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Changes for page Data Curation

Last modified by spieschnik on 2025/11/17 10:45
From version 147.5
edited by ingrreit
on 2023/06/05 10:22
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To version 232.1
edited by spieschnik
on 2025/11/17 10:44
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1 -test-ir2
1 +Data Curation
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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">
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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  
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8 8  {{toc depth="3" start="2"/}}
9 9  {{/box}}
10 10  
11 -
12 12  == **Information to get started** ==
13 13  
14 -(% style="text-align: center;" %)
15 -**Get started! **
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. **
16 16  
17 -(% style="text-align: center;" %)
18 -**[[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. **
19 -
20 -(% style="text-align: center;" %)
21 21  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.
22 22  
23 23  
24 -(% style="text-align: center;" %)
25 -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 +)))
26 26  
27 27  
28 28  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. 
... ... @@ -35,7 +35,7 @@
35 35  
36 36  (% class="box successmessage" %)
37 37  (((
38 -**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
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]]
39 39  )))
40 40  
41 41  ----
... ... @@ -52,7 +52,9 @@
52 52  
53 53  The curation of data, models and software is different. Thus, below we explain the process for sharing for each research product separately.
54 54  
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. **
55 55  
72 +
56 56  ----
57 57  
58 58  === Step by step - Data ===
... ... @@ -60,32 +60,53 @@
60 60  
61 61  [[image:image-20230326054341-1.png]]
62 62  
63 -==== ====
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 +)))
64 64  
90 +
65 65  ==== **1. Provide some general information about your dataset** ====
66 66  
67 67  
68 -[[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#/]]. **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.
69 69  
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]]. **
70 70  
71 -[[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]]**. This form collects the necessary information needed for us to evaluate whether we can ethically and legally share the data via EBRAINS.
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.
72 72  
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.
73 73  
101 +
74 74  ==== **2. Upload data ** ====
75 75  
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: //
76 76  
77 -[[image:https://lh5.googleusercontent.com/sieKO-kW8O18iPaUyonwyo4UfHBmtc2E9BDnjbx52j6J_uGmm-OzGAo7sloMk3sYwKa6QW3hYQsOA9N4H7uGQpca088Wrk0Nurpt_J3B0-NSbcaPNdZIh21otQcG6jnAxLGiKoEvkTyaDGTMk3fu7me8mQ=s2048||height="94px;" width="94px;"]]**Ensure data is structured consistently prior to upload. **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 documentation for further guidance.
111 +[[~[~[image:image-20230621121014-1.png~|~|data-xwiki-image-style-alignment="center" height="150" width="106"~]~]>>https://drive.ebrains.eu/lib/f5cf4964-f095-49bd-8c34-e4ffda05a497/file/ebrains-infographic-data-organisation.pdf/]]
112 +)))
78 78  
114 +(% 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. **
79 79  
80 -[[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).**
116 +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.
81 81  
82 -//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.
118 +(% 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).**
83 83  
84 -//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.
120 +**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.
85 85  
122 +**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.
86 86  
87 -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. 
88 88  
125 +EBRAINS offers secure, long-term storage at FENIX Supercomputing Centres in Europe.
126 +
89 89  If a data collection is already uploaded elsewhere, we may link to the already existing repository.
90 90  
91 91  
... ... @@ -92,243 +92,242 @@
92 92  ==== **3. Submit metadata** ====
93 93  
94 94  
95 -[[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) **
133 +(% 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) **
96 96  
97 -//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
135 +**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
98 98  
99 -//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:
137 +**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:
100 100  
101 101  * 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.
102 102  * [[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.
103 103  * [[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.
104 104  
143 +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.
105 105  
106 -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.
107 107  
146 +==== **4. Write a Data Descriptor** ====
108 108  
109 -**The openMINDS metadata framework**
110 110  
111 -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]].
112 112  
113 -For feedback, requests, or contributions, please get in touch with the openMINDS development team via
150 +(% 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]]**.**
114 114  
115 -* the support-email: [[openminds@ebrains.eu>>path:mailto:openminds@ebrains.eu]]
116 -* the [[GitHub issue tracker>>url:https://github.com/HumanBrainProject/openMINDS/issues]]
117 -* the INCF NeuroStars [[openMINDS Community Forum>>url:https://neurostars.org/t/openminds-community-forum-virtual/20156]]
152 +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. 
