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ingrreit 47.2 20 == Publishing neuroscience data, models and software via EBRAINS ==
ingrreit 10.1 21
ingrreit 25.2 22
ingrreit 146.1 23 (% class="wikigeneratedid" %)
ingrreit 146.2 24 The aim of this collab is to provide you with detailed information about publishing data, simulations, computational models, and software via EBRAINS. If you want a quick overview of the sharing process, see [[https:~~/~~/ebrains.eu/service/share-data>>https://ebrains.eu/service/share-data]].
ingrreit 146.1 25
ingrreit 10.1 26 {{box title="**Contents**"}}
27 {{toc depth="3" start="2"/}}
28 {{/box}}
29
ingrreit 146.2 30 == **Information to get started** ==
ingrreit 10.1 31
ingrreit 147.2 32 **[[REQUEST CURATION>>https://nettskjema.no/a/277393#/]] to share data, simulations, computational models, and software, - or to add a new version of an existing one. **
33
ingrreit 146.2 34 Have you already published your data somewhere else? You can increase the exposure and impact of your shared dataset by also listing it on EBRAINS.
ingrreit 10.1 35
36
ingrreit 150.1 37 (% style="text-align: center;" %)
ingrreit 146.2 38 Search existing data, models and software in [[the EBRAINS Knowledge Graph Search>>https://kg.ebrains.eu/search/?facet_type[0]=Dataset]]
39
40
41 EBRAINS accepts data from all modalities and from all species, as well as models, software, web services and metadata models (collectively referred to as research products) for sharing. You'll find detailed information about how to share each research product below. 
42
43
44 (% class="box infomessage" %)
45 (((
46 We strongly recommend to **start preparing for data sharing as early as possible**. With a structured data repository and adequate notes on how the data was acquired, you greatly minimize the effort required to publish your data. The time it takes to share data on EBRAINS heavily depends on on the engagement from the researcher and how well the data and metadata is prepared before-hand. Contact us for personalised guidance on how to prepare for sharing.
47 )))
48
49 (% class="box successmessage" %)
50 (((
ingrreit 159.1 51 **Particular needs? Contact us! **The workflows for sharing can be modified for researchers or research groups aiming to frequently publish larger numbers of their research products through EBRAINS. Please contact the curation service team in such cases. Reach us at [[curation-support@ebrains.eu>>mailto:curation-support@ebrains.eu]]
ingrreit 146.2 52 )))
53
ingrreit 10.1 54 ----
55
ingrreit 30.1 56 == **The EBRAINS curation process** ==
ingrreit 10.1 57
ingrreit 29.1 58 In EBRAINS, multimodal and heterogenous neuroscience data, models and software are categorised and described in a standardised manner so that they can be effectively searched, compared, and analysed. This effort is referred to as curation. 
ingrreit 10.1 59
ingrreit 30.1 60 >The EBRAINS curation process involves organising and annotating neuroscientific data to make the data discoverable and reusable.
ingrreit 10.1 61
ingrreit 30.1 62 Behind this process is the EBRAINS Curation team. Our mandate is to support you in sharing your data in line with the [[**FAIR principles**>>https://www.go-fair.org/fair-principles/]], whether you choose to describe only the key aspects of your data, or can invest in adding more detailed metadata.
ingrreit 10.1 63
ingrreit 147.2 64 Curated data, models and software are made available in [[the EBRAINS Knowledge Graph>>https://kg.ebrains.eu/]]. This makes the data and metadata discoverable in the [[Knowledge Graph Search>>url:https://search.kg.ebrains.eu/]] and the [[Knowledge Graph API>>url:https://docs.kg.ebrains.eu/8387ccd27a186dea3dd0b949dc528842/api_endpoints.html]]. The data, models and software are integrated in the EBRAINS Knowledge Graph by interoperable metadata schemas defined in [[openMINDS>>url:https://github.com/HumanBrainProject/openMINDS/wiki]].Data and models are linked to and discoverable via the species-specific [[EBRAINS siibra atlas viewer>>url:https://ebrains.eu/services/atlases/brain-atlases]] by using interoperable metadata schemas as defined in [[SANDS>>url:https://github.com/HumanBrainProject/SANDS/wiki]].
