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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
eapapp 171.1 37 (% class="box" style="text-align: center; font-size: 1.2em" %)
38 (((
eapapp 172.1 39 Search existing data, models and software in the [[EBRAINS Knowledge Graph>>https://kg.ebrains.eu/search/?facet_type[0]=Dataset]]
eapapp 171.1 40 )))
ingrreit 146.2 41
42
43 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. 
44
45
46 (% class="box infomessage" %)
47 (((
48 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.
49 )))
50
51 (% class="box successmessage" %)
52 (((
ingrreit 159.1 53 **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 54 )))
55
ingrreit 10.1 56 ----
57
ingrreit 30.1 58 == **The EBRAINS curation process** ==
ingrreit 10.1 59
ingrreit 29.1 60 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 61
ingrreit 30.1 62 >The EBRAINS curation process involves organising and annotating neuroscientific data to make the data discoverable and reusable.
ingrreit 10.1 63
ingrreit 30.1 64 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 65
ingrreit 147.2 66 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 67
ingrreit 147.2 68 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 69
ingrreit 10.1 70
ingrreit 34.1 71 ----
72
ingrreit 147.3 73 === Step by step - Data ===
ingrreit 10.1 74
75
ingrreit 23.2 76 [[image:image-20230326054341-1.png]]
ingrreit 10.1 77
eapapp 167.1 78 (% class="box floatinginfobox" id="share-data-infographic" %)
79 (((
80 (% style="text-align:center" %)
81 //Download our infographic//
82 //with all you need to know//
83 //to share data on EBRAINS: //
84 // //
eapapp 168.1 85 [[[[image:image-20230324171114-2.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/dfd374b9b43a458192e9/]]
86
87
eapapp 167.1 88 )))
ingrreit 36.1 89
ingrreit 147.8 90
ingrreit 10.1 91 ==== **1. Provide some general information about your dataset** ====
92
eapapp 173.1 93
94
eapapp 172.1 95 (% style="margin-right:10px" %)[[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 96
ingrreit 151.1 97 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 98
ingrreit 147.3 99
eapapp 172.1 100 (% style="margin-right:10px" %)[[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 147.3 101
ingrreit 151.1 102 This form collects the necessary information needed for us to evaluate whether we can ethically and legally share the data via EBRAINS.
103
ingrreit 158.1 104 See below for information about the ethical and legal aspects concerning sharing of human subject data.
ingrreit 151.1 105
ingrreit 158.1 106
ingrreit 10.1 107 ==== **2. Upload data ** ====
108
109
eapapp 172.1 110 (% style="margin-right:10px" %)[[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 10.1 111
ingrreit 151.1 112 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.
113
eapapp 172.1 114 (% style="margin-right:10px" %)[[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 10.1 115
eapapp 172.1 116 //**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.
ingrreit 147.3 117
eapapp 172.1 118 //**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.
ingrreit 147.3 119
120
121 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. 
122
ingrreit 10.1 123 If a data collection is already uploaded elsewhere, we may link to the already existing repository.
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125
ingrreit 160.1 126 ==== **3. Submit metadata** ====
ingrreit 147.8 127
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eapapp 172.1 129 (% style="margin-right:10px" %)[[image:https://lh5.googleusercontent.com/WS4T2LhF9znWWChn3Z550agLrrb-KTWdYVsJSv0lh4cGjKbjuN1WV68WER9xkYqi1UqN7KYZz7bImYz3_TpOuTuvma7T192QUiUZoyJVPk1fj5NSDSQh_kpIeBufAOdDtsDRpPKK_P5EDPqRCTAaOTNyCw=s2048||height="91px;" width="91px;"]](%%)**Submit metadata using the **[[EBRAINS Metadata Wizard>>https://ebrains-metadata-wizard.apps.hbp.eu/]]** (opt. 1), or through direct interaction with the Knowledge Graph (opt. 2) **
ingrreit 10.1 130
eapapp 172.1 131 //**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 10.1 132
eapapp 172.1 133 //**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:
ingrreit 147.3 134
135 * 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.
136 * [[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.
137 * [[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.
138
139 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.