118 118  
154 +See our infographic about the data descriptor for inspiration or guidance.
119 119  
120 -==== **4. Write a Data Descriptor ** ====
156 +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]]".
121 121  
122 -
123 -[[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]]** . **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. 
124 -
125 -
126 -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]]".
127 -
128 128  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.
129 129  
130 130  
131 -|(% 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
132 -
133 -
134 -==== **5. Preview and publish ** ====
135 -
136 -
137 -[[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.
138 -
139 -
140 -----
141 -
142 -==== **Sharing human data ** ====
143 -
144 -(% class="box floatinginfobox" %)
161 +(% class="box floatinginfobox" id="data-descriptor-infographic" %)
145 145  (((
146 -**Human subject data that can be shared on EBRAINS consists of:**
147 -
148 -- Post-mortem data
149 -- Aggregated data
150 -- Strongly pseudonymized or de-identified subject data with a legal basis for sharing (e.g. Informed Consent)
151 -
152 -(% 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. //
163 +(% style="text-align:center" %)
164 +//Download our infographic
165 +about the EBRAINS Data//
166 +//Descriptor//
167 +// //
168 +[[~[~[image:image-20230324171109-1.png~|~|height="150" width="106"~]~]>>https://drive.ebrains.eu/f/c1ccb78be52e4bdba7cf/]]
153 153  )))
154 154  
155 -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]].
171 +==== **5. Preview and publish** ====
156 156  
157 -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).
158 158  
159 -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.
174 +(% 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. **
160 160  
161 -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.
176 +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.
162 162  
163 -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.
164 164  
165 165  
180 +
166 166  ----
167 167  
168 168  === Step by Step - Models ===
169 169  
170 170  
171 -~1. Request curation using the [[Curation request form>>https://nettskjema.no/a/277393#/]]. You will be contacted by a curator with more information.
186 +==== 1. Start early ====
172 172  
188 +It is not necessary to wait until you are ready to publish to register your model with EBRAINS.
173 173  
174 -//Additional information will be added soon.//
190 +By registering a model early in your project, you can take advantage of EBRAINS tools
191 +to keep track of simulations and to share them with your collaborators.
175 175  
176 -----
193 +==== 2. Create/choose a Collab workspace ====
177 177  
178 -=== Step by Step - Code ===
195 +We use EBRAINS Collaboratory "collab" workspaces to help manage the model curation process.
179 179  
180 -[[[[image:swc-flow-no-header.png||alt="swc-flow.png"]]>>https://www.ebrains.eu/tools/ebrains-curation-request-form||rel="noopener noreferrer" target="_blank"]]
197 +In particular, we use collab membership (the "Team") to control who can view or edit your model metadata prior to publication.
181 181  
182 -~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.
199 +It is up to you whether you create a new collab for each model, or reuse an existing collab
200 +(it is no problem to have multiple models associated with a single collab).
183 183  
184 -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.
202 +Collabs are also useful for storing simulation results, adding documentation for your model,
203 +and/or providing tutorials in Jupyter notebooks.
185 185  
186 -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="286" style="float:right" width="195"]]>>attach:EBRAINS-Share-Software.pdf]]
205 +==== 3. Upload code ====
187 187  
188 -If you want to add a new version to an already curated software, please request this via the [[curation request form>>https://nettskjema.no/a/277393]].
207 +We recommend storing model code and/or configuration files in an online Git repository, for example on GitHub.
208 +This repository should be public when you publish the model, but a private repository can be used for model development.
189 189  
190 -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.
210 +Alternatively, you can upload code to the Collab Drive (in this case, curators will copy it to a read-only Bucket upon publication) or Bucket storage.
191 191  
212 +==== 4. Submit metadata ====
192 192  
214 +We recommend submitting metadata using the Model Catalog app, installed in your collab.