ingrreit 34.1 65
ingrreit 147.2 66 The curation of data, models and software is different. Thus, below we explain the process for sharing for each research product separately.
ingrreit 47.3 67
ingrreit 10.1 68
ingrreit 34.1 69 ----
70
ingrreit 147.3 71 === Step by step - Data ===
ingrreit 10.1 72
73
ingrreit 23.2 74 [[image:image-20230326054341-1.png]]
ingrreit 10.1 75
eapapp 167.1 76 (% class="box floatinginfobox" id="share-data-infographic" %)
77 (((
78 (% style="text-align:center" %)
79 //Download our infographic//
80 //with all you need to know//
81 //to share data on EBRAINS: //
82 // //
83 [[[[image:image-20230324171114-2.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/dfd374b9b43a458192e9/]]//
84 )))
ingrreit 36.1 85
ingrreit 147.8 86
ingrreit 10.1 87 ==== **1. Provide some general information about your dataset** ====
88
89
ingrreit 151.1 90 [[image:https://lh3.googleusercontent.com/zh7TvO6w04YGW9jIhfhmdT6CexdGs-AWOLfJXKRq7-tdHOu6ar1rOQx8o4rZevrjXqgPZ7-Ejv4b6X9XpgXuHpdUXi-mBTHIUnv5Vz-DktHt0sP-PZ3gE8XgZid3TV3swV1uTCBhHx11ge0pjP7RVxswGQ=s2048||height="85px;" width="91px;"]]** Fill in the [[Curation request form>>https://nettskjema.no/a/277393#/]]. **
ingrreit 10.1 91
ingrreit 151.1 92 This form collects preliminary information about your data, allowing us to assess whether the dataset fits within the scope of EBRAINS. The submission generates a curation ID allowing us to track the case.
ingrreit 10.1 93
ingrreit 147.3 94
ingrreit 151.1 95 [[image:https://lh6.googleusercontent.com/yw442oS6BwZOlY-_0BoVxyCW3DrdcJ5ogCes92iOD16_rgNEVk56aNMDaVWXFfBLYv24bHzmGgBF9wg0szjH70xzuRTqxoQAeuy3knNO7axCHoyZDXwtyTcMgFnYwbOYxOT29LK-zchrUKLW6Mle93kOkQ=s2048||height="94px;" width="94px;"]]**Fill in the [[Ethics and Regulatory compliance form>>https://nettskjema.no/a/224765]]**.
ingrreit 147.3 96
ingrreit 151.1 97 This form collects the necessary information needed for us to evaluate whether we can ethically and legally share the data via EBRAINS.
98
ingrreit 158.1 99 See below for information about the ethical and legal aspects concerning sharing of human subject data.
ingrreit 151.1 100
ingrreit 158.1 101
ingrreit 10.1 102 ==== **2. Upload data ** ====
103
104
ingrreit 151.1 105 [[image:https://lh5.googleusercontent.com/sieKO-kW8O18iPaUyonwyo4UfHBmtc2E9BDnjbx52j6J_uGmm-OzGAo7sloMk3sYwKa6QW3hYQsOA9N4H7uGQpca088Wrk0Nurpt_J3B0-NSbcaPNdZIh21otQcG6jnAxLGiKoEvkTyaDGTMk3fu7me8mQ=s2048||height="94px;" width="94px;"]]**Ensure data is structured consistently prior to upload. **
ingrreit 10.1 106
ingrreit 151.1 107 We look for organized data, not organized according to our standard. This is to support the broadest degree of sharing possible. We do however require that the data is organized in a consistent and precise manner. Please see our// //[[collection of guidelines on data organization>>https://drive.ebrains.eu/smart-link/25299f04-c4e5-4028-8f5f-3b8208f9a532/]] for further guidance.
