Warning:  Due to planned infrastructure maintenance, the EBRAINS Wiki and EBRAINS Support system will be unavailable for up to three days starting Monday, 14 July. During this period, both services will be inaccessible, and any emails sent to the support address will not be received.

Attention: We are currently experiencing some issues with the EBRAINS Drive. Please bear with us as we fix this issue. We apologise for any inconvenience caused.


Changes for page Data Curation

Last modified by abonard on 2025/06/03 10:55
From version 165.1
edited by jan
on 2023/06/06 11:27
Change comment: There is no comment for this version
To version 221.2
edited by adavison
on 2024/07/05 18:30
Change comment: There is no comment for this version

Summary

Details

Page properties
Title
... ... @@ -1,1 +1,1 @@
1 -test-ir2
1 +Data Curation
Parent
... ... @@ -1,1 +1,1 @@
1 -CollabClass
1 +Collabs.WebHome
Author
... ... @@ -1,1 +1,1 @@
1 -XWiki.jan
1 +XWiki.adavison
Content
... ... @@ -1,6 +1,25 @@
1 -== Publishing neuroscience data, models and software via EBRAINS ==
1 +{{html clean="false"}}
2 +<div style="float:right;margin-left:1em;margin-bottom:1em">
3 + <form title="Search in this collab" target="_blank" action="https://wiki.ebrains.eu/bin/view/Main/Search">
4 + <input type="hidden" name="sort" value="score">
5 + <input type="hidden" name="sortOrder" value="desc">
6 + <input type="hidden" name="highlight" value="true">
7 + <input type="hidden" name="facet" value="true">
8 + <input type="hidden" name="r" value="1">
9 + <input type="hidden" name="f_locale" value="en">
10 + <input type="hidden" name="f_space_facet" value="1/Collabs.test-ir2.">
11 + <input type="hidden" name="l_space_facet" value="100">
12 + <input type="hidden" name="f_type" value="DOCUMENT">
13 + <input type="text" name="text" placeholder="Search here..." size="25" id="searchbox" />
14 + <input type="submit" value="&#x1F50E;&#xFE0E;" id="submit"/>
15 + </form>
16 +</div>
17 +{{/html}}
2 2  
3 3  
20 +(% class="wikigeneratedid" id="HPublishingneurosciencedata2CmodelsandsoftwareviaEBRAINS" %)
21 +(% style="font-size:2em" %)**Publishing neuroscience data, models and software via EBRAINS**
22 +
4 4  (% class="wikigeneratedid" %)
5 5  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]].
6 6  
... ... @@ -8,16 +8,17 @@
8 8  {{toc depth="3" start="2"/}}
9 9  {{/box}}
10 10  
11 -
12 12  == **Information to get started** ==
13 13  
14 -**[[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. **
32 +**[[REQUEST CURATION>>https://nettskjema.no/a/386195]] to share data, simulations, computational models, and software, - or to add a new version of an existing one. **
15 15  
16 16  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.
17 17  
18 18  
19 -(% style="text-align: center;" %)
20 -Search existing data, models and software in [[the EBRAINS Knowledge Graph Search>>https://kg.ebrains.eu/search/?facet_type[0]=Dataset]]
37 +(% class="box" style="text-align: center; font-size: 1.2em" %)
38 +(((
39 +Search existing data, models and software in the [[EBRAINS Knowledge Graph>>https://kg.ebrains.eu/search/?facet_type[0]=Dataset]]
40 +)))
21 21  
22 22  
23 23  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. 
... ... @@ -47,7 +47,9 @@
47 47  
48 48  The curation of data, models and software is different. Thus, below we explain the process for sharing for each research product separately.
49 49  
70 +**Before you get started, make sure you[[ sign up for a free EBRAINS account>>https://www.ebrains.eu/page/sign-up]]. This is needed to complete the data sharing process. **
50 50  
72 +
51 51  ----
52 52  
53 53  === Step by step - Data ===
... ... @@ -55,38 +55,52 @@
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.// ====
80 +(% class="box floatinginfobox" id="share-data-infographic" %)
81 +(((
82 +(% style="text-align:center" %)
83 +//Download our infographic//
84 +//with all you need to know//
85 +//to share data on EBRAINS: //
86 +// //
87 +[[[[image:image-20230324171114-2.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/dfd374b9b43a458192e9/]]
88 +)))
59 59  
60 60  
61 61  ==== **1. Provide some general information about your dataset** ====
62 62  
63 63  
64 -[[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#/]]. **
65 65  
66 -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.
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 [[EBRAINS Curation Request Form>>https://nettskjema.no/a/386195]]. **
67 67  
97 +The form collects general 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 and follow up on incoming requests.
68 68  
69 -[[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]]**.
99 +You will also be asked to fill in information related to ethics and regulatory compliance, so that we can evaluate whether we can ethically and legally share the data via EBRAINS (earlier, this was recorded via a [[separate form>>https://nettskjema.no/a/224765]]). See below for information about the ethical and legal aspects concerning sharing of human subject data.
70 70  
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 -
75 -
76 76  ==== **2. Upload data ** ====
77 77  
104 +(% class="box floatinginfobox" id="share-data-infographic" %)
105 +(((
106 +(% style="text-align:center" %)
107 +//Download our infographic//
108 +//with guidelines
109 +on data organization: //
78 78  
79 -[[image:https://lh5.googleusercontent.com/sieKO-kW8O18iPaUyonwyo4UfHBmtc2E9BDnjbx52j6J_uGmm-OzGAo7sloMk3sYwKa6QW3hYQsOA9N4H7uGQpca088Wrk0Nurpt_J3B0-NSbcaPNdZIh21otQcG6jnAxLGiKoEvkTyaDGTMk3fu7me8mQ=s2048||height="94px;" width="94px;"]]**Ensure data is structured consistently prior to upload. **
111 +(% style="text-align:center" %)
112 +[[[[image:image-20230621121014-1.png||height="150" width="106"]]>>https://drive.ebrains.eu/lib/f5cf4964-f095-49bd-8c34-e4ffda05a497/file/ebrains-infographic-data-organisation.pdf/]]
113 +)))
80 80  
81 -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.
115 +(% 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. **
82 82  
83 -[[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).**
117 +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// //[[guidelines on data organization>>https://drive.ebrains.eu/smart-link/25299f04-c4e5-4028-8f5f-3b8208f9a532/]] for further guidance.
84 84  
85 -//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.
119 +(% 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).**
86 86  
87 -//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.
121 +**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.
88 88  
123 +**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.
89 89  
125 +
90 90  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. 
91 91  
92 92  If a data collection is already uploaded elsewhere, we may link to the already existing repository.
... ... @@ -95,23 +95,25 @@
95 95  ==== **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) **
134 +(% 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 directly via 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
136 +**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 -//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:
138 +**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  
104 104  * 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.
105 105  * [[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.
106 106  * [[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.
107 107  
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.
144 +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/f/3e226ad165054b35b456/||rel="noopener noreferrer" target="_blank"]] on EBRAINS.
109 109  
110 110  
111 -==== **4. Write a Data Descriptor ** ====
147 +==== **4. Write a Data Descriptor** ====
112 112  
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]]** . **
114 114  
150 +
151 +(% 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]]**.**
152 +
115 115  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. 
116 116  
117 117  See our infographic about the data descriptor for inspiration or guidance.
... ... @@ -120,270 +120,344 @@
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  
162 +(% class="box floatinginfobox" id="data-descriptor-infographic" %)
163 +(((
164 +(% style="text-align:center" %)
165 +//Download our infographic
166 +about the EBRAINS Data//
167 +//Descriptor//
168 +// //
169 +[[[[image:image-20230324171109-1.png||height="150" width="106"]]>>https://drive.ebrains.eu/f/c1ccb78be52e4bdba7cf/]]
170 +)))
125 125  
126 -==== **5. Preview and publish ** ====
172 +==== **5. Preview and publish** ====
127 127  
128 128  
129 -[[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.
175 +(% 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. **
130 130  
177 +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.