193 193  
216 +To install it:
194 194  
218 +1. click the "+ Create" button
219 +1. in the "Create Page" form, add a title, such as "Model Catalog", and select "Community App", then click "Create"
220 +1. scroll down until you find the "Model Catalog" app, click "Select", then "Save & View"
195 195  
222 +You will then see a table of all the models and validation tests associated with this collab.
223 +If this is your first time using the app, the table will probably be empty.
224 +To add your model, click "+", fill in the form, then click "Add model".
196 196  
226 +As development of your model proceeds, you can easily register new versions of the code,
227 +and new parameterizations, by clicking "Add new version".
197 197  
229 +If you prefer not to use the app, you can instead fill in the [[EBRAINS Curation Request Form>>https://nettskjema.no/a/386195]].,
230 +and you will be contacted by e-mail with further instructions.
198 198  
199 -----
232 +==== 5. Provide a reference dataset ====
200 200  
201 -== **The curation team: meet the curators** ==
234 +Once you're ready to publish your model entry in the EBRAINS Knowledge Graph,
235 +we encourage you to provide a dataset containing the simulation results produced by your model,
236 +following the process under "Step by step - Data" above.
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.
238 +These reference data will be linked to the model, and will be helpful to anyone trying to
239 +reuse your model.
204 204  
241 +We will soon introduce a "Reproducible" badge for all models that include a reference dataset,
242 +and whose simulation results can be reproduced by an EBRAINS curator.
205 205  
206 -The curators in EBRAINS are located in Oslo, Jülich, Trier and Paris. 
207 -
244 +==== 6. Request publication, preview and publish ====
208 208  
209 -**Located in Norway:**
246 +Until you request your model entry to be published in the EBRAINS Knowledge Graph,
247 +only members of the collab will be able to view the model entry, in the Model Catalog app
248 +or using the Model Validation Python client.
210 210  
211 -|(% style="width:303px" %)(((
212 -[[image:My project2.jpg||height="209" width="167"]]
250 +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.
213 213  
214 -**Archana Golla**
252 +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.
215 215  
216 -(% class="small" %)Curation Scientist
217 -Neuroscience (PhD)(%%)
218 -(% class="small" style="color:#4a5568" %)**Behavioral neuroscience and microscopy**
219 -)))|(% style="width:303px" %)(((
220 -[[image:Camilla.jpg||alt="My project.jpg" height="209" width="167"]]
221 221  
222 -**Camilla H. Blixhavn**
255 +Curators will then perform a number of checks:
223 223  
224 -(% class="small" %)Curation Scientist,
225 -Phd Student
226 -Neuroscience (M. Sc.)(%%)
227 -(% class="small" style="color:#4a5568" %)**Neuroanatomy and data integration**
228 -)))|(% style="width:303px" %)(((
229 -[[image:My project (1).jpg||height="209" width="167"]]
257 +1. Does the model description provide sufficient context to understand the purpose and use of the model?
258 +1. Does the code repository contain a licence file, explaining the conditions for reusing the code?
259 +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.
230 230  
231 -**Ingrid Reiten**
261 +The curators will also take a snapshot of your model code.
232 232  
233 -(% class="small" %)Curation Scientist,
234 -Phd Student
235 -Neuroscience (M. Sc.)(%%)
236 -(% class="small" style="color:#4a5568" %)**Neuroanatomy and structural connectivity**
237 -)))|(% style="width:303px" %)(((
238 -[[image:My project1.jpg||height="209" width="167"]]
263 +* 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"]] (via the updateSWH extension).
264 +* 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.
239 239  
240 -**Sophia Pieschnik**
266 +Once this is done, you will be invited to review a preview of how the model entry will appear in the KG Search,
267 +and will have the opportunity to request modifications prior to approval and publication.
241 241  
242 -(% class="small" %)Curation Scientist
243 -Neurocognitive Psychology (M. Sc.)(%%)
244 -(% class="small" style="color:#4a5568" %)**Neuroimaging **
245 -)))
269 +----
246 246  
247 -|(% style="width:303px" %)(((
248 -[[image:My project.jpg||height="209" width="167"]]
271 +=== Step by Step - Software ===
249 249  
250 -**Heidi Kleven**
273 +We ask software developers to provide their metadata in the "CodeMeta" format. [[CodeMeta>>https://codemeta.github.io/]] is a common format for software metadata, supported by GitHub, Zenodo, FigShare, DataCite, and the US National Science Foundation.
