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= Welcome to the ENIGMA Organic Data Science wiki! =
 
= Welcome to the ENIGMA Organic Data Science wiki! =
 +
[[File:Enigmalogo.JPG|center|350px|alt=ENIGMALogo]]
 +
 
This is a demonstration prototype for the [http://www.organicdatascience.org Organic Data Science] wiki for the [http://enigma.usc.edu ENIGMA collaboration].   
 
This is a demonstration prototype for the [http://www.organicdatascience.org Organic Data Science] wiki for the [http://enigma.usc.edu ENIGMA collaboration].   
  
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For any questions or to get an account on this wiki, please contact us at <b>organic.data.science@gmail.com</b>.
 
For any questions or to get an account on this wiki, please contact us at <b>organic.data.science@gmail.com</b>.
 +
 +
Example query to get all Datasets, Project and Cohort
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{{#ask:
 +
[[Category:Cohort (E)]]
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[[HasEthnicGroup (E)::+]]
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|?HasEthnicGroup (E)=Ancestry
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|mainlabel=Cohort
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|format=broadtable
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|limit=20
 +
}}
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 +
=Working Groups=
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Here are some of the Working Groups in the ENIGMA Consortium. There are a total of '''{{PAGESINCATEGORY:WorkingGroup (E)}} working groups''' in the consortium.
 +
 +
<gallery mode = "packed-overlay" widths=250px heights=200px>
 +
File:AddictionAlcohol medial.png | [[Addiction_WG | Addiction]]
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File:ADHD medial.png | [[ADHD_WG | ADHD]]
 +
File:BipolarDisorder medial.png | [[BD_WG | Bipolar Disorder]]
 +
File:DepressionMDD medial.png | [[Depression_WG | Depression]]
 +
File:OCD medial.png | [[OCD_WG | OCD]]
 +
File:Schizophrenia medial.png | [[Schizophrenia_WG | Schizophrenia]]
 +
</gallery>
  
 
The <b>[[ENIGMA WIKI OVERVIEW TABLES]]</b> give an overview of all working groups, projects, people, and cohort data available in ENIGMA collaboration.
 
The <b>[[ENIGMA WIKI OVERVIEW TABLES]]</b> give an overview of all working groups, projects, people, and cohort data available in ENIGMA collaboration.
  
−
<b>[[December 2017 Demonstration]]</b>
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=<b>Before you start</b>: About ODS and the Semantic Media Wiki=
 +
 
 +
Anyone can edit this wiki to add information about their own site, their participation in ENIGMA Working Groups, and the status of their work.  Before you can make edits you will be asked to go through a training session for semantic wikis, since this is a special wiki that has semantic annotations and reasoning.  You can also go through the documentation [http://www.organicdatascience.org/framework/index.php/How_to_use_this_semantic_wiki here]
 +
 
 +
To learn the basics of how wikis work, consult our [http://www.organicdatascience.org/framework/index.php/Quick_Guide_to_Using_a_Wiki Quick Guide to Using a Wiki], or the official [//meta.wikimedia.org/wiki/Help:Contents User's Guide].
 +
 
 +
Consult the [//meta.wikimedia.org/wiki/Help:Contents User's Guide] for information on using the wiki software.
 +
 
 +
* [//www.mediawiki.org/wiki/Special:MyLanguage/Manual:Configuration_settings Configuration settings list]
 +
* [//www.mediawiki.org/wiki/Special:MyLanguage/Manual:FAQ MediaWiki FAQ]
 +
* [https://lists.wikimedia.org/mailman/listinfo/mediawiki-announce MediaWiki release mailing list]
 +
* [//www.mediawiki.org/wiki/Special:MyLanguage/Localisation#Translation_resources Localise MediaWiki for your language]
 +
 
 +
=Getting Started=
 +
Here you can find instructions on contributing to the Wiki, creating your own workflows with WINGS, and testing your hypotheses through DISK.
 +
 
 +
<gallery mode = "packed-overlay" widths=200px heights=200px>
 +
File:Enigma-wiki.JPG | [[ENIGMA_Wiki_Demonstration | ENIGMA Wiki Demo]]
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File:Wings-logo.JPG | [[WINGS_Workflow_Documentation | WINGS doc]]
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File:DISK-logo.JPG | [[DISK_Documentation | DISK doc]]
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</gallery>
 +
 
 +
=Organizations=
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Here are some of the organizations participating in the ENIGMA Project.
 +
 
 +
{{#ask:
 +
[[Category:Organization_(E)]]
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|?IsPartOfOrganization (E)=Part Of
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|?hasAffiliate (E)=Affiliate
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|format=broadtable
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|limit=10
 +
}}
 +
 