131 131  
179 +
180 +
181 +
132 132  ----
133 133  
134 -==== **Sharing human subject data ** ====
184 +=== Step by Step - Models ===
135 135  
136 -(% class="box floatinginfobox" %)
137 -(((
138 -**Human subject data that can be shared on EBRAINS:**
139 139  
140 -- Post-mortem data
141 -- Aggregated data
142 -- Strongly pseudonymized or de-identified subject data with a legal basis for sharing (e.g. Informed Consent)
187 +==== 1. Start early ====
143 143  
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 -)))
189 +It is not necessary to wait until you are ready to publish to register your model with EBRAINS.
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]].
191 +By registering a model early in your project, you can take advantage of EBRAINS tools
192 +to keep track of simulations and to share them with your collaborators.
148 148  
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).
194 +==== 2. Create/choose a Collab workspace ====
150 150  
151 -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.
196 +We use EBRAINS Collaboratory "collab" workspaces to help manage the model curation process.
152 152  
153 -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.
198 +In particular, we use collab membership (the "Team") to control who can view or edit your model metadata prior to publication.
154 154  
155 -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.
200 +It is up to you whether you create a new collab for each model, or reuse an existing collab
201 +(it is no problem to have multiple models associated with a single collab).
156 156  
203 +Collabs are also useful for storing simulation results, adding documentation for your model,
204 +and/or providing tutorials in Jupyter notebooks.
157 157  
158 -----
206 +==== 3. Upload code ====
159 159  
160 -=== Step by Step - Models ===
208 +We recommend storing model code and/or configuration files in an online Git repository, for example on GitHub.
209 +This repository should be public when you publish the model, but a private repository can be used for model development.
161 161  
211 +Alternatively, you can upload code to the Collab Drive or Bucket storage.
162 162  
163 -~1. Request curation using the [[Curation request form>>https://nettskjema.no/a/277393#/]]. You will be contacted by a curator with more information.
213 +==== 4. Submit metadata ====
164 164  
215 +We recommend submitting metadata using the Model Catalog app, installed in your collab.
165 165  
166 -//Additional information will be added soon.//
217 +To install it:
167 167  
168 -----
219 +1. click the "+ Create" button
220 +1. in the "Create Page" form, add a title, such as "Model Catalog", and select "Community App", then click "Create"
221 +1. scroll down until you find the "Model Catalog" app, click "Select", then "Save & View"
169 169  
170 -=== Step by Step - Software ===
223 +You will then see a table of all the models and validation tests associated with this collab.
224 +If this is your first time using the app, the table will probably be empty.
225 +To add your model, click "+", fill in the form, then click "Add model".
171 171  
172 -[[[[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"]]
227 +As development of your model proceeds, you can easily register new versions of the code,
228 +and new parameterizations, by clicking "Add new version".
173 173  
174 -~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.
230 +If you prefer not to use the app, you can instead fill in the [[EBRAINS Curation Request Form>>https://nettskjema.no/a/386195]].,
231 +and you will be contacted by e-mail with further instructions.
175 175  
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.
233 +==== 5. Provide a reference dataset ====
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.
235 +Once you're ready to publish your model entry in the EBRAINS Knowledge Graph,
236 +we encourage you to provide a dataset containing the simulation results produced by your model,
237 +following the process under "Step by step - Data" above.
179 179  
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]].
239 +These reference data will be linked to the model, and will be helpful to anyone trying to
240 +reuse your model.
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.
242 +We will soon introduce a "Reproducible" badge for all models that include a reference dataset,
243 +and whose simulation results can be reproduced by an EBRAINS curator.
183 183  
184 -(% style="text-align: right;" %)
185 -==== //Software curation at a glance //[[[[image:Thumb2.png||alt="EBRAINS-Share-Software.pdf" height="287" width="197"]]>>attach:EBRAINS-Share-Software-4.pdf]] ====
245 +==== 6. Request publication, preview and publish ====
186 186  
187 -----
247 +Until you request your model entry to be published in the EBRAINS Knowledge Graph,
248 +only members of the collab will be able to view the model entry, in the Model Catalog app
249 +or using the Model Validation Python client.