251 251  
252 -(% class="small" %)Curation Scientist,
253 -Phd Student
254 -Neuroscience (M. Sc.)(%%)
255 -(% class="small" style="color:#4a5568" %)**Neuroanatomy and brain atlases**
256 -)))| | |
275 +1. Create a codemeta.json file for your software. There are several [[tools>>https://codemeta.github.io/tools/]] to help you do this, for example the [[CodeMeta generator>>https://codemeta.github.io/codemeta-generator]] app. Please fill in as many of the fields as possible.
276 +1. Place this file in the root folder of your code repository.
277 +1. Contact [[EBRAINS support>>https://www.ebrains.eu/contact/]] to request curation of your software, letting us know the URL of your code repository. If you need help hosting your code online, please also let us know.
278 +1. After a quality check, we integrate and publish the information contained in your codemeta.json file to the Knowledge Graph. Your software is then searchable and usable for the neuroscience community.
257 257  
258 -
259 -\\**Located in Germany:**
280 +When you release a new version of your software, just update the codemeta.json file in your repository. We will check the repository on a regular basis, and if the version identifier has changed the Knowledge Graph will be updated accordingly.
260 260  
261 -|(% style="width:303px" %)(((
262 -[[image:My project (2).jpg||height="209" width="167"]]
282 +----
263 263  
264 -**Jan Gündling**
284 +=== Sharing human subject data ===
265 265  
266 -(% class="small" %)Curation Scientist,
267 -Phd Student
268 -Sensors and Cognitive Psychology (M. Sc.)(%%)
269 -(% class="small" style="color:#4a5568" %)**Human-Computer Interaction**
270 -)))|(% style="width:303px" %)(((
286 +(% class="box floatinginfobox" %)
287 +(((
288 +**Human subject data that can be shared on EBRAINS:**
289 +// - Anonymized data//
290 +// - Post-mortem data//
291 +// - Aggregated data //
271 271  
272 272  
294 +//If you have human data that does not qualify as any of the above,//
295 +//please [[get in touch>>https://www.ebrains.eu/contact/]] and we will clarify the available options.//
296 +)))
273 273  
298 +Human subject data shared on EBRAINS must comply with the [[GDPR >>https://gdpr-info.eu/]]and relevant [[EU directives>>https://eur-lex.europa.eu/legal-content/EN/TXT/?uri=celex%3A32010L0063]]. The necessary information to assess this compliance is collected via our [[curation request form>>https://www.ebrains.eu/tools/ebrains-curation-request-form]].
274 274  
300 +Anonymous data, including post-mortem and aggregated data, can be shared openly on the condition that subject identifiers are removed from the metadata. Such identifiers must not be shared with the curation team when submitting metadata for curation.
275 275  
302 +Identifiable or sensitive data are shared under restricted access and cannot be stored on the EBRAINS data storage. While the dataset as a whole is discoverable through anonymous metadata published on EBRAINS, access to the actual data files is managed via [[EBRAINS Trusted Research Environments>>https://wiki.ebrains.eu/bin/view/Collabs/trusted-research-environments]]. The data custodian is required to comply with the[[ EBRAINS special terms for restricted access datasets>>https://drive.ebrains.eu/f/5a9bb3bd048446ae8ef6/?dl=1]].
276 276  
304 +----
277 277  
306 +== **The openMINDS metadata framework** ==
278 278  
308 +(% class="box floatinginfobox" %)
309 +(((
310 +[[~[~[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]]
311 +)))
279 279  
313 +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"]].