108
ingrreit 147.3 109 [[image:https://lh5.googleusercontent.com/EWtYwfVlbeC-jqPasgmzidqc50GrkKIEgwXeUeql8aaMHIukmFdWEy0nufVWWATbxDDK3XwwZEDmASrbpCsBk1u0HpAd8x4ZgAMsMPRcWyrb9etlV6FgKE_QN2e6SqKxHE0rzkR8uI1rRW_5z21TFGYVnw=s2048||height="91px;" width="91px;"]]**Upload data to EBRAINS Storage, either using a drag-and-drop solution (opt. 1) or an interactive python script (opt. 2).**
ingrreit 10.1 110
ingrreit 147.3 111 //Opt. 1. //For smaller datasets with a reasonable amount of files, we recommend using the Collab-Bucket solution (drag-and-drop). A Collab Bucket must first be assigned to a dataset, which happens when a datasets is accepted for sharing.
112
113 //Opt. 2. //For larger datasets or datasets with a large amount of files, we recommend using a programmatic approach. The [[python script>>https://github.com/eapapp/ebrains-data-storage/tree/main/data-proxy]] is interactive and does not require any additional programming.
114
115
116 EBRAINS offers secure, long-term storage at [[CSCS Swiss National Supercomputing Centre>>url:https://www.cscs.ch/]], with currently no upper limit of storage capacity. 
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ingrreit 10.1 118 If a data collection is already uploaded elsewhere, we may link to the already existing repository.
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120
ingrreit 160.1 121 ==== **3. Submit metadata** ====
ingrreit 147.8 122
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ingrreit 154.1 124 [[image:https://lh5.googleusercontent.com/WS4T2LhF9znWWChn3Z550agLrrb-KTWdYVsJSv0lh4cGjKbjuN1WV68WER9xkYqi1UqN7KYZz7bImYz3_TpOuTuvma7T192QUiUZoyJVPk1fj5NSDSQh_kpIeBufAOdDtsDRpPKK_P5EDPqRCTAaOTNyCw=s2048||height="91px;" width="91px;"]]**Submit metadata using the **[[EBRAINS Wizard>>https://ebrains-metadata-wizard.apps.hbp.eu/]]** (opt. 1), or through direct interaction with the Knowledge Graph (opt. 2) **
ingrreit 10.1 125
ingrreit 154.1 126 //Opt. 1.// Manually submit the minimal required metadata via the [[EBRAINS Wizard>>https://ebrains-metadata-wizard.apps.hbp.eu/]]. The minimal required metadata covers extended bibliographic information necessary to publish your dataset on EBRAINS. The submitted information, including uploaded files, will be sent to the Curation team automatically
ingrreit 10.1 127
ingrreit 147.3 128 //Opt. 2.// To go beyond the minimal required metadata, you can directly interact with the Knowledge Graph (KG) in your private space. Within the private space, you can upload metadata and interact with them, moreover you can connect your metadata to existing publicly accessible entries. Access to your private space is granted upon the initiation of the curation process. You can access your private space via:
129
130 * Knowledge Graph Editor: This User Interface allows you to manually enter metadata into your KG space and validate metadata that are programmatically uploaded. The Editor contains a basic set of openMINDS metadata templates, but can be extended to the full openMINDS metadata model on request. Access is granted once the request is accepted.
131 * [[Fairgraph>>https://fairgraph.readthedocs.io/en/stable/]]: This is the recommended software tool for programmatic interaction with the KG. It allows you to programmatically upload openMINDS compliant metadata into your KG space and interact with existing metadata.
132 * [[KG Core Python SDK>>https://github.com/HumanBrainProject/kg-core-sdks]]: This python package gives you full freedom in interacting with he KG. It allows you to upload any JSON-LD with metadata into your private space. Note, for dataset publications in EBRAINS, the JSON-LD metadata files have to comply to openMINDS.
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134 Datasets published through the EBRAINS Knowledge Graph have to be registered using **openMINDS compliant metadata** delivered as JSON-LD files. See this summary table for an overview of [[the minimally required openMINDS properties for publishing>>https://drive.ebrains.eu/lib/47995dbc-f576-4008-a76c-eefbfd818529/file/ebrains-minimum-required-metadata.xlsx]] on EBRAINS.