188 188  
189 -== **The openMINDS metadata framework** ==
251 +After publication, the model will appear in the [[EBRAINS public search results>>https://search.kg.ebrains.eu/?category=Model||rel="noopener noreferrer" target="_blank"]], and will receive a DOI.
190 190  
191 -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]].
253 +To request publication, [[contact EBRAINS support>>https://ebrains.eu/support||rel="noopener noreferrer" target="_blank"]], providing the collab name and the model name or ID.
192 192  
193 -For feedback, requests, or contributions, please get in touch with the openMINDS development team via
194 194  
195 -* the support-email: [[openminds@ebrains.eu>>path:mailto:openminds@ebrains.eu]]
196 -* the [[GitHub issue tracker>>url:https://github.com/HumanBrainProject/openMINDS/issues]]
197 -* the INCF NeuroStars [[openMINDS Community Forum>>url:https://neurostars.org/t/openminds-community-forum-virtual/20156]]
256 +Curators will then perform a number of checks:
198 198  
199 -----
258 +1. Does the model description provide sufficient context to understand the purpose and use of the model?
259 +1. Does the code repository contain a licence file, explaining the conditions for reusing the code?
260 +1. Does the model have a clearly defined version identifier (e.g. v1.0)? For models in a Git repository, the version identifier should match the name of a tag or release.
200 200  
201 -== **The curation team: meet the curators** ==
262 +The curators will also take a snapshot of your model code.
202 202  
203 -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.
264 +* For models in public Git repositories, we archive a copy of the repository in [[Software Heritage>>https://www.softwareheritage.org/||rel="noopener noreferrer" target="_blank"]].
265 +* For models in a collab Bucket or Drive, we make a read-only copy of the code in a public container in the EBRAINS repository.
204 204  
205 -The curators in EBRAINS are located in Oslo, Jülich, Trier and Paris. 
206 -
267 +Once this is done, you will be invited to review a preview of how the model entry will appear in the KG Search,
268 +and will have the opportunity to request modifications prior to approval and publication.
207 207  
208 -**Located in Norway:**
270 +----
209 209  
210 -|(% style="width:303px" %)(((
211 -[[image:My project2.jpg||height="209" width="167"]]
272 +=== Step by Step - Software ===
212 212  
213 -**Archana Golla**
274 +1. Fill in the [[EBRAINS Curation 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.
275 +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.
276 +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.
214 214  
215 -(% class="small" %)Curation Scientist
216 -Neuroscience (PhD)(%%)
217 -(% class="small" style="color:#4a5568" %)**Behavioral neuroscience and microscopy**
218 -)))|(% style="width:303px" %)(((
219 -[[image:Camilla.jpg||alt="My project.jpg" height="209" width="167"]]
278 +If you want to add a new version to an already curated software, please request this via the [[EBRAINS Curation Request Form>>https://www.ebrains.eu/tools/ebrains-curation-request-form]].
220 220  
221 -**Camilla H. Blixhavn**
280 +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.
222 222  
223 -(% class="small" %)Curation Scientist,
224 -Phd Student
225 -Neuroscience (M. Sc.)(%%)
226 -(% class="small" style="color:#4a5568" %)**Neuroanatomy and data integration**
227 -)))|(% style="width:303px" %)(((
228 -[[image:My project (1).jpg||height="209" width="167"]]
229 229  
230 -**Ingrid Reiten**
283 +----
231 231  
232 -(% class="small" %)Curation Scientist,
233 -Phd Student
234 -Neuroscience (M. Sc.)(%%)
235 -(% class="small" style="color:#4a5568" %)**Neuroanatomy and structural connectivity**
236 -)))|(% style="width:303px" %)(((
237 -[[image:My project1.jpg||height="209" width="167"]]
285 +=== Sharing human subject data ===
238 238  
239 -**Sophia Pieschnik**
287 +(% class="box floatinginfobox" %)
288 +(((
289 +**Human subject data that can be shared on EBRAINS:**
290 +// //
291 +// - Post-mortem data//
292 +// - Aggregated data//
293 +// - Strongly pseudonymized or de-identified subject data//
294 +// with a legal basis for sharing (e.g. Informed Consent)//
295 +// //
240 240  
241 -(% class="small" %)Curation Scientist
242 -Neurocognitive Psychology (M. Sc.)(%%)
243 -(% class="small" style="color:#4a5568" %)**Neuroimaging **
297 +(% class="small" %)
298 +//If you have human data that does not qualify as any of the above,//
299 +//please [[get in touch>>https://www.ebrains.eu/contact/]] and we will clarify the available options.//
244 244  )))
245 245  
246 -|(% style="width:303px" %)(((
247 -[[image:My project.jpg||height="209" width="167"]]
248 248  
249 -**Heidi Kleven**
303 +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]].
