Changes for page data-curation-copy

Last modified by eapapp on 2023/07/04 16:46
From version 163.1
edited by jan
on 2023/06/06 11:24
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To version 151.1
edited by ingrreit
on 2023/06/05 10:37
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1 -XWiki.jan
1 +XWiki.ingrreit
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30 30  
31 31  (% class="box successmessage" %)
32 32  (((
33 -**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]]
33 +**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
34 34  )))
35 35  
36 36  ----
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55 55  
56 56  [[image:image-20230326054341-1.png]]
57 57  
58 -==== [[[[image:image-20230324171114-2.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/dfd374b9b43a458192e9/]]//All you need to know to share data on EBRAINS.// ====
58 +==== ====
59 59  
60 +(% style="width:1841.22px" %)
61 +|(% style="width:344px" %)(((
62 +[[[[image:image-20230324171114-2.png||height="219" width="155"]]>>https://drive.ebrains.eu/f/dfd374b9b43a458192e9/]]
63 +)))|(% style="width:1493px" %)//We have collected 'all you need to know to share data on EBRAINS' in an infographic. //
60 60  
61 61  ==== **1. Provide some general information about your dataset** ====
62 62  
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70 70  
71 71  This form collects the necessary information needed for us to evaluate whether we can ethically and legally share the data via EBRAINS.
72 72  
73 -See below for information about the ethical and legal aspects concerning sharing of human subject data.
74 74  
75 -
76 76  ==== **2. Upload data ** ====
77 77  
78 78  
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92 92  If a data collection is already uploaded elsewhere, we may link to the already existing repository.
93 93  
94 94  
95 -==== **3. Submit metadata** ====
97 +(% style="color:#1a202c; font-family:inherit; font-size:23px" %)**3. Submit metadata**
96 96  
97 97  
98 -[[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) **
100 +[[image:https://lh5.googleusercontent.com/WS4T2LhF9znWWChn3Z550agLrrb-KTWdYVsJSv0lh4cGjKbjuN1WV68WER9xkYqi1UqN7KYZz7bImYz3_TpOuTuvma7T192QUiUZoyJVPk1fj5NSDSQh_kpIeBufAOdDtsDRpPKK_P5EDPqRCTAaOTNyCw=s2048||height="91px;" width="91px;"]]**Submit metadata using our **[[EBRAINS Metadata wizard>>https://ebrains-metadata-wizard.apps.hbp.eu/]]** (opt. 1), or through direct interaction with the Knowledge Graph (opt. 2) **
99 99  
100 -//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
102 +//Opt. 1.// Manually submit the minimal required metadata via the [[EBRAINS Metadata 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
101 101  
102 102  //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:
103 103  
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108 108  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.
109 109  
110 110  
113 +**The openMINDS metadata framework**
114 +
115 +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]].
116 +
117 +For feedback, requests, or contributions, please get in touch with the openMINDS development team via
118 +
119 +* the support-email: [[openminds@ebrains.eu>>path:mailto:openminds@ebrains.eu]]
120 +* the [[GitHub issue tracker>>url:https://github.com/HumanBrainProject/openMINDS/issues]]
121 +* the INCF NeuroStars [[openMINDS Community Forum>>url:https://neurostars.org/t/openminds-community-forum-virtual/20156]]
122 +
123 +
111 111  ==== **4. Write a Data Descriptor ** ====
112 112  
113 113  [[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]]** . **
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120 120  
121 121  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.
122 122  
123 -==== [[[[image:image-20230324171109-1.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/c1ccb78be52e4bdba7cf/]]//The EBRAINS Data descriptor at-a-glance// ====
124 124  
137 +|(% style="width:175px" %)[[[[image:image-20230324171109-1.png||height="154" width="109"]]>>https://drive.ebrains.eu/f/c1ccb78be52e4bdba7cf/]]|(% style="width:1662px" %)The EBRAINS Data descriptor at-a-glance
125 125  
126 126  ==== **5. Preview and publish ** ====
127 127  
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131 131  
132 132  ----
133 133  
134 -==== **Sharing human subject data ** ====
147 +==== **Sharing human data ** ====
135 135  
136 136  (% class="box floatinginfobox" %)
137 137  (((
138 -**Human subject data that can be shared on EBRAINS:**
151 +**Human subject data that can be shared on EBRAINS consists of:**
139 139  
140 140  - Post-mortem data
141 141  - Aggregated data
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144 144  (% 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. //
145 145  )))
146 146  
147 -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]].
160 +Human 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]].
148 148  
149 149  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).
150 150  
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175 175  
176 176  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.
177 177  
178 -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.
191 +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.[[[[image:Thumb.png||alt="EBRAINS-Share-Software.pdf" height="315" style="float:right" width="215"]]>>attach:EBRAINS-Share-Software.pdf]]
179 179  
180 180  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]].
181 181  
182 -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.
195 +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.
183 183  
184 -[[[[image:Thumb.png||alt="EBRAINS-Share-Software.pdf" height="155" style="float:left" width="106"]]>>attach:EBRAINS-Share-Software.pdf]]
185 185  
186 186  
187 187  
188 -==== //Software curation at a glance// ====
189 189  
190 190  
191 191  
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192 192  
193 193  ----
194 194  
195 -== **The openMINDS metadata framework** ==
196 -
197 -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]].
198 -
199 -For feedback, requests, or contributions, please get in touch with the openMINDS development team via
200 -
201 -* the support-email: [[openminds@ebrains.eu>>path:mailto:openminds@ebrains.eu]]
202 -* the [[GitHub issue tracker>>url:https://github.com/HumanBrainProject/openMINDS/issues]]
203 -* the INCF NeuroStars [[openMINDS Community Forum>>url:https://neurostars.org/t/openminds-community-forum-virtual/20156]]
204 -
205 -----
206 -
207 207  == **The curation team: meet the curators** ==
208 208  
209 209  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.
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297 297  == **Add practical value to your shared data, model or software** ==
298 298  
299 299  
299 +==== **Add a tutorial or learning resource ** ====
300 +
301 +(% class="wikigeneratedid" id="H-LearningresourceA05Binformation5D" %)
302 +(% style="color:#000000" %)//More information will follow//
303 +
304 +
305 +==== **Create a workflow** ====
306 +
307 +(% class="wikigeneratedid" id="H-Workflows5Binformation5D" %)
308 +(% style="color:#000000" %)//More information will follow//
309 +
300 300  ----
301 301  
302 302  === **Showcase shared data, models or software in other services** ===
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321 321  
322 322  ----
323 323  
324 -==== **Add a tutorial or learning resource ** ====
325 -
326 -(% class="wikigeneratedid" id="H-LearningresourceA05Binformation5D" %)
327 -(% style="color:#000000" %)//More information will follow//
328 -
329 -
330 -==== **Create a workflow** ====
331 -
332 -(% class="wikigeneratedid" id="H-Workflows5Binformation5D" %)
333 -(% style="color:#000000" %)//More information will follow//
334 -
335 -----
336 -
337 337  === **The benefits of sharing data ** ===
338 338  
339 339  By sharing your data via EBRAINS, you gain access to the following benefits:
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342 342  
343 343  
344 344  
345 -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.
342 +We support you to better follow the FAIR^^ ^^guiding principles 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.
346 346  
344 +
347 347  ----
348 348  
347 +=== ===
348 +
349 349  === **Frequently asked questions ** ===
350 350  
351 351  (((
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