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136
ingrreit 10.1 137 ==== **4. Write a Data Descriptor ** ====
138
ingrreit 151.1 139 [[image:https://lh4.googleusercontent.com/lMYEKOXzejbBydOdotWWteXQo7j363xRyntBGjcPZVEdtIU1CJYX7q1STpdr2JPZK4hpWWXk20UlkUOqDGL5kX6vnQVBSdrfUo6EGfXOwpuGq1Uygv0tTZJ0lRO6voJvg56QC2mufvjAcRXGfAKFOjtc6w=s2048||height="94px;" width="94px;"]]**Write a data descriptor by filling in **[[this template>>https://drive.ebrains.eu/f/a2e07c95b1a54090bbbc/?dl=1]]** . **
ingrreit 10.1 140
ingrreit 151.1 141 The Data Descriptor is a document helping others interpret and reuse (and prevent misuse) of your data, and is critical to achieve a basic level of FAIR. The document will be uploaded in the repository of the data, shared as a PDF. 
ingrreit 10.1 142
ingrreit 151.1 143 See our infographic about the data descriptor for inspiration or guidance.
ingrreit 10.1 144
ingrreit 151.1 145 Check out previous examples in the KG Search. See e.g., the data descriptor for the dataset "[[Anterogradely labeled axonal projections from the orbitofrontal cortex in rat>>https://doi.org/10.25493/2MX9-3XF]]".
ingrreit 147.3 146
ingrreit 10.1 147 Journal publications sufficiently describing the shared data, such as made available through [[Nature Scientific Data>>http://www.nature.com/sdata/about]], [[Elsevier Data in Brief>>http://www.journals.elsevier.com/data-in-brief/]], [[BMC Data note>>https://bmcresnotes.biomedcentral.com/submission-guidelines/preparing-your-manuscript/data-note]] and more, can replace the EBRAINS Data Descriptor.
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ingrreit 155.1 149 ==== [[[[image:image-20230324171109-1.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/c1ccb78be52e4bdba7cf/]]//The EBRAINS Data descriptor at-a-glance// ====
ingrreit 10.1 150
ingrreit 147.3 151
ingrreit 10.1 152 ==== **5. Preview and publish ** ====
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ingrreit 147.3 155 [[image:https://lh4.googleusercontent.com/XqT26Q4yWJK26cjtjhI4ToXoZZMxhT9LimG4Hk9mePxy0-KPKgpVIzcuiP5mOQowBgf2JjkrWUq2VbCmafWWZPJplEZALnFOlCZHLlQgzOx7fFwoBteyi_IlMLkPBS9vtOcdNIZ59HyLnQz4RsTQ0lUrSw=s2048||height="91px;" width="91px;"]]**Preview and approve the release of your dataset. **Once a Curator has assembled the dataset in the EBRAINS Knowledge Graph, combining the data, metadata and data descriptor, the data provider will receive a private URL for previewing the dataset prior to release. We need an official approval from the data custodian{{footnote}}The Data Custodian is responsible for the content and quality of the Data and metadata, and is the person to be contacted by EBRAINS CS in case of any misconduct related to the Data. It is the obligation of a Data Custodian to keep EBRAINS informed about changes in the contact information of the authors of the Datasets provided by them ([[EBRAINS Data Provision Protocol - version 1.1>>https://strapi-prod.sos-ch-dk-2.exo.io/EBRAINS_Data_Provision_Protocol_dfe0dcb104.pdf]]).{{/footnote}} to release the dataset. Once released, a [[DataCite DOI>>https://datacite.org/]] will be generated for the dataset. If the identical data collection has received a DOI elsewhere, we recommend re-using the already issued DOI.
ingrreit 10.1 156
ingrreit 147.3 157
ingrreit 10.1 158 ----
159
ingrreit 157.1 160 ==== **Sharing human subject data ** ====
ingrreit 10.1 161
162 (% class="box floatinginfobox" %)
ingrreit 1.1 163 (((
ingrreit 156.1 164 **Human subject data that can be shared on EBRAINS:**
ingrreit 1.1 165
ingrreit 10.1 166 - Post-mortem data
167 - Aggregated data
ingrreit 147.3 168 - Strongly pseudonymized or de-identified subject data with a legal basis for sharing (e.g. Informed Consent)
ingrreit 10.1 169
ingrreit 147.3 170 (% class="small" %)//If you have human data that does not classify as any of the above, please get in touch and we will clarify the available options. //
ingrreit 1.1 171 )))
172
ingrreit 157.1 173 Human subject data shared on EBRAINS must comply with [[GDPR >>https://gdpr-info.eu/]]and [[EU directives>>https://eur-lex.europa.eu/legal-content/EN/TXT/?uri=celex%3A32010L0063]]. The information we need to assess this is collected via our [[Ethics and Regulatory Compliance Survey>>https://nettskjema.no/a/224765]].