280 280  
315 +For feedback, requests, or contributions, please get in touch with the openMINDS development team via
281 281  
317 +* [[support@openmetadatainitiative.org>>mailto:mailto:support@openmetadatainitiative.org]]
318 +* [[GitHub Issues>>https://github.com/openMetadataInitiative/openMINDS/issues]] (for metadata schemas)
319 +* [[GitHub Issues>>https://github.com/openMetadataInitiative/openMINDS_instances/issues]] (for metadata instances)
320 +* [[openMINDS Community Forum>>https://neurostars.org/t/openminds-community-forum-virtual]]
282 282  
283 -**Lyuba Zehl**
322 +----
284 284  
285 -(% class="small" %)Knowledge Systems Engineer
286 -Dr. rer. nat. (Systems Neuroscience)(%%)
287 -(% class="small" style="color:#4a5568" %)**Standard development, data & knowledge management, interdisciplinary communication, data analysis**
288 -)))|(% style="width:303px" %) |
324 +== **Add practical value to your shared data, model or software** ==
289 289  
290 -----
291 291  
292 -== **Information and resources for researchers looking to share data** ==
327 +=== **Showcase shared data, models or software in other services** ===
293 293  
294 -Below you can find some resources that can come in handy if you are looking to share data via EBRAINS, or in general.
329 +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.
295 295  
296 -----
297 297  
298 -=== **Improve your research product ** ===
332 +|(% colspan="2" %)**Viewer for 2D images**
333 +|[[image:MIO_screenshot.PNG]]|Integrate image data with //SeriesZoom viewer//: EBRAINS 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 [[viewer links available for this dataset>>https://search.kg.ebrains.eu/?category=Dataset&q=nr2f1#9677359c-73fa-4425-b8fa-3de794e9017a]] as an example.
334 +|(% colspan="2" %)**Viewer for sequential atlas-registered 2D images with annotation options**
335 +|[[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]].
336 +|(% colspan="2" %)**Interactive 3D atlas viewer with options for data visualization**
337 +|[[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]].
338 +|(% colspan="2" %)**Use your research product in an interactive publication**
339 +|[[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]].
299 299  
300 -(% class="wikigeneratedid" %)
301 -**{{mention reference="XWiki.adavison" style="FULL_NAME" anchor="XWiki-adavison-fkdv6h"/}}**
341 +----
302 302  
303 -==== **Add a tutorial or learning resource to your research product ** ====
343 +==== **Add a tutorial or learning resource ** ====
304 304  
305 -==== (% style="color:#e74c3c" %)- Learning resource [information](%%) ====
345 +(% class="wikigeneratedid" id="H-LearningresourceA05Binformation5D" %)
346 +(% style="--darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//
306 306  
307 307  
308 -==== **Create a workflow for .... ? ** ====
349 +==== **Create a workflow** ====
309 309  
310 -==== (% style="color:#e74c3c" %)- Workflows [information](%%) ====
351 +(% class="wikigeneratedid" id="H-Workflows5Binformation5D" %)
352 +(% style="--darkreader-inline-color:#ffffff; color:#000000" %)//More information will follow//
311 311  
312 312  ----
313 313  
314 -=== **Integrate your data, models or software with other services** ===
356 +== **EBRAINS commits to the FAIR principles** ==
315 315  
316 -EBRAINS supports further integration for a variety of data, and is continuously looking to increase the number of interoperable services.
358 +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.
317 317  
318 -* 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]].
319 -* 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]].
320 -* Add your data, models or software to a// Live paper//: (% style="color:#e74c3c" %)[description] {{mention reference="XWiki.adavison" style="FULL_NAME" anchor="XWiki-adavison-62mbgl"/}}
321 -* Integrate 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 integrate your data to atlases, check out the [[Atlas services>>https://ebrains.eu/services/atlases#Integratedatatoanatlas]] on ebrains.eu.
360 +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.
322 322  
323 -----
362 +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]]. **
324 324  
325 -=== **The benefits of sharing data ** ===
326 326  
327 -(% style="color:#000000" %)Sharing your data, models or code (research products) via EBRAINS makes it discoverable amongst other research products available in the (%%)[[(% style="color:#000000" %)EBRAINS Knowledge Graph>>https://kg.ebrains.eu/]](%%). This is made possible by the highly flexible metadata framework describing neuroscience data in detail.
