 SGA2 Results Overview Deliverable: Overview of Key Results achieved in M1 to M12, tailored for presentation to the relevant audiences (research/industry/public) D3.1.1 Simultaneous 2-photon calcium imaging in dendritic tufts receiving feedback inputs, and cell bodies of the same neurons receiving feedforward inputs Data collected and paper published. Cross-species comparisons in visual cortex incorporated. (T.3.1.2) D10.5.2 SP10 Neurorobotics Platform - Results for SGA2 Year 2 WPs involved: WP10.1, WP10.2, WP10.3, WP10.4 & WP10.5 Summary of SP Results for M12-24, broken down by Task: o Actual vs. planned results (due & done/due & not done) o Results passed to another Task, WP or SP (due & done/due & not done) o Milestones due and achieved, how validated, by whom. o Milestones due but not achieved, why, impact, corrective action o Publications D7.2.1 Key technologies for fast data access and retrieval This report summarises key technologies to support fast data access and retrieval for interactive analysis and visualisation, which have been identified and tested. This deliverable does not yet comprise the final implementation of these technologies. D12.3.2 2nd Report SP12-SGA2: Lessons from stakeholder engagement and dialogue The report collects up on the lessons learned from stakeholder dialogue and engagement in the Human Brain Project, from the ramp-up to the end of the SGA2 phase, and it develops foundation for stakeholder engagement in the final phases of the Human Brain Project. D11.5.1 Fourth HBP Curriculum teaching cycle released (T11.5.2) Third HBP Curriculum teaching cycle through online questionnaire evaluated and online courses adapted. Fourth teaching cycle started and Call for Expression of Interest for HBP Curriculum Workshops announced. Evaluation results are made available for consortium members and the public upon request. Call for Expression of Interest announced to the scientific community. D8.5.1 Software requirements specifications (SRS) - REPORT Software requirements specifications (SRS) - REPORT D6.3.1 SP6 Annual Compound Deliverable Year 2 Overview of key results and impact achieved in M13-M24, tailored for presentation to the relevant audiences (research/industry/public). References to HBP/SP/CDP objectives and use cases for navigation between multiple Subprojects. Linkage of results to components/a set of component factsheets (lower-level information: component ownership, technology readiness level, performed quality control checks, etc.). D5.8.2 SP5 Neuroinformatics Platform - Results for SGA2 Year 2 Summary of SP Results for M13-24, broken down by Task: o Actual vs. planned results (due & done/due & not done) o Results passed to another Task, WP or SP (due & done/due & not done) o CDP Products (due & done/due & not done) o Milestones due and achieved, how validated, by whom. o Milestones due but not achieved, why, impact, corrective action o Publications NOTE: In order to report fully on the above topics, the Deliverable may need to include information that we would not wish to make public. This material will be included in the Deliverable for the EC and Reviewers, but not in the version published on the HBP public website. D12.3.1 Report on SP12-SGA2 Citizen engagement Report on citizen engagement activities across Europe, including recommendations from citizens to the Human Brain Project. D8.4.1 Reports on disease signatures via sub-type identification, on development and application of methods, and tools Report on identification of disease signatures and application development is delivered. D5.2.1 Release of updated atlas curation supporting material Users can access tutorials and SOPs from HBP workbench or request support from UiO atlas curation team (T5.2.2) D5.8.1 SP5 Neuroinformatics Platform - Results for SGA2 Year 1 SP5 Neuroinformatics Platform - Results for SGA2 Year 1 