250 250  
251 -(% class="small" %)Curation Scientist,
252 -Phd Student
253 -Neuroscience (M. Sc.)(%%)
254 -(% class="small" style="color:#4a5568" %)**Neuroanatomy and brain atlases**
255 -)))| | |
305 +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).
256 256  
257 -
258 -\\**Located in Germany:**
307 +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.
259 259  
260 -|(% style="width:303px" %)(((
261 -[[image:My project (2).jpg||height="209" width="167"]]
309 +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.
262 262  
263 -**Jan Gündling**
311 +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.
264 264  
265 -(% class="small" %)Curation Scientist,
266 -Phd Student
267 -Sensors and Cognitive Psychology (M. Sc.)(%%)
268 -(% class="small" style="color:#4a5568" %)**Human-Computer Interaction**
269 -)))|(% style="width:303px" %)(((
270 -
313 +----
271 271  
315 +== **The openMINDS metadata framework** ==
272 272  
317 +(% class="box floatinginfobox" %)
318 +(((
319 +[[[[image:https://github.com/HumanBrainProject/openMINDS/raw/main/img/light_openMINDS-logo.png||alt="openMINDS logo" height="87" width="164"]]>>https://github.com/HumanBrainProject/openMINDS]]
320 +)))
273 273  
322 +openMINDS is a community-driven, open-source metadata framework for linked data, as used in graph database systems, such as the EBRAINS Knowledge Graph. It is composed of multiple metadata models with interlinked schemas, libraries of serviceable metadata instances, and supportive tooling (e.g., [[openMINDS Python>>https://github.com/openMetadataInitiative/openMINDS_Python]] or [[openMINDS Matlab>>https://github.com/openMetadataInitiative/openMINDS_MATLAB]]). A full documentation (for users and contributors) of the openMINDS framework can be found on [[ReadTheDocs>>https://openminds-documentation.readthedocs.io||rel="noopener noreferrer" target="_blank"]].
274 274  
324 +For feedback, requests, or contributions, please get in touch with the openMINDS development team via
275 275  
326 +* [[support@openmetadatainitiative.org>>mailto:mailto:support@openmetadatainitiative.org]]
327 +* [[GitHub Issues>>https://github.com/openMetadataInitiative/openMINDS/issues]] (for metadata schemas)
328 +* [[GitHub Issues>>https://github.com/openMetadataInitiative/openMINDS_instances/issues]] (for metadata instances)
329 +* [[openMINDS Community Forum>>https://neurostars.org/t/openminds-community-forum-virtual]]
276 276  
331 +----
277 277  
333 +== **Add practical value to your shared data, model or software** ==
278 278  
279 279  
336 +=== **Showcase shared data, models or software in other services** ===
280 280  
338 +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.
281 281  
282 -**Lyuba Zehl**
283 283  
284 -(% class="small" %)Knowledge Systems Engineer
285 -Dr. rer. nat. (Systems Neuroscience)(%%)
286 -(% class="small" style="color:#4a5568" %)**Standard development, data & knowledge management, interdisciplinary communication, data analysis**
287 -)))|(% style="width:303px" %) |
341 +|(% colspan="2" %)**Viewer for 2D images**
342 +|[[image:MIO_screenshot.PNG]]|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]].