140
141
eapapp 173.1 142 ==== **4. Write a Data Descriptor** ====
ingrreit 10.1 143
eapapp 173.1 144
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eapapp 172.1 146 (% style="margin-right:10px" %)[[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 10.1 147
ingrreit 151.1 148 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 10.1 149
ingrreit 151.1 150 See our infographic about the data descriptor for inspiration or guidance.
ingrreit 10.1 151
ingrreit 151.1 152 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 147.3 153
ingrreit 10.1 154 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.
155
eapapp 173.1 156
eapapp 168.1 157 (% class="box floatinginfobox" id="data-descriptor-infographic" %)
158 (((
159 (% style="text-align:center" %)
160 //Download our infographic: //
161 //The EBRAINS Data//
162 //Descriptor at a glance//
163 // //
164 [[[[image:image-20230324171109-1.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/c1ccb78be52e4bdba7cf/]]
165
166 )))
ingrreit 10.1 167
eapapp 173.1 168 ==== **5. Preview and publish** ====
ingrreit 10.1 169
170
eapapp 172.1 171 (% style="margin-right:10px" %)[[image:https://lh4.googleusercontent.com/XqT26Q4yWJK26cjtjhI4ToXoZZMxhT9LimG4Hk9mePxy0-KPKgpVIzcuiP5mOQowBgf2JjkrWUq2VbCmafWWZPJplEZALnFOlCZHLlQgzOx7fFwoBteyi_IlMLkPBS9vtOcdNIZ59HyLnQz4RsTQ0lUrSw=s2048||height="91px;" width="91px;"]](%%)**Preview and approve the release of your dataset. **
eapapp 173.1 172
eapapp 172.1 173 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 10.1 174
ingrreit 147.3 175
ingrreit 10.1 176 ----
177
eapapp 173.1 178 (% class="wikigeneratedid" %)
179 ==== ====
ingrreit 10.1 180
eapapp 173.1 181 ==== **Sharing human subject data** ====
182
ingrreit 10.1 183 (% class="box floatinginfobox" %)
ingrreit 1.1 184 (((
ingrreit 156.1 185 **Human subject data that can be shared on EBRAINS:**
eapapp 168.1 186 // //
187 // - Post-mortem data//
188 // - Aggregated data//
189 // - Strongly pseudonymized or de-identified subject data//
190 // with a legal basis for sharing (e.g. Informed Consent)//
191 // //
ingrreit 1.1 192
eapapp 168.1 193 (% class="small" %)
194 //If you have human data that does not qualify as any of the above,//
195 //please [[get in touch>>https://www.ebrains.eu/contact/]] and we will clarify the available options.//
ingrreit 1.1 196 )))
197
eapapp 173.1 198
ingrreit 157.1 199 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 1.1 200
ingrreit 147.3 201 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 128.1 202
ingrreit 147.3 203 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 1.1 204
ingrreit 147.3 205 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 1.1 206
ingrreit 147.3 207 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.
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209
ingrreit 10.1 210 ----
211
eapapp 173.1 212 (% class="wikigeneratedid" %)
ingrreit 10.1 213 === Step by Step - Models ===
214
ingrreit 127.1 215
ingrreit 147.3 216 ~1. Request curation using the [[Curation request form>>https://nettskjema.no/a/277393#/]]. You will be contacted by a curator with more information.
ingrreit 10.1 217
218
ingrreit 147.3 219 //Additional information will be added soon.//
ingrreit 10.1 220
221 ----
222
eapapp 173.1 223 (% class="wikigeneratedid" %)
ingrreit 147.6 224 === Step by Step - Software ===
ingrreit 10.1 225
ingrreit 127.1 226
eapapp 170.1 227 (% class="box floatinginfobox" id="software-curation-infographic" %)
228 (((
229 (% style="text-align:center" %)
230 //Software curation at a glance//
231 // //
232 [[[[image:Thumb2.png||alt="EBRAINS-Share-Software.pdf" height="287" width="197"]]>>attach:EBRAINS-Share-Software-4.pdf]]
233 )))
ingrreit 10.1 234
eapapp 170.1 235 (% style="margin-left:15px" %)[[[[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"]]
jan 130.1 236
eapapp 170.1 237 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.
238 1. 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.
239 1. 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 147.5 240
241 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]].
242
eapapp 170.1 243 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 on the right.
ingrreit 147.5 244
245
ingrreit 10.1 246 ----
247
ingrreit 152.1 248 == **The openMINDS metadata framework** ==
249
250 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]].