Summary of SP Results for M1-12, broken down by Task: o Actual vs. planned results (due & done/due & not done) o Results passed to another Task, WP or SP (due & done/due & not done) o CDP Products (due & done/due & not done) o Milestones due and achieved, how validated, by whom. o Milestones due but not achieved, why, impact, corrective action o Publications o SP Roadmap for SGA2, validated by other SPs receiving inputs from your SP NOTE: In order to report fully on the above topics, the Deliverable may need to include information that we would not wish to make public. This material will be included in the Deliverable for the EC and Reviewers, but not in the version published on the HBP public website. D8.3.1 Signed partnership with one European reference network Signed partnership with one European reference network D3.6.1 Systems and Cognitive Neuroscience - Results for SGA2 Year 1 WPs involved: WP3.1, WP3.2., WP3.3, WP3.4, WP3.5, WP3.6 Summary of SP3 Results for M1-12, broken down by Task: o Actual vs. planned results (due & done/due & not done) o Results passed to another Task, WP or SP (due & done/due & not done) o CDP products (due & done/due & not done) o Milestones due and achieved, how validated, by whom. o Milestones due but not achieved, why, impact, corrective action o Publications D2.7.4 CDP3 Results for SGA2 Year 2 CDP3 SGA2 Results Overview Deliverable Overview of Key Results achieved in M13 to M24, tailored for presentation to the relevant audiences (research/industry/public) D9.4.1 CDP5-Biological deep learning: Results for SGA2 Year 1 CDP5-Biological deep learning: Results for SGA2 Year 1 CDP5 Annual compound deliverable Year 1 Overview of Key Results and Impact achieved in M1 to M12, tailored for presentation to the relevant audiences (research/industry/public) References to HBP/SP/CDP objectives and Use Cases for navigation between multiple Sub-Projects Linkage of Results to components/a set of component fact sheets (lower level information: Component ownership, Technology Readiness level, performed Quality Control checks, etc.) This deliverable will be a public report including theoretical research on learning principles, their transfer to the HBP computing infrastructures in SP7 and SP9, results of initial experiments and plans for M13 to M24 in SGA2 D4.6.1 SP4 EITN activity report Report on EITN activity, its success, points that can be improved and what is foreseen D8.2.1 MIP installed in Thirty Hospitals MIP installed in Thirty Hospitals Demonstration of MIP software installation in 30 hospitals. Demonstration will be in form of a summary report of results: data profiling in each site, issues and lessons learned, user tests and feedback received during the hand-over and training. D5.10.1 CDP8 Results SGA2 CDP8 SGA2 Results Overview Deliverable: Overview of Key Results achieved in M1 to M24, tailored for presentation to the relevant audiences. WPs involved: WP5.10. Key results involved: KRc8.1, KRc8.2, KRc8.3. Use cases involved: SGA2-SP4-UC001, SGA2-SP5-UC001, SGA2-SP5-UC002, SGA2-SP6-UC001, SGA2-SP6-UC003, SGA2-SP7-UC001, SGA2-SP11-UC003. The report summarizes the results obtained during the project phase, which will involve: code for large-scale brain simulation on HBP’s Joint Platform; code for connectome extraction and integration of results into NIP ontology; interactive tutorials; preprocessed connectomes from major repositories; online version of von Economo and Koskinas atlas; linked connectivity to architectonic data; human connectivity predictions. D1.6.3 SP1 Mouse Brain Organisation and Interspecies Comparisons - Comparative study of cells and microcircuits in the rodent and human brain WPs involved: WP1.1, WP1.2, WP1.3, WP1.4, WP1.5, and WP1.6 Contents: report on the final comparative study of cells and microcircuits in the rodent and human brain. D7.6.1 SP7 High-Performance