343 +|(% colspan="2" %)**Viewer for sequential atlas-registered 2D images with annotation options**
344 +|[[image:LZ_screenshot.PNG]]|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]].
345 +|(% colspan="2" %)**Interactive 3D atlas viewer with options for data visualization**
346 +|[[image:3Datlas_screenshot.PNG]]|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]].
347 +|(% colspan="2" %)**Use your research product in an interactive publication**
348 +|[[image:LivePaper_screenshot.PNG]]|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]].
288 288  
289 289  ----
290 290  
291 -== **Add practical value to your shared data, model or software** ==
352 +==== **Add a tutorial or learning resource ** ====
292 292  
354 +(% class="wikigeneratedid" id="H-LearningresourceA05Binformation5D" %)
355 +(% style="--darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//
293 293  
357 +
358 +==== **Create a workflow** ====
359 +
360 +(% class="wikigeneratedid" id="H-Workflows5Binformation5D" %)
361 +(% style="--darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//
362 +
294 294  ----
295 295  
296 -=== **Showcase shared data, models or software in other services** ===
365 +== **EBRAINS commits to the FAIR principles** ==
297 297  
298 -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.
367 +In 2016, the 'FAIR Guiding Principles for the management and guardianship of scientific data'{{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}} were introduced to the scientific community. The objective of the authors was to provide a set of general recommendations aimed at enhancing the Findability, Accessibility, Interoperability, and Reusability of digital resources (data). They emphasize the importance of making data more open, discoverable, and usable, ultimately facilitating collaboration and knowledge sharing within the scientific community. Today, the FAIR principles are widely recognized and adopted as best practices in data management and stewardship across scientific fields.
299 299  
300 -**Viewer for 2D images **
369 +In EBRAINS, all datasets, models and software shared go through a streamlined curation process that ensures relevant annotation of the data using the [[openMINDS>>url:https://github.com/HumanBrainProject/openMINDS]] metadata framework and integration into the [[EBRAINS Knowledge Graph>>url:https://docs.kg.ebrains.eu/]] metadata management system. The research products are Findable and Accessible through the [[Knowledge Graph Search>>url:https://search.kg.ebrains.eu/?category=Dataset]] as dataset/model/software cards that display further information regarding the dataset's Interoperability and Reusability.
301 301  
302 -* 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]].
371 +To further specify how EBRAINS aligns with the FAIR principles, we have assessed the FAIRness of datasets shared in the EBRAINS Knowledge Graph following the [[FAIRsFAIR Data Object Assessment Metrics>>https://zenodo.org/record/6461229||style="background-color: rgb(255, 255, 255); --darkreader-inline-bgcolor: #1c1e1f;"]]: see our **[[FAIR assessment of EBRAINS datasets>>doc:.FAIR assessment of EBRAINS datasets.WebHome]]. **
303 303  
304 -**Viewer for sequential atlas-registered 2D images with annotation options**
305 305  
306 -* 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]].
374 +----
307 307  
308 -**Use your research product in an interactive publication **
376 +== **General benefits of sharing data ** ==
309 309  
310 -* 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]].
378 +By sharing your data via EBRAINS, you gain access to the following benefits:
311 311  
312 -**Interactive 3D atlas viewer with options for data visualization**
380 +[[image:image-20230324170841-3.png]]
313 313  
314 -* 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]].
315 315  
383 +
384 +We support you to better follow the [[FAIR^^ ^^guiding principles>>https://www.nature.com/articles/sdata201618]] for data management and stewardship. 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.
385 +
316 316  ----
317 317  
318 -==== **Add a tutorial or learning resource ** ====
388 +== **Frequently asked questions ** ==
319 319  
320 -(% class="wikigeneratedid" id="H-LearningresourceA05Binformation5D" %)
321 -(% style="color:#000000" %)//More information will follow//
390 +>Is the curation process time consuming and difficult?
322 322  
392 +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.
323 323  
324 -==== **Create a workflow** ====
394 +>Is sharing my data also beneficial for me or only for others?