 +
{{#ask:
 +
[[Category:Organization_(E)]]
 +
|?HasCoordinates (E)
 +
| markercluster=on
 +
| duplicatemarkers=off
 +
| zoom=2
 +
| searchmarkers=all
 +
| maxzoom=18
 +
| minzoom=1
 +
| limit=500
 +
| format=leaflet
 +
}}
 +
 
 +
{{#ask:
 +
[[Category:Organization_(E)]]
 +
|?Coordinates
 +
| markercluster=on
 +
| duplicatemarkers=off
 +
| zoom=2
 +
| searchmarkers=all
 +
| maxzoom=18
 +
| minzoom=1
 +
| limit=500
 +
| format=leaflet
 +
}}
 +
 
 +
=Highlights=
 +
 
 +
== ENIGMA at SOPB ==
 +
 
 +
<!-- [https://urldefense.proofpoint.com/v2/url?u=https-3A__drive.google.com_file_d_16Fyt8hFwCf-2DTi375RuqokVc3y6knMzI1_view-3Fusp-3Dsharing&d=DwMFaQ&c=clK7kQUTWtAVEOVIgvi0NU5BOUHhpN0H8p7CSfnc_gI&r=WQmabzZaygepFVVAyGfxNqUB5Wpl19avrDAwELP26dw&m=yCfZi0_Q7Hg7pTF3w77cvLo8xL4U3s-cPXf58a6dG4s&s=6OwaMjDVc4hQKQiAngPfrBAXY3eiCY5s1-50uJHQA5Q&e=  [Agenda (May 7th and 8th)]] -->
 +
 
 +
Chair's Resource Google Drive:
 +
[https://drive.google.com/drive/u/0/folders/0B_UnK1gPaweRUE5LRVdhOENCY2M [CHAIR'S Resource G-DRIVE]]
  
−
= This Month's Highlight: ENIGMA's Schizophrenia Working Group =
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enigma-chairs-l@mymailinglists.usc.edu
  
−
'''See other [[ENIGMA Highlights]].'''
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== Our first ENIGMA-ODS live demo ==
 +
<!--
 +
What SOBP talks and sessions may be of interest to the group?
 +
[[SOBP 2018 must-see]]
 +
*self-promotion is 100% acceptable
 +
-->
  
−
== Cohorts of the Schizophrenia Working Group ==
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=== Who's part of a project? ===
  
−
The table below summarizes all the cohorts used in projects of the Schizophrenia Working Group:
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The table below summarizes the contributors of the [[ENIGMA3_Cortical_GWAS | ENIGMA3 Cortical GWAS Project]].
 +
If your name is not on this list and you have contributed to the [[ENIGMA3_Cortical_GWAS]] project, please fill out the required [Google author form https://goo.gl/forms/noprWAM85eznPOqI3].
 +
Please note, ODS is not currently linked to the form, so you will not see updates here immediately.
  
−
{{#ask: [[Category:Cohort_(E)]]  [[-HasCohort_(E).-HasProject_(E)::SZWorkingGroup]]
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{{#ask:  
−
  | ?HasNumberOfParticipants_(E)
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[[Category:Person_(E)]]  [[-HasImagingDataCollector_(E)::ENIGMA3_Cortical_GWAS]] OR
−
  | limit=20
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[[Category:Person_(E)]]  [[-HasGeneticDataCollector_(E)::ENIGMA3_Cortical_GWAS]] OR
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[[Category:Person_(E)]]  [[-HasGeneticDataAnalyst_(E)::ENIGMA3_Cortical_GWAS]] OR
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[[Category:Person_(E)]]  [[-HasImagingDataAnalyst_(E)::ENIGMA3_Cortical_GWAS]] OR
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[[Category:Person_(E)]]  [[-HasProjectDeveloper_(E)::ENIGMA3_Cortical_GWAS]] OR
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[[Category:Person_(E)]]  [[-HasMainPrincipalInvestigator_(E).-HasCohort_(E)::ENIGMA3_Cortical_GWAS]]
 +
  | ?HasEmail_(E)=Email
 +
  | limit=15
 
  | format=broadtable
 
  | format=broadtable
 
}}
 
}}
  
−
== Projects of the Schizophrenia Working Group ==
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===Recently Contributed Datasets===
  
−
The table below summarizes all the projects sponsored by the Schizophrenia Working Group:
+
This table gives us all the recently contributed datasets.
  