Analytics and Computing Platform - Results for SGA2 Year 1 High Performance Analytics and Computing Platform v2.5. The Platform, accessible to end users through the HBP Collaboratory, will provide the HBP and the neuroscience community with access to federated data and scalable compute resources as well as visualisation and simulation technology. D9.4.2 CDP5-Biological deep learning: Results for SGA2 Year 2 CDP5 Annual compound deliverable Year 2 Overview of Key Results and Impact achieved in M13 to M24, tailored for presentation to the relevant audiences (research/industry/public) References to HBP/SP/CDP objectives and Use Cases for navigation between multiple Sub-Projects Linkage of Results to components/a set of component fact sheets (lower level information: Component ownership, Technology Readiness level, performed Quality Control checks, etc.) This deliverable will be a public report including theoretical research on learning principles, their transfer to the HBP computing infrastructures in SP7 and SP9, final experimental results and applications, an evaluation of the developments outside the HBP and a planning outlook to SGA3. D12.2.1 Report on conceptual issues in human identity Report on conceptual issues in human identity. D2.7.2 SP2 Human Brain Organisation - Results for SGA2 Year 2 WPs involved: WP2.1, WP2.2., WP2.3, WP2.4, WP2.5, WP2.6 & WP2.7 Summary of SP Results for M13-24 D8.10.1 Provide operational MIP infrastructures to UKAACHEN and CHARITE Provide operational MIP infrastructures to UKAACHEN (P73) and CHARITE (P122), to develop and implement a pathophysiological model for neurobehavioural symptom clustering. Test run and report of data analysis. D7.6.2 SP7 High-Performance Analytics and Computing Platform - Results for SGA2 Year 2 High Performance Analytics and Computing Platform v3. The Platform, accessible to end users through the HBP Collaboratory, will provide the HBP and the neuroscience community with access to federated data and scalable compute resources. It will also provide visualisation and exascale-ready simulation technology. D8.1.2 SP8 MIP - Results for SGA2 Year 2 SP8 MIP - Results for SGA2 period 2 SP8 Summary of Results for M12-24: actual vs. planned results o Risks and Issues log updated o Key Results, Impact status & Exceptional Achievements (from users' perspective) o Dependent results flow (i.e. if/how dependent components were incorporated into the next) o Milestones due and achieved, how validated, by whom o Milestones due but not achieved, why, impact, corrective action o Lessons Learned (and if any incorporated already) o Product Roadmap updated o Platform User feedback on the period o Publications D6.2.1 CDP2 Annual Compound Deliverable Year 1 Overview of key results and impact achieved in M1-M12, tailored for presentation to the relevant audiences (research/industry/public). References to HBP/SP/CDP objectives and use cases for navigation between multiple Subprojects. Linkage of results to components/a set of component factsheets (lower-level information: component ownership, technology readiness level, performed quality control checks, etc.). D1.6.1 SP1 Mouse Brain Organisation and Interspecies Comparisons: First Data Results package (update on implementation of the DMP - M12) WPs involved: WP1.1, WP1.2, WP1.3, WP1.4, WP1.5, and WP1.6 Contents: First report including the preliminary list of deliveries for the period M01-M12 including datasets, tools, and models. The results expected to be included are as follows: preliminary datasets generated in the SGA2 on whole brain and four major brain circuits (neocortex, cerebellum, basal ganglia, hippocampus); First draft on the integration of molecular, cellular and functional data (neocortex, cerebellum, basal ganglia, hippocampus) and its application for modelling; Preliminary datasets for the comparative study of cells and