ingrreit 1.1 174
ingrreit 147.3 175 Post-mortem and aggregated human data can be shared openly, given direct identifiers in the metadata are removed. Strongly pseudonymized and de-identified data can be shared via the Human Data Gateway (HDG).
ingrreit 128.1 176
ingrreit 147.3 177 The Human Data Gateway (HDG) was introduced in February 2021 as a response to the needs of multiple data providers who are bringing human subject data to EBRAINS. HDG covers the sharing of strongly pseudonymized or de-identified data, a limited range human subject data without direct identifiers and with very few indirect identifiers.
ingrreit 1.1 178
ingrreit 147.3 179 The HDG adds an an authentication layer on top of the data. This means that **data users **must request access to the data (via their EBRAINS account) and will receive access provided they actively accept the [[EBRAINS Access Policy>>https://ebrains.eu/terms#access-policy]], the [[EBRAINS General Terms of Use>>https://ebrains.eu/terms#general-terms-of-use]], and the [[EBRAINS Data Use Agreement>>https://ebrains.eu/terms#data-use-agreement]]. The account holder also have to accept that information about their request and access to specific data under HDG is being tracked and stored. **Data owners** must be aware that sharing under the HDG affects the legal responsibilities for the data. They must agree to joint control of the data (see the [[Data Provision Protocol v1>>url:https://strapi-prod.sos-ch-dk-2.exo.io/EBRAINS_Data_Provision_Protocol_dfe0dcb104.pdf]], section 1.4 - 1.5) and the Data Protection Officers of the responsible institutions must have accepted that the data can be shared under HDG.
ingrreit 1.1 180
ingrreit 147.3 181 The HDG is an extension of the existing services and does not replace the future EBRAINS Service for sensitive data (planned for 2024) which is outside the domain of the current EBRAINS Data and Knowledge services.
182
183
ingrreit 10.1 184 ----
185
186 === Step by Step - Models ===
187
ingrreit 127.1 188
ingrreit 147.3 189 ~1. Request curation using the [[Curation request form>>https://nettskjema.no/a/277393#/]]. You will be contacted by a curator with more information.
ingrreit 10.1 190
191
ingrreit 147.3 192 //Additional information will be added soon.//
ingrreit 10.1 193
194 ----
195
ingrreit 147.6 196 === Step by Step - Software ===
ingrreit 10.1 197
jan 165.1 198 [[[[image:Screenshot 2023-06-06 1122082.png||alt="swc-flow.png" height="136" width="637"]]>>https://www.ebrains.eu/tools/ebrains-curation-request-form||rel="noopener noreferrer" target="_blank"]]
ingrreit 127.1 199
jan 165.1 200 ~1. Fill in the [[request form>>https://www.ebrains.eu/tools/ebrains-curation-request-form]]. You'll be contacted by a curator with further instructions. In these instructions, you will find the links to your software and software version entries in the Knowledge Graph.
ingrreit 10.1 201
ingrreit 147.5 202 2. Enter the metadata of your software in your private space of the [[Knowledge Graph Editor>>url:https://editor.kg.ebrains.eu/]] by using the links provided by the curator. Please provide the metadata for your software as complete as possible. This makes it easier for users to find and use your software. If you have questions feel free to contact the curation support. After you have finished editing your entries, please let the curators know by replying to your ticket. We curate your metadata and get back to you, if necessary.
jan 130.1 203
ingrreit 153.1 204 3. After a quality check, we integrate and publish the information to the Knowledge Graph. Your software is then searchable and usable for the neuroscience community.
ingrreit 147.5 205
206 If you want to add a new version to an already curated software, please request this via the [[curation request form>>https://nettskjema.no/a/277393]].