−
{{#ask: [[Category:Project_(E)]]  [[-HasProject_(E)::SZWorkingGroup]]
+
{{#ask: [[Category:Dataset (E)]]
−
  | ?hasPBriefDescription_(E)
+
  | ?HasDistribution (E)=Data Download
−
| ?hasPJuniorLead_(E)
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  | limit=5
−
| ?hasPSeniorLead_(E)
 
−
| ?hasContactPerson_(E)
 
−
  | limit=500
 
 
  | format=broadtable
 
  | format=broadtable
 +
| sort=Modification date
 +
| order = descending
 
}}
 
}}
  
−
== Contributors of the ENIGMA3 Cortical GWAS Project ==
+
===Author list generation===
  
−
The table below summarizes all the contributors of the ENIGMA3 Cortical GWAS project:
+
Now, see our documentation for formatting an author-list with proper ordering, affiliations, contributions, and acknowledgements.
 +
<!-- the contributors for the [[ENIGMA3_Cortical_GWAS | ENIGMA3 Cortical GWAS Project]] into
 +
-->
 +
<!--First, we need a project page -- [[ENIGMA3_Cortical_GWAS | ENIGMA3 Cortical GWAS Project]]
  
−
{{#ask:  
+
Next, we need a set of rules --
−
[[Category:Person_(E)]] [[-HasImagingDataCollector_(E)::ENIGMA3_Cortical_GWAS]] OR
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<b>[http://organicdatacuration.org/enigma_dev/index.php/AuthorRules:ENIGMA3_Cortical_GWAS Link to E3's author list formatting rules]</b>
−
[[Category:Person_(E)]] [[-HasPJuniorLead_(E)::SZPositiveSymptoms]] OR
+
 
−
[[Category:Person_(E)]] [[-HasPSeniorLead_(E)::SZPositiveSymptoms]] OR
+
Here, we get our output --
−
[[Category:Person_(E)]] [[-HasPI_(E).-HasCohort_(E)::SZPositiveSymptoms]] OR
+
<b>[http://organicdatacuration.org/enigma_dev/index.php/Special:authorGeneration?project=ENIGMA3_Cortical_GWAS  Link to E3's author list output]</b>
−
[[Category:Person_(E)]] [[-HasInvestigator_(E).-HasCohort_(E)::SZPositiveSymptoms]]
+
-->
−
  | ?hasEmail_(E)
+
 
−
| limit=30
+
<gallery mode = "packed-overlay" widths=150px heights=150px>
 +
File:Author.JPG | [[Author_Rules_Documentation | Documentation for Generating Author Rules]]
 +
</gallery>
 +
 
 +
= Special Focus: ENIGMA's [[SCZ_Landing_Page | Schizophrenia Working Group]] =
 +
Congratulations to [[Van_Erp_Theo_GM | Theo van Erp]], [[Turner_Jessica_A | Jessica Turner]], and the rest of the ENIGMA [[Schizophrenia_WG | Schizophrenia Working Group]] for their acceptance of the [[Schizophrenia_WG | Schizophrenia Cortical Project]] in Biological Psychiatry!
 +
 
 +
[[File:Schizophrenia.png|center|400px|alt=SZ-WorkingGroup]]
 +
 
 +
== Projects of the [[Schizophrenia_WG | Schizophrenia Working Group]] ==
 +
 
 +
The table below summarizes all the projects sponsored by the [[Schizophrenia_WG | Schizophrenia Working Group]]:
 +
 
 +
{{#ask: [[Category:WorkingGroup_(E)]]
 +
  |?HasProject_(E)=Projects
 
  | format=broadtable
 
  | format=broadtable
 +
| limit=6
 
}}
 
}}
  
−
=Before you start=
+
= The [[BD WG | Bipolar Working Group]] =
  
−
Anyone can edit this wiki to add information about their own site, their participation in ENIGMA Working Groups, and the status of their work.  Before you can make edits you will be asked to go through a training session for semantic wikis, since this is a special wiki that has semantic annotations and reasoning. You can also go through the documentation [http://www.organicdatascience.org/framework/index.php/How_to_use_this_semantic_wiki here]
+
This is a demonstration of some information available in this wiki on the Bipolar Working Group.
 +
 
 +
[[File:BipolarDisorder.png|center|400px|alt=BD-WorkingGroup]]
  
−
To learn the basics of how wikis work, consult our [http://www.organicdatascience.org/framework/index.php/Quick_Guide_to_Using_a_Wiki Quick Guide to Using a Wiki], or the official [//meta.wikimedia.org/wiki/Help:Contents User's Guide].
+
==See other ENIGMA Highlights==
  
 +
Find more ENIGMA Highlights [[ENIGMA Highlights |here]].
  