microcircuits in the rodent and human brain. D8.1.1 SP8 MIP - Results for SGA2 Year 1 SP8 MIP - Results for SGA2 period 1 SP8 Summary of Results for M1-12: actual vs. planned results o Risks and Issues log updated o Key Results, Impact status & Exceptional Achievements (from users' perspective) o Dependent results flow (i.e. if/how dependent components were incorporated into the next) o Milestones due and achieved, how validated, by whom o Milestones due but not achieved, why, impact, corrective action o Lessons Learned (and if any incorporated already) o Product Roadmap updated o Platform User feedback on the period o Publications D11.1.1 Governance handbook DIR handbook with procedures to follow regarding internal management, interactions with PCO, with SP Leaders and with Advisory Boards. (T11.1.2) D12.1.1 SP12-SGA2 Foresight Lab & Researchers Awareness background report 2 Original research: Briefing report on Communities and Infrastructure Building. Milestone verified by upload of the report. D11.2.10 Gender Action Plan The Gender Action Plan is a required reference document to align structure and processes, objectives and key activities for improved gender equality in HBP with DIR, SIB, GAC, Ethic Board, Education Programme and Subprojects. D12.5.3 SGA2-SP12 Communication reporting (Component id: 2329) Communication report SP12 M24 SGA2 D11.1.3 SP11 Management and Coordination – Public Key Results Year 2 Summary of SP11 public Key Results for SGA2 Year 2 (M13-M24) D10.5.1 SP10 Neurorobotics Platform - Results for SGA2 Year 1 WPs involved: WP10.1, WP10.2, WP10.3, WP10.4 & WP10.5 Summary of SP Results for M1-12, broken down by Task: o Actual vs. planned results (due & done/due & not done) o Results passed to another Task, WP or SP (due & done/due & not done) o Milestones due and achieved, how validated, by whom. o Milestones due but not achieved, why, impact, corrective action o Publications o SP Roadmap for SGA3 D12.5.4 SP12 Opinion 3 (Component id: 1967) SP12's third Opinion on ethical, philosophical and societal issues related to consciousness. (ID: 1967) D2.2.1 CDP4 Visuo-Motor Integration - Results for SGA2 Year 1 CDP4 Annual compound deliverable Year 1 Overview of Key Results and Impact achieved in M1 to M12, tailored for presentation to the relevant audiences (research/industry/public) References to HBP/SP/CDP objectives and Use Cases for navigation between multiple Sub-Projects Linkage of Results to components/a set of component fact sheets (lower level information: Component ownership, Technology Readiness level, performed Quality Control checks, etc.) D11.3.4 Short Summary of Infrastructure Voucher Programme Infrastructure Vouchers calls closed; vouchers assigned to the selected users; budget distribution made; short evaluation summary report (T11.3.4, T11.6.1) D3.3.1 Acquisition of first datasets of electrophysiological recordings of hippocampal cells in VR environment Release of software code and simulated data (preliminary version) (T3.2.5) D12.5.1 SGA2-SP12 M12 reporting Progress report of SP12 for M12 SGA2. D9.6.1 SP9 Neuromorphic Computing Platform - Results from SGA2 year 1 The summary of SP 9 results for project months M1-12, broken down by task. WPs involved: WP9.1, WP9.2, WP9.3, WP9.4, WP9.5 and WP9.6 In order to report fully, the Deliverable may need to include information that the SP does not wish to make public at the time of the report. This material will be included in the Deliverable for the EC and Reviewers, but not in the version published publicly. D7.1.1 HPAC Platform Architecture Specification v1 This report will contain a first specification within SGA2 of the HPAC Platform including the Fenix infrastructure. D6.5.1 SP6 Summary Report on Community Outreach Summary report of SP6 SGA2 community outreach. D4.7.1 SP4 Theoretical Neuroscience models - 1st part Involves all models of