207
ingrreit 153.1 208 For more information, visit our [[Guide to Software Curation in the EBRAINS Knowledge Graph>>url:https://wiki.ebrains.eu/bin/view/Collabs/swc-guide]] or see our infographic below.
ingrreit 147.5 209
jan 165.1 210 (% style="text-align: right;" %)
eapapp 166.1 211 ==== //Software curation at a glance          //[[[[image:Thumb2.png||alt="EBRAINS-Share-Software.pdf" height="287" width="197"]]>>attach:EBRAINS-Share-Software-4.pdf]] ====
ingrreit 147.5 212
ingrreit 10.1 213 ----
214
ingrreit 152.1 215 == **The openMINDS metadata framework** ==
216
217 openMINDS (open Metadata Initiative for Neuroscience Data Structures) is a community-driven, open-source metadata framework for graph database systems, such as the EBRAINS Knowledge Graph. It is composed of linked metadata models, libraries of serviceable metadata instances, and supportive tooling ([[openMINDS Python>>url:https://pypi.org/project/openMINDS/]], openMINDS Matlab). For exploring the openMINDS schemas, go to the [[HTML documentation>>url:https://humanbrainproject.github.io/openMINDS/]]. For a full overview of the framework, go to [[the openMINDS collab>>url:https://wiki.ebrains.eu/bin/view/Collabs/openminds/]] or the [[GitHub repository>>https://github.com/HumanBrainProject/openMINDS]].
218
219 For feedback, requests, or contributions, please get in touch with the openMINDS development team via
220
221 * the support-email: [[openminds@ebrains.eu>>path:mailto:openminds@ebrains.eu]]
222 * the [[GitHub issue tracker>>url:https://github.com/HumanBrainProject/openMINDS/issues]]
223 * the INCF NeuroStars [[openMINDS Community Forum>>url:https://neurostars.org/t/openminds-community-forum-virtual/20156]]
224
225 ----
226
ingrreit 147.4 227 == **The curation team: meet the curators** ==
ingrreit 27.2 228
ingrreit 147.4 229 The EBRAINS curators help researchers publish their research using the EBRAINS Research Infrastructure. A curator’s job is similar to the job of an editor of a scientific journal, checking the data is organized, understandable, accessible and sufficiently described.
ingrreit 27.2 230
ingrreit 147.4 231 The curators in EBRAINS are located in Oslo, Jülich, Trier and Paris. 
232
ingrreit 55.1 233
spieschnik 72.1 234 **Located in Norway:**
ingrreit 55.1 235
spieschnik 98.1 236 |(% style="width:303px" %)(((
spieschnik 113.1 237 [[image:My project2.jpg||height="209" width="167"]]
spieschnik 97.2 238
spieschnik 105.1 239 **Archana Golla**
240
spieschnik 111.1 241 (% class="small" %)Curation Scientist
spieschnik 116.1 242 Neuroscience (PhD)(%%)
eapapp 166.1 243 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Behavioral neuroscience and microscopy**
spieschnik 105.1 244 )))|(% style="width:303px" %)(((
spieschnik 142.2 245 [[image:Camilla.jpg||alt="My project.jpg" height="209" width="167"]]
spieschnik 98.1 246
spieschnik 122.1 247 **Camilla H. Blixhavn**
spieschnik 105.1 248
spieschnik 122.1 249 (% class="small" %)Curation Scientist,
250 Phd Student
251 Neuroscience (M. Sc.)(%%)
eapapp 166.1 252 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroanatomy and data integration**
spieschnik 126.1 253 )))|(% style="width:303px" %)(((
spieschnik 124.1 254 [[image:My project (1).jpg||height="209" width="167"]]
spieschnik 105.1 255
256 **Ingrid Reiten**
257
spieschnik 111.1 258 (% class="small" %)Curation Scientist,
spieschnik 112.1 259 Phd Student
spieschnik 117.1 260 Neuroscience (M. Sc.)(%%)
eapapp 166.1 261 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroanatomy and structural connectivity**
spieschnik 126.1 262 )))|(% style="width:303px" %)(((
spieschnik 124.1 263 [[image:My project1.jpg||height="209" width="167"]]
spieschnik 105.1 264
spieschnik 122.1 265 **Sophia Pieschnik**
spieschnik 105.1 266
spieschnik 122.1 267 (% class="small" %)Curation Scientist
268 Neurocognitive Psychology (M. Sc.)(%%)
eapapp 166.1 269 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroimaging **
spieschnik 123.1 270 )))
spieschnik 72.1 271
spieschnik 143.2 272 |(% style="width:303px" %)(((
spieschnik 142.2 273 [[image:My project.jpg||height="209" width="167"]]
spieschnik 141.2 274
spieschnik 142.2 275 **Heidi Kleven**
spieschnik 141.2 276
spieschnik 142.2 277 (% class="small" %)Curation Scientist,
278 Phd Student