251
252 For feedback, requests, or contributions, please get in touch with the openMINDS development team via
253
254 * the support-email: [[openminds@ebrains.eu>>path:mailto:openminds@ebrains.eu]]
255 * the [[GitHub issue tracker>>url:https://github.com/HumanBrainProject/openMINDS/issues]]
256 * the INCF NeuroStars [[openMINDS Community Forum>>url:https://neurostars.org/t/openminds-community-forum-virtual/20156]]
257
258 ----
259
ingrreit 147.4 260 == **The curation team: meet the curators** ==
ingrreit 27.2 261
ingrreit 147.4 262 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 27.2 263
ingrreit 147.4 264 The curators in EBRAINS are located in Oslo, Jülich, Trier and Paris. 
265
ingrreit 55.1 266
spieschnik 72.1 267 **Located in Norway:**
ingrreit 55.1 268
spieschnik 98.1 269 |(% style="width:303px" %)(((
spieschnik 113.1 270 [[image:My project2.jpg||height="209" width="167"]]
spieschnik 97.2 271
spieschnik 105.1 272 **Archana Golla**
273
spieschnik 111.1 274 (% class="small" %)Curation Scientist
spieschnik 116.1 275 Neuroscience (PhD)(%%)
eapapp 166.1 276 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Behavioral neuroscience and microscopy**
spieschnik 105.1 277 )))|(% style="width:303px" %)(((
spieschnik 142.2 278 [[image:Camilla.jpg||alt="My project.jpg" height="209" width="167"]]
spieschnik 98.1 279
spieschnik 122.1 280 **Camilla H. Blixhavn**
spieschnik 105.1 281
spieschnik 122.1 282 (% class="small" %)Curation Scientist,
283 Phd Student
284 Neuroscience (M. Sc.)(%%)
eapapp 166.1 285 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroanatomy and data integration**
spieschnik 126.1 286 )))|(% style="width:303px" %)(((
spieschnik 124.1 287 [[image:My project (1).jpg||height="209" width="167"]]
spieschnik 105.1 288
289 **Ingrid Reiten**
290
spieschnik 111.1 291 (% class="small" %)Curation Scientist,
spieschnik 112.1 292 Phd Student
spieschnik 117.1 293 Neuroscience (M. Sc.)(%%)
eapapp 166.1 294 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroanatomy and structural connectivity**
spieschnik 126.1 295 )))|(% style="width:303px" %)(((
spieschnik 124.1 296 [[image:My project1.jpg||height="209" width="167"]]
spieschnik 105.1 297
spieschnik 122.1 298 **Sophia Pieschnik**
spieschnik 105.1 299
spieschnik 122.1 300 (% class="small" %)Curation Scientist
301 Neurocognitive Psychology (M. Sc.)(%%)
eapapp 166.1 302 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroimaging **
spieschnik 123.1 303 )))
spieschnik 72.1 304
spieschnik 143.2 305 |(% style="width:303px" %)(((
spieschnik 142.2 306 [[image:My project.jpg||height="209" width="167"]]
spieschnik 141.2 307
spieschnik 142.2 308 **Heidi Kleven**
spieschnik 141.2 309
spieschnik 142.2 310 (% class="small" %)Curation Scientist,
311 Phd Student
312 Neuroscience (M. Sc.)(%%)
eapapp 166.1 313 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Neuroanatomy and brain atlases**
spieschnik 142.2 314 )))| | |
315
spieschnik 141.2 316
ingrreit 128.1 317 \\**Located in Germany:**
spieschnik 72.1 318
spieschnik 143.2 319 |(% style="width:303px" %)(((
spieschnik 115.1 320 [[image:My project (2).jpg||height="209" width="167"]]
spieschnik 72.1 321
322 **Jan Gündling**
323
spieschnik 143.2 324 (% class="small" %)Curation Scientist,
jan 131.2 325 Phd Student
spieschnik 117.1 326 Sensors and Cognitive Psychology (M. Sc.)(%%)
eapapp 166.1 327 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Human-Computer Interaction**
spieschnik 168.2 328 )))|(% style="width:328px" %)(((
spieschnik 143.2 329
spieschnik 72.1 330
spieschnik 143.2 331
332
333
334
335
336 **Lyuba Zehl**
337
338 (% class="small" %)Knowledge Systems Engineer
339 Dr. rer. nat. (Systems Neuroscience)(%%)
eapapp 166.1 340 (% class="small" style="--darkreader-inline-color:#d3cbbf; color:#4a5568" %)**Standard development, data & knowledge management, interdisciplinary communication, data analysis**