−
Consult the [//meta.wikimedia.org/wiki/Help:Contents User's Guide] for information on using the wiki software.
+
==Digest==
  
−
== Getting started ==
+
As of July 30, 2020 15:25:25, there are a total of 87 '''datasets''' in the ENIGMA Wiki which belong to 227 '''cohorts'''. There are 549 '''persons''' associated with 508 '''organizations.'''
−
* [//www.mediawiki.org/wiki/Special:MyLanguage/Manual:Configuration_settings Configuration settings list]
 
−
* [//www.mediawiki.org/wiki/Special:MyLanguage/Manual:FAQ MediaWiki FAQ]
 
−
* [https://lists.wikimedia.org/mailman/listinfo/mediawiki-announce MediaWiki release mailing list]
 
−
* [//www.mediawiki.org/wiki/Special:MyLanguage/Localisation#Translation_resources Localise MediaWiki for your language]
 

Latest revision as of 04:04, 10 June 2022

Welcome to the ENIGMA Organic Data Science wiki!

ENIGMALogo

This is a demonstration prototype for the Organic Data Science wiki for the ENIGMA collaboration.

The site was set up on December 10, 2014.

For any questions or to get an account on this wiki, please contact us at organic.data.science@gmail.com.

Example query to get all Datasets, Project and Cohort

CohortAncestry
CHARGE (Replication)Mixed

Working Groups

Here are some of the Working Groups in the ENIGMA Consortium. There are a total of 53 working groups in the consortium.

The ENIGMA WIKI OVERVIEW TABLES give an overview of all working groups, projects, people, and cohort data available in ENIGMA collaboration.

Before you start: About ODS and the Semantic Media Wiki

Anyone can edit this wiki to add information about their own site, their participation in ENIGMA Working Groups, and the status of their work. Before you can make edits you will be asked to go through a training session for semantic wikis, since this is a special wiki that has semantic annotations and reasoning. You can also go through the documentation here

To learn the basics of how wikis work, consult our Quick Guide to Using a Wiki, or the official User's Guide.

Consult the User's Guide for information on using the wiki software.

Getting Started

Here you can find instructions on contributing to the Wiki, creating your own workflows with WINGS, and testing your hypotheses through DISK.

Organizations

Here are some of the organizations participating in the ENIGMA Project.

 Part OfAffiliate
Academic Center for Child and Adolescent Psychiatry
Alzheimer CenterAmsterdam Neuroscience
Amsterdam AMCAmsterdam UMC University of AmsterdamOlff Miranda
Amsterdam NeuroscienceVU Medical Center
Amsterdam UMC
Amsterdam UMC University of Amsterdam
Amsterdam UMC-AMCAmsterdam UMC-AMCOlff Miranda
Araya Inc.
Athinoula A. Martinos Center for Biomedical ImagingMassachusetts General HospitalGe Tian
Avera Institute for Human GeneticsDavies Gareth E
... further results



Highlights

ENIGMA at SOPB

Chair's Resource Google Drive: [CHAIR'S Resource G-DRIVE]

enigma-chairs-l@mymailinglists.usc.edu

Our first ENIGMA-ODS live demo

Who's part of a project?

The table below summarizes the contributors of the ENIGMA3 Cortical GWAS Project. If your name is not on this list and you have contributed to the ENIGMA3_Cortical_GWAS project, please fill out the required [Google author form https://goo.gl/forms/noprWAM85eznPOqI3]. Please note, ODS is not currently linked to the form, so you will not see updates here immediately.


Recently Contributed Datasets

This table gives us all the recently contributed datasets.

 Data Download
PD CorticalThickDatasetCorticalThick Data Download
PDRoiListROIDownload
PD covariatesCovariatesTestDownload
APOE UKBB over70yrs.csvAPOE UKBB over70yrs.csv
APOEregr ADNI1.csvAPOEregr ADNI1.csv
... further results

Author list generation

Now, see our documentation for formatting an author-list with proper ordering, affiliations, contributions, and acknowledgements.

Special Focus: ENIGMA's Schizophrenia Working Group

Congratulations to Theo van Erp, Jessica Turner, and the rest of the ENIGMA Schizophrenia Working Group for their acceptance of the Schizophrenia Cortical Project in Biological Psychiatry!

SZ-WorkingGroup

Projects of the Schizophrenia Working Group

The table below summarizes all the projects sponsored by the Schizophrenia Working Group:

 Projects
22q WG
ADHD WG
Addiction WG
AdultCross WG
Anxiety WG
Ataxia WG
... further results

The Bipolar Working Group

This is a demonstration of some information available in this wiki on the Bipolar Working Group.

BD-WorkingGroup

See other ENIGMA Highlights

Find more ENIGMA Highlights here.

Digest

As of July 30, 2020 15:25:25, there are a total of 87 datasets in the ENIGMA Wiki which belong to 227 cohorts. There are 549 persons associated with 508 organizations.

Retrieved from "https://organicdatacuration.org/enigma_dev/index.php?title=Main_Page&oldid=50220"