279 Neuroscience (M. Sc.)(%%)
eapapp 166.1 280 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroanatomy and brain atlases**
spieschnik 142.2 281 )))| | |
282
spieschnik 141.2 283
ingrreit 128.1 284 \\**Located in Germany:**
spieschnik 72.1 285
spieschnik 143.2 286 |(% style="width:303px" %)(((
spieschnik 115.1 287 [[image:My project (2).jpg||height="209" width="167"]]
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289 **Jan Gündling**
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spieschnik 143.2 291 (% class="small" %)Curation Scientist,
jan 131.2 292 Phd Student
spieschnik 117.1 293 Sensors and Cognitive Psychology (M. Sc.)(%%)
eapapp 166.1 294 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Human-Computer Interaction**
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spieschnik 143.2 308 **Lyuba Zehl**
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310 (% class="small" %)Knowledge Systems Engineer
311 Dr. rer. nat. (Systems Neuroscience)(%%)
eapapp 166.1 312 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Standard development, data & knowledge management, interdisciplinary communication, data analysis**
spieschnik 143.2 313 )))|(% style="width:303px" %) |
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ingrreit 27.2 315 ----
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ingrreit 147.6 317 == **Add practical value to your shared data, model or software** ==
ingrreit 10.1 318
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ingrreit 147.6 320 ----
ingrreit 58.1 321
ingrreit 147.6 322 === **Showcase shared data, models or software in other services** ===
ingrreit 58.1 323
ingrreit 147.6 324 Below is a list of additional services that data, models or software shared via EBRAINS can benefit from. EBRAINS is continuously looking to increase the number of interoperable services.
ingrreit 58.1 325
ingrreit 147.7 326 **Viewer for 2D images **
ingrreit 55.1 327
ingrreit 147.6 328 * Integrate image data with //the Mio viewer//: EBRAINS Multi-Image OpenSeadragon viewer provides an intuitive way of navigating high-resolution 2D image series. It has browser-based classic pan and zoom capabilities. A collection can be displayed as a filmstrip (Filmstrip Mode) or as a table (Collection Mode) with adjustable number of row and columns. See [[Mio viewer links available for this dataset>>https://search.kg.ebrains.eu/?category=Dataset&q=nr2f1#9677359c-73fa-4425-b8fa-3de794e9017a]] as an example. MioViewer user manual is found [[here>>https://multi-image-osd.readthedocs.io/en/latest/index.html]].
ingrreit 60.1 329
ingrreit 147.7 330 **Viewer for sequential atlas-registered 2D images with annotation options**
ingrreit 60.1 331
puchades 63.1 332 * Integrate atlas-registered 2D image data with //the LocaliZoom viewer//: The EBRAINS LocaliZoom serial section viewer displays series of registered 2D section images with atlas overlay, allowing the users to zoom into high-resolution images and have information about the brain regions. See the [[LocaliZoom links available for this dataset>>https://doi.org/10.25493/T686-7BX]] as an example. LocaliZoom user manual is found [[here>>https://localizoom.readthedocs.io/en/latest/index.html]].
ingrreit 147.6 333
ingrreit 147.7 334 **Use your research product in an interactive publication **
ingrreit 147.6 335
ingrreit 147.7 336 * Add your data, models or software to a// Live paper. //Read more about [[Live papers on ebrains.eu>>https://www.ebrains.eu/data/live-papers/live-papers]].
ingrreit 60.1 337
ingrreit 147.7 338 **Interactive 3D atlas viewer with options for data visualization**
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340 * Upload your data to //the Siibra//-explorer: The siibra-explorer is used for visualizing volumetric brain data in all the brain atlases provided by EBRAINS (Human, Monkey, Rat and Mouse). The siibra-explorer viewer uses siibra-api to enable navigation of brain region hierarchies, maps in different coordinate spaces, and linked regional data features. Furthermore, it is connected with the siibra toolsuite providing several analytical workflows. To learn more about how to register your data to atlases, read about the [[Atlas services on ebrains.eu>>https://ebrains.eu/services/atlases#Integratedatatoanatlas]].