325 325  
326 -(% class="wikigeneratedid" id="H-Workflows5Binformation5D" %)
327 -(% style="color:#000000" %)//More information will follow//
396 +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.
328 328  
329 -----
398 +>Can my data be too insignificant to share?
330 330  
331 -=== **The benefits of sharing data ** ===
400 +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.
332 332  
333 -By sharing your data via EBRAINS, you gain access to the following benefits:
402 +>Can my data be easily misused if I share it?
334 334  
335 -[[image:image-20230324170841-3.png]]
404 +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.
336 336  
406 +>Can I share my data before my paper is published?
337 337  
408 +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.
338 338  
339 -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.
410 +>Can I lose my competitive edge if I share my data before I publish the associated paper?
340 340  
412 +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.
413 +
414 +
341 341  ----
342 342  
343 -=== **Frequently asked questions ** ===
417 +== (% style="--darkreader-inline-color:#f1ede6; color:#1a202c; font-family:inherit; font-size:29px" %)**The curation team: meet the curators**(%%) ==
344 344  
345 -(((
346 -==== ====
419 +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.
347 347  
348 -(((
349 ->The curation process is time consuming and difficult
350 -)))
351 -)))
421 +The curators in EBRAINS are located in Oslo, Jülich, Trier and Paris. 
422 +
352 352  
353 -(% class="wikigeneratedid" id="HHowcanIshareA0models3F" %)
354 -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.
424 +**Located in Norway**
355 355  
356 ->Sharing my data is not beneficial for me - only for others
426 +|(% style="width:303px" %)(((
427 +[[image:My project2.jpg||height="209" width="167"]]
357 357  
429 +**Archana Golla**
358 358  
359 -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.
431 +(% class="small" %)Curation Scientist
432 +Neuroscience (PhD)(%%)
433 +(% class="small" style="--darkreader-inline-color:#cac2b7; color:#4a5568" %)**Behavioral neuroscience and microscopy**
434 +)))|(% style="width:303px" %)(((
435 +[[image:Camilla.jpg||alt="My project.jpg" height="209" width="167"]]
360 360  
361 ->My data is too insignificant to share
437 +**Camilla H. Blixhavn**
362 362  
439 +(% class="small" %)Curation Scientist,
440 +Phd Student
441 +Neuroscience (M. Sc.)(%%)
442 +(% class="small" style="--darkreader-inline-color:#cac2b7; color:#4a5568" %)**Neuroanatomy and data integration**
443 +)))|(% style="width:303px" %)(((
444 +[[image:My project (1).jpg||height="209" width="167"]]
363 363  
364 -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.
446 +**Ingrid Reiten**
365 365  
366 ->My data can easily be misused if I share it with the world
448 +(% class="small" %)Curation Scientist,
449 +Phd Student
450 +Neuroscience (M. Sc.)(%%)
451 +(% class="small" style="--darkreader-inline-color:#cac2b7; color:#4a5568" %)**Neuroanatomy and structural connectivity**
452 +)))|(% style="width:303px" %)(((
453 +[[image:My project1.jpg||height="209" width="167"]]
367 367  
455 +**Sophia Pieschnik**
368 368  
369 -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.
457 +(% class="small" %)Curation Scientist
458 +Neurocognitive Psychology (M. Sc.)(%%)
459 +(% class="small" style="--darkreader-inline-color:#cac2b7; color:#4a5568" %)**Neuroimaging **
460 +)))
370 370  
371 ->I don't think I'm allowed to share my data
462 +|(% style="width:303px" %)(((
463 +[[image:My project.jpg||height="209" width="167"]]
372 372  
465 +**Heidi Kleven**
373 373  
374 -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.
467 +(% class="small" %)Curation Scientist,
468 +Phd Student
469 +Neuroscience (M. Sc.)(%%)
470 +(% class="small" style="--darkreader-inline-color:#cac2b7; color:#4a5568" %)**Neuroanatomy and brain atlases**
471 +)))| | |
375 375  
376 ->I can't share my data before my paper is published
473 +
474 +\\**Located in Germany**
377 377  
476 +|(% style="width:303px" %)(((
477 +[[image:My project (2).jpg||height="209" width="167"]]
378 378  
379 -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.