work done from all members of the SP4 during the 1st year of SGA2. As there are some models not yet published, there will be a confidential annex for this confidential data that will be only accessible to reviewers, EC and PCO. D3.6.2 SP3 Systems and Cognitive Neuroscience - Results for SGA2 Year 2 WPs involved: WP3.1, WP3.2., WP3.3, WP3.4, WP3.5, WP3.6 Summary of SP3 Results for M13-24, broken down by Task: o Actual vs. planned results (due & done/due & not done) o Results passed to another Task, WP or SP (due & done/due & not done) o CDP products (due & done/due & not done) o Milestones due and achieved, how validated, by whom. o Milestones due but not achieved, why, impact, corrective action o Publications D 1.3.1 CDP1 Annual Compound Deliverable Year 1 CDP1 Annual Compound Deliverable Year 1 Overview of Key Results and Impact achieved in M1 to M12, tailored for presentation to the relevant audiences (research/industry/public) References to HBP/SP/CDP objectives and Use Cases for navigation between multiple Sub-Projects Linkage of Results to components/a set of component fact sheets (lower level information: Component ownership, Technology Readiness level, performed Quality Control checks, etc.) D5.9.1 Strategy and organization of a High-Level Support Team (HLST) Plan for decision making on the use of resources to achieve the overall goals of the joint platform and organization and coordination of the operations of the HLST. D4.4.2 CDP7 Results SGA2 This deliverable describes the results of CDP7during SGA2, focusing in particular on novel empirical and computational studies of hierarchical navigational planning in humans and rodents D2.7.1 SP2 Human Brain Organisation - Results for SGA2 Year 1 WPs involved: WP2.1, WP2.2., WP2.3, WP2.4, WP2.5, WP2.6 & WP2.7 Summary of SP Results for M1-12 D2.5.1 CDP4 Visuo-Motor Integration - Results for SGA2 Year 2 CDP4 Annual compound deliverable Year 2 Overview of Key Results and Impact achieved in M13 to M24, tailored for presentation to the relevant audiences (research/industry/public) References to HBP/SP/CDP objectives and Use Cases for navigation between multiple Sub-Projects Linkage of Results to components/a set of component fact sheets (lower level information: Component ownership, Technology Readiness level, performed Quality Control checks, etc.) D8.6.2 CDP6 Results SGA2 Year 2 HPC-based chemical optimisation codes increasing ligand specificity toward receptors' subclasses CDP6 Annual compound deliverable Year 2 Overview of Key Results and Impact achieved in M13 to M24, tailored for presentation to the relevant audiences (research/industry/public) References to HBP/SP/CDP objectives and Use Cases for navigation between multiple Sub-Projects Linkage of Results to components/a set of component fact sheets (lower level information: Component ownership, Technology Readiness level, performed Quality Control checks, etc.) This deliverable will also refer to results for SGA2_HPC-based screening protocols and implementation for accurate HPC-based screening protocols of neuro-drug candidates. Demonstrators, pilots, prototypes (5) D8.9.2 Curated and tested brain disease ontologies integrated within application services Brain ontologies are integrated and accessible through OLS-NEURO. All application services (OLS-NEURO, SCAIView-Neuro) are online and available for use in MIP. D8.7.2 BIDS Apps for imaging data processing pipelines Applications for the imaging data processing pipelines using the Brain Imaging Data Structure format. D5.5.1 Reproducible scientific software release 2 This production release will make publicly available JupyterLab functionality optimized and integrated with HBP data management solutions and data service APIs (T5.5.2) D8.5.2 Μedical Informatics Platform Releases - SOFTWARE & REPORT SOFTWARE & REPORT D7.5.1 HPAC Platform including CEA resources The