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ingrreit 60.1 342 ----
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ingrreit 160.1 344 ==== **Add a tutorial or learning resource ** ====
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346 (% class="wikigeneratedid" id="H-LearningresourceA05Binformation5D" %)
eapapp 166.1 347 (% style="--darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//
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349
350 ==== **Create a workflow** ====
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352 (% class="wikigeneratedid" id="H-Workflows5Binformation5D" %)
eapapp 166.1 353 (% style="--darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//
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ingrreit 37.1 357 === **The benefits of sharing data ** ===
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359 By sharing your data via EBRAINS, you gain access to the following benefits:
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361 [[image:image-20230324170841-3.png]]
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ingrreit 159.1 365 We support you to better follow the [[FAIR^^ ^^guiding principles>>https://www.nature.com/articles/sdata201618]] for data management and stewardship{{footnote}}Wilkinson, M., Dumontier, M., Aalbersberg, I. et al. The FAIR Guiding Principles for scientific data management and stewardship. Sci Data 3, 160018 (2016). https://doi.org/10.1038/sdata.2016.18 {{/footnote}}.  Publishing data, models or code via EBRAINS will provide you with a citeable [[DataCite DOI>>https://www.doi.org/the-identifier/resources/handbook/]] for your research product.
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ingrreit 148.1 369 === **Frequently asked questions ** ===
ingrreit 10.1 370
ingrreit 1.1 371 (((
eapapp 166.1 372 ==== ====
ingrreit 1.1 373
ingrreit 23.2 374 (((
ingrreit 20.1 375 >The curation process is time consuming and difficult
ingrreit 1.1 376 )))
ingrreit 19.1 377 )))
ingrreit 10.1 378
379 (% class="wikigeneratedid" id="HHowcanIshareA0models3F" %)
380 Publishing your data naturally takes some time and effort but we will support you as much as possible. If communication is on a regular basis, we are able to finish basic curation - from the initial contact to dataset release - within two weeks.
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382 >Sharing my data is not beneficial for me - only for others
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385 When you publish your data via EBRAINS, we provide comprehensive data management support and safe long term storage - all free of charge. Additionally, your data can be cited, just like a scientific journal article. Sharing your data may even lead to new funding opportunities. Many funders specifically support projects that are part of the “Open Science” initiative.
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387 >My data is too insignificant to share
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390 There is no such thing as insignificant data. Data that is considered insignificant for a given topic, may have great significance for another. By making “insignificant” data publicly available, other researchers may find something interesting that was off-topic for your own purposes.
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392 >My data can easily be misused if I share it with the world
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395 Your data will be covered by a Creative Commons license of your choice. There are a variety of licenses available, enabling you to prevent use for specific purposes, e.g. commercial use.
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397 >I don't think I'm allowed to share my data
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400 Many institutions are still very careful about what can be shared and how, but the situation is constantly evolving. As a researcher providing data, you will be asked to fill out an ethics compliance survey which survey to ensure that data published through the EBRAINS platform has been collected according to EU regulations. We are working on solutions for sharing anonymised human data that complies with GDPR standards to protect the identity of research subjects.
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402 >I can't share my data before my paper is published
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405 If you do not want to share your data before publishing the results in an article, you can publish your dataset with an embargo status. This will make it possible to find information about the data without making the data itself available, and give you a citeable DOI.
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407 >If I share my data before I publish the associated paper, I will lose my competitive edge
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410 Publishing your data does not mean that others can use it however they want. Use of your data will require citation, and by choosing an appropriate Creative Commons licence you decide what others are allowed to do with it. If you still feel worried, you can publish your data under embargo, and in this way delay the date of data release, but still make it possible for others to find the information about the data.
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415 == Contact ==
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417 [[curation-support@ebrains.eu>>mailto:curation-support@ebrains.eu]]
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