479 +**Jan Gündling**
380 380  
381 ->If I share my data before I publish the associated paper, I will lose my competitive edge
481 +(% class="small" %)Curation Scientist,
482 +Phd Student
483 +Sensors and Cognitive Psychology (M. Sc.)(%%)
484 +(% class="small" style="--darkreader-inline-color:#cac2b7; color:#4a5568" %)**Human-Computer Interaction**
485 +)))|(% style="width:303px" %)(((
486 +[[image:Lyuba.jpg||height="209" width="167"]]
382 382  
488 +**Lyuba Zehl**
383 383  
384 -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.
490 +(% class="small" %)Knowledge Systems Engineer
491 +Dr. rer. nat. (Systems Neuroscience)(%%)
492 +(% class="small" style="--darkreader-inline-color:#cac2b7; color:#4a5568" %)**Standard development, data & knowledge management, interdisciplinary communication, data analysis**
493 +)))|(% style="width:303px" %) |(% style="width:303px" %)
385 385  
495 +----
386 386  
497 +
498 +
387 387  ----
388 388  
389 389  == Contact ==
... ... @@ -390,9 +390,16 @@
390 390  
391 391  [[curation-support@ebrains.eu>>mailto:curation-support@ebrains.eu]]
392 392  
505 +----
393 393  
507 +== Affiliated laboratories ==
508 +
509 +//Institute of Basic Medical Sciences,** **University of Oslo, Norway (PI: Jan G. Bjaalie, Trygve B. Leergaard)//
510 +
511 +//Institute of Neuroscience and Medicine (INM-1), Research Centre Jülich, Germany (PI: Timo Dicksheid)//
512 +
513 +----
514 +
515 +== References ==
516 +
394 394  {{putFootnotes/}}
395 -~)~)~)~)~)~)
396 -~)~)~)
397 -~)~)~)~)~)~)~)~)~)
398 -~)~)~)~)~)~)
3Datlas_screenshot.PNG
Author
... ... @@ -1,0 +1,1 @@
1 +XWiki.eapapp
Size
... ... @@ -1,0 +1,1 @@
1 +410.7 KB
Content
LZ_screenshot.PNG
Author
... ... @@ -1,0 +1,1 @@
1 +XWiki.eapapp
Size
... ... @@ -1,0 +1,1 @@
1 +1.8 MB
Content
LivePaper_screenshot.PNG
Author
... ... @@ -1,0 +1,1 @@
1 +XWiki.eapapp
Size
... ... @@ -1,0 +1,1 @@
1 +120.9 KB
Content
Lyuba.jpg
Author
... ... @@ -1,0 +1,1 @@
1 +XWiki.eapapp
Size
... ... @@ -1,0 +1,1 @@
1 +568.2 KB
Content
MIO_screenshot.PNG
Author
... ... @@ -1,0 +1,1 @@
1 +XWiki.eapapp
Size
... ... @@ -1,0 +1,1 @@
1 +607.0 KB
Content
image-20230621121014-1.png
Author
... ... @@ -1,0 +1,1 @@
1 +XWiki.eapapp
Size
... ... @@ -1,0 +1,1 @@
1 +106.5 KB
Content
Collaboratory.Apps.Collab.Code.CollabClass[0]
Public
... ... @@ -1,1 +1,1 @@
1 -No
1 +Yes
XWiki.XWikiRights[3]
Allow/Deny
... ... @@ -1,0 +1,1 @@
1 +Allow
Levels
... ... @@ -1,0 +1,1 @@
1 +view
Users
... ... @@ -1,0 +1,1 @@
1 +XWiki.XWikiGuest
XWiki.XWikiRights[4]
Allow/Deny
... ... @@ -1,0 +1,1 @@
1 +Allow
Groups
... ... @@ -1,0 +1,1 @@
1 +XWiki.XWikiAllGroup
Levels
... ... @@ -1,0 +1,1 @@
1 +view
Public

Data Curation