compute and storage resources of the new HPAC partner CEA are integrated into the HPAC Platform, including the corresponding documentation in the Guidebook. The implementation of a use case workflow is used to demonstrate the functionality and documented in a short report. Websites, patent fillings, videos etc. (1) D7.4.1 HBP Visualisation Software Catalogue The HBP Visualisation Catalogue gives an overview of all visualisation tools and methods available in the HBP. It is a publicly available website that is also integrated into the Collaboratory. It contains semantic query functionality to support users in finding the right visualisation method and software for their specific needs. Pubblicazioni Peer reviewed articles (445) Superficial white matter: A review on the dMRI analysis methods and applications Autori: Miguel Guevara, Pamela Guevara, Claudio Román, Jean-François Mangin Pubblicato in: NeuroImage, Issue 212, 2020, Page(s) 116673, ISSN 1053-8119 Editore: Academic Press DOI: 10.1016/j.neuroimage.2020.116673 Unveiling the Synaptic Function and Structure Using Paired Recordings From Synaptically Coupled Neurons Autori: Guanxiao Qi, Danqing Yang, Chao Ding, Dirk Feldmeyer Pubblicato in: Frontiers in Synaptic Neuroscience, Issue 12, 2020, ISSN 1663-3563 Editore: Frontiers Research Foundation DOI: 10.3389/fnsyn.2020.00005 Multi-scale account of the network structure of macaque visual cortex Autori: Maximilian Schmidt, Rembrandt Bakker, Claus C. Hilgetag, Markus Diesmann, Sacha J. van Albada Pubblicato in: Brain Structure and Function, Issue 223/3, 2018, Page(s) 1409-1435, ISSN 1863-2653 Editore: Springer Verlag DOI: 10.1007/s00429-017-1554-4 Cortical layers: Cyto-, myelo-, receptor- and synaptic architecture in human cortical areas Autori: Nicola Palomero-Gallagher, Karl Zilles Pubblicato in: NeuroImage, Issue 197, 2019, Page(s) 716-741, ISSN 1053-8119 Editore: Academic Press DOI: 10.1016/j.neuroimage.2017.08.035 Mechanisms Underlying the Neuromodulation of Spinal Circuits for Correcting Gait and Balance Deficits after Spinal Cord Injury Autori: Eduardo Martin Moraud, Marco Capogrosso, Emanuele Formento, Nikolaus Wenger, Jack DiGiovanna, Grégoire Courtine, Silvestro Micera Pubblicato in: Neuron, Issue 89/4, 2016, Page(s) 814-828, ISSN 0896-6273 Editore: Cell Press DOI: 10.1016/j.neuron.2016.01.009 Electron Microscopic Detection of Single Membrane Proteins by a Specific Chemical Labeling Autori: Shigekazu Tabata, Marijo Jevtic, Nobutaka Kurashige, Hirokazu Fuchida, Munetsugu Kido, Kazushi Tani, Naoki Zenmyo, Shohei Uchinomiya, Harumi Harada, Makoto Itakura, Itaru Hamachi, Ryuichi Shigemoto, Akio Ojida Pubblicato in: iScience, Issue 22, 2019, Page(s) 256-268, ISSN 2589-0042 Editore: Elsevier BV DOI: 10.1016/j.isci.2019.11.025 Study of the Size and Shape of Synapses in the Juvenile Rat Somatosensory Cortex with 3D Electron Microscopy Autori: Andrea Santuy, José-Rodrigo Rodríguez, Javier DeFelipe, Angel Merchán-Pérez Pubblicato in: eneuro, Issue 5/1, 2018, Page(s) ENEURO.0377-17.2017, ISSN 2373-2822 Editore: Society for Neuroscience DOI: 10.1523/eneuro.0377-17.2017 Demonstrating Advantages of Neuromorphic Computation: A Pilot Study Autori: Timo Wunderlich, Akos F. Kungl, Eric Müller, Andreas Hartel, Yannik Stradmann, Syed Ahmed Aamir, Andreas Grübl, Arthur Heimbrecht, Korbinian Schreiber, David Stöckel, Christian Pehle, Sebastian Billaudelle, Gerd Kiene, Christian Mauch, Johannes Schemmel, Karlheinz Meier, Mihai A. Petrovici Pubblicato in: Frontiers in Neuroscience, Issue 13, 2019, ISSN 1662-453X Editore: Frontiers Media SA DOI: 10.3389/fnins.2019.00260 Large-Scale Simulations of Plastic Neural Networks on Neuromorphic Hardware Autori: James C. Knight, Philip J. Tully, Bernhard A. Kaplan, Anders Lansner, Steve B. Furber Pubblicato in: Frontiers in Neuroanatomy, Issue 10, 2016, ISSN 1662-5129 Editore: Frontiers Research Foundation DOI: 10.3389/fnana.2016.00037 Fast Predictive Handshaking in Synchronous FPGAs for Fully Asynchronous Multisymbol Chip Links: Application to SpiNNaker 2-of-7 Links Autori: Amirreza Yousefzadeh, Luis A. Plana, Steve Temple, Teresa Serrano-Gotarredona, Steve B. 