365 +----
328 328  
329 -(% style="color:#000000" %)EBRAINS is gradually implementing interconnected tools and analysis workflows developed in the Human Brain Project (HBP) to further enhance the output from adding your dataset to the database.
367 +== **General benefits of sharing data ** ==
330 330  
331 -
332 332  By sharing your data via EBRAINS, you gain access to the following benefits:
333 333  
334 334  [[image:image-20230324170841-3.png]]
... ... @@ -335,76 +335,53 @@
335 335  
336 336  
337 337  
338 -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.
375 +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.
339 339  
340 -
341 341  ----
342 342  
343 -=== **At a glance: "Sharing experimental data on EBRAINS" ** ===
379 +== **Frequently asked questions ** ==
344 344  
381 +>Is the curation process time consuming and difficult?
345 345  
346 -|(% style="width:439px" %)(((
347 -[[[[image:image-20230324171114-2.png||height="354" width="250"]]>>https://drive.ebrains.eu/f/dfd374b9b43a458192e9/]]
348 -)))|(% style="width:461px" %)(((
349 -
350 -)))|(% style="width:416px" %)[[[[image:image-20230330120354-1.png||height="352" width="250"]]>>https://drive.ebrains.eu/f/707147a883b94fae8e69/]]
351 -|(% style="width:439px" %)//Collection of useful information for researchers looking to share experimental data on EBRAINS.//|(% style="width:461px" %)//The EBRAINS data descriptor: a general overview //|(% style="width:416px" %)//Introduction to data organization: A [[collection of guidelines>>https://drive.ebrains.eu/smart-link/25299f04-c4e5-4028-8f5f-3b8208f9a532/]] on how to organise files and folders to ensure consistency and reproducibility in the future. //
383 +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.
352 352  
353 -----
385 +>Is sharing my data also beneficial for me or only for others?
354 354  
355 -=== **Common concerns - and answers ** ===
356 -
357 -(((
358 -==== ====
359 -
360 -(((
361 ->The curation process is time consuming and difficult
362 -)))
363 -)))
364 -
365 -(% class="wikigeneratedid" id="HHowcanIshareA0models3F" %)
366 -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.
367 -
368 ->Sharing my data is not beneficial for me - only for others
369 -
370 -
371 371  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.
372 372  
373 ->My data is too insignificant to share
389 +>Can my data be too insignificant to share?
374 374  
391 +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.
375 375  
376 -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.
393 +>Can my data be easily misused if I share it?
377 377  
378 ->My data can easily be misused if I share it with the world
395 +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.
379 379  
397 +>Can I share my data before my paper is published?
380 380  
381 -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.
399 +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.
382 382  
383 ->I don't think I'm allowed to share my data
401 +>Can I lose my competitive edge if I share my data before I publish the associated paper?
384 384  
403 +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.
385 385  
386 -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.
387 387  
388 ->I can't share my data before my paper is published
406 +== Contact ==
389 389  
408 +[[curation-support@ebrains.eu>>mailto:curation-support@ebrains.eu]]
390 390  
391 -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.
410 +----
392 392  
393 ->If I share my data before I publish the associated paper, I will lose my competitive edge
412 +== Affiliated laboratories ==
394 394  
414 +//Institute of Basic Medical Sciences,** **University of Oslo, Norway (PI: Jan G. Bjaalie, Trygve B. Leergaard)//
395 395  
396 -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.
416 +//Institute of Neuroscience and Medicine (INM-1), Research Centre Jülich, Germany (PI: Timo Dicksheid)//
397 397  
418 +//Paris-Saclay Institute of Neuroscience, CNRS, Université Paris-Saclay, France (PI: Andrew P. Davison)//
398 398  
399 399  ----
400 400  
401 -== Contact ==
422 +== References ==
402 402  
403 -[[curation-support@ebrains.eu>>mailto:curation-support@ebrains.eu]]
404 -
405 -
406 406  {{putFootnotes/}}
407 -~)~)~)~)~)~)
408 -~)~)~)
409 -~)~)~)~)~)~)~)~)~)
410 -~)~)~)~)~)~)
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Data Curation