spieschnik 168.2 341 )))|(% style="width:321px" %) |(% style="width:324px" %)
spieschnik 143.2 342
ingrreit 27.2 343 ----
344
ingrreit 147.6 345 == **Add practical value to your shared data, model or software** ==
ingrreit 10.1 346
347
ingrreit 147.6 348 ----
ingrreit 58.1 349
ingrreit 147.6 350 === **Showcase shared data, models or software in other services** ===
ingrreit 58.1 351
ingrreit 147.6 352 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 58.1 353
ingrreit 147.7 354 **Viewer for 2D images **
ingrreit 55.1 355
ingrreit 147.6 356 * 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 60.1 357
ingrreit 147.7 358 **Viewer for sequential atlas-registered 2D images with annotation options**
ingrreit 60.1 359
puchades 63.1 360 * 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 147.6 361
ingrreit 147.7 362 **Use your research product in an interactive publication **
ingrreit 147.6 363
ingrreit 147.7 364 * 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 60.1 365
ingrreit 147.7 366 **Interactive 3D atlas viewer with options for data visualization**
367
368 * 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]].
369
ingrreit 60.1 370 ----
371
ingrreit 160.1 372 ==== **Add a tutorial or learning resource ** ====
373
374 (% class="wikigeneratedid" id="H-LearningresourceA05Binformation5D" %)
eapapp 166.1 375 (% style="--darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//
ingrreit 160.1 376
377
378 ==== **Create a workflow** ====
379
380 (% class="wikigeneratedid" id="H-Workflows5Binformation5D" %)
eapapp 166.1 381 (% style="--darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//
ingrreit 160.1 382
383 ----
384
ingrreit 37.1 385 === **The benefits of sharing data ** ===
ingrreit 27.1 386
387 By sharing your data via EBRAINS, you gain access to the following benefits:
388
389 [[image:image-20230324170841-3.png]]
390
391
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ingrreit 159.1 393 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.
ingrreit 27.1 394
395 ----
396
ingrreit 148.1 397 === **Frequently asked questions ** ===
ingrreit 10.1 398
ingrreit 1.1 399 (((
eapapp 166.1 400 ==== ====
ingrreit 1.1 401
ingrreit 23.2 402 (((
spieschnik 168.2 403 >Is the curation process time consuming and difficult?
ingrreit 1.1 404 )))
ingrreit 19.1 405 )))
ingrreit 10.1 406
spieschnik 168.2 407
ingrreit 10.1 408 (% class="wikigeneratedid" id="HHowcanIshareA0models3F" %)
spieschnik 168.2 409 No, if communication is on a regular basis, we are able to finish curation within two weeks. Publishing your data naturally takes some effort but we will support you as much as possible.
ingrreit 10.1 410
spieschnik 168.2 411 >Is sharing my data also beneficial for me or only for others?
ingrreit 10.1 412
413
414 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.
415
spieschnik 168.2 416 >Can my data be too insignificant to share?
ingrreit 10.1 417
418
spieschnik 168.2 419 No, 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.
ingrreit 10.1 420
spieschnik 168.2 421 >Can my data be easily misused if I share it?
ingrreit 10.1 422
423
spieschnik 168.2 424 No, 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.
ingrreit 10.1 425
spieschnik 168.2 426 >Can I share my data before my paper is published?
ingrreit 10.1 427
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spieschnik 168.2 429 Yes, 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.
ingrreit 10.1 430
spieschnik 168.2 431 >Can I lose my competitive edge if I share my data before I publish the associated paper?
ingrreit 10.1 432
433
spieschnik 168.2 434 No, 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.
ingrreit 10.1 435
436
437 ----
438
439 == Contact ==
440
441 [[curation-support@ebrains.eu>>mailto:curation-support@ebrains.eu]]
442
443
444 {{putFootnotes/}}
spieschnik 123.1 445 ~)~)~)~)~)~)
446 ~)~)~)
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448 ~)~)~)~)~)~)