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Deshler, Yves De Koninck, Christoph J. Ebell, Gary Egan, Melina E. Hale, Michael Häusser, Sung-Jin Jeong, Judy Illes, Linda Lanyon, Pingping Li, Yan Li, Pierre Magistretti, Agnes McMahon, Caroline Montojo, Toshihisa Ohtsuka, Shigeo Okabe, Hideyuki Okano, Gang Pei, Alexandre Pouget, Jason Pubblicato in: Neuron, Issue 105/2, 2020, Page(s) 212-216, ISSN 0896-6273 Editore: Cell Press DOI: 10.1016/j.neuron.2020.01.002 Cortical reactivations during sleep spindles following declarative learning Autori: Aude Jegou, Manuel Schabus, Olivia Gosseries, Brigitte Dahmen, Geneviève Albouy, Martin Desseilles, Virginie Sterpenich, Christophe Phillips, Pierre Maquet, Christophe Grova, Thien Thanh Dang-Vu Pubblicato in: NeuroImage, Issue 195, 2019, Page(s) 104-112, ISSN 1053-8119 Editore: Academic Press DOI: 10.1016/j.neuroimage.2019.03.051 Mind Reading and Writing: The Future of Neurotechnology Autori: Pieter R. Roelfsema, Damiaan Denys, P. Christiaan Klink Pubblicato in: Trends in Cognitive Sciences, Issue 22/7, 2018, Page(s) 598-610, ISSN 1364-6613 Editore: Elsevier BV DOI: 10.1016/j.tics.2018.04.001 Molecular mechanisms underlying striatal synaptic plasticity: relevance to chronic alcohol consumption and seeking Autori: Kim T. Blackwell, Armando G. Salinas, Parul Tewatia, Brad English, Jeanette Hellgren Kotaleski, David M. Lovinger Pubblicato in: European Journal of Neuroscience, Issue 49/6, 2019, Page(s) 768-783, ISSN 0953-816X Editore: Blackwell Publishing Inc. DOI: 10.1111/ejn.13919 Internal Coordinate Normal Mode Analysis: A Strategy To Predict Protein Conformational Transitions Autori: Elisa Frezza, Richard Lavery Pubblicato in: The Journal of Physical Chemistry B, Issue 123/6, 2019, Page(s) 1294-1301, ISSN 1520-6106 Editore: American Chemical Society DOI: 10.1021/acs.jpcb.8b11913 New approaches for computing ligand–receptor binding kinetics Autori: Neil J Bruce, Gaurav K Ganotra, Daria B Kokh, S Kashif Sadiq, Rebecca C Wade Pubblicato in: Current Opinion in Structural Biology, Issue 49, 2018, Page(s) 1-10, ISSN 0959-440X Editore: Elsevier BV DOI: 10.1016/j.sbi.2017.10.001 Neuroethics Questions to Guide Ethical Research in the International Brain Initiatives Autori: Karen S. Rommelfanger, Sung-Jin Jeong, Arisa Ema, Tamami Fukushi, Kiyoto Kasai, Khara M. Ramos, Arleen Salles, Ilina Singh, Jordan Amadio, Guo-Qiang Bi, Paul Frederick Boshears, Adrian Carter, Anna Devor, Kenji Doya, Hermann Garden, Judy Illes, L. Syd M. Johnson, Lyric Jorgenson, Bang-Ook Jun, Inyoung Lee, Patricia Michie, Tsuyoshi Miyakawa, Eisuke Nakazawa, Osamu Sakura, Hagop Sarkissian, Laura Pubblicato in: Neuron, Issue 100/1, 2018, Page(s) 19-36, ISSN 0896-6273 Editore: Cell Press DOI: 10.1016/j.neuron.2018.09.021 Neuroethical and Social Implications of Using Transcranial Electrical Stimulation to Augment Creative Cognition Autori: Adam B. Weinberger, Robert A. Cortes, Adam E. Green, James Giordano Pubblicato in: Creativity Research Journal, Issue 30/3, 2018, Page(s) 249-255, ISSN 1040-0419 Editore: Lawrence Erlbaum Associates Inc. DOI: 10.1080/10400419.2018.1488199 Biological Characteristics of Connection-Wise Resting-State Functional Connectivity Strength Autori: Rory Pijnenburg, Lianne H Scholtens, Dante Mantini, Wim Vanduffel, Lisa Feldman Barrett, Martijn P van den Heuvel Pubblicato in: Cerebral Cortex, Issue 29/11, 2019, Page(s) 4646-4653, ISSN 1047-3211 Editore: Oxford University Press DOI: 10.1093/cercor/bhy342 Whole-Brain Multimodal Neuroimaging Model Using Serotonin Receptor Maps Explains Non-linear Functional Effects of LSD
