NDA Help Center

Collection - General Tab

Fields available for edit on the top portion of the page include:

  • Collection Title
  • Investigators
  • Collection Description
  • Collection Phase
  • Funding Source
  • Clinical Trials

Collection Status: The visibility status of an NDA Collection.  Collection Status can be Shared or Private.  Collections in Shared status are visible to all users and can be searched in the NDA Query Tool. Private Collections are not visible to NDA users.  The Status of an NDA Collection only affects the visibility of information about the Collection (metadata) and does not relate to the status of the record-level research data in the NDA Collection.

Collection Phase: The current status of a research project submitting data to an NDA Collection, based on the timing of the award and/or the data that have been submitted.
 

  • Pre-Enrollment: The default entry made when the NDA Collection is created.
     
  • Enrolling: Data have been submitted to the NDA Collection or the NDA Data Expected initial submission date has been reached for at least one data structure category in the NDA Collection.
     
  • Data Analysis: Subject level data collection for the research project is completed and has been submitted to the NDA Collection.  The NDA Collection owner or the NDA Help Desk may set this phase when they’ve confirmed data submission is complete and submitted subject counts match at least 90% of the target enrollment numbers in the NDA Data Expected. Data submission reminders will be turned off for the NDA Collection.
     
  • Funding Completed: The NIH grant award (or awards) associated with the NDA Collection has reached its end date. NDA Collections in Funding Completed phase are assigned a subphase to indicate the status of data submission.
     
    • The Data Expected Subphase indicates that NDA expects more data will be submitted
    • The Closeout Subphase indicates the data submission is complete.
    • The Sharing Not Met Subphase indicates that data submission was not completed as expected. 

Blinded Clinical Trial Status:

  • This status is set by a Collection Owner and indicates the research project is a double blinded clinical trial.  When selected, the public view of Data Expected will show the Data Expected items and the Submission Dates, but the targeted enrollment and subjects submitted counts will not be displayed.
     
  • Targeted enrollment and subjects submitted counts are visible only to NDA Administrators and to the NDA Collection or as the NDA Collection Owner.
     
  • When an NDA Collection that is flagged Blinded Clinical Trial reaches the maximum data sharing date for that Data Repository (see https://nda.nih.gov/about/sharing-regimen.html), the embargo on Data Expected information is released.
     

Funding Source

The organization(s) responsible for providing the funding is listed here. 

Supporting Documentation

Users with Submission privileges, as well as Collection Owners, Program  Officers, and those with Administrator privileges, may upload and attach supporting documentation. By default, supporting documentation is shared to the general public, however, the option is also available to limit this information to qualified researchers only. 

Grant Information 

Identifiable details are displayed about the Project of which the Collection was derived from. You may click in the Project Number to view a full report of the Project captured by the NIH. 

Clinical Trials

Any data that is collected to support or further the research of clinical studies will be available here. Collection Owners and those with Administrator privileges may add new clinical trials. 

Frequently Asked Questions

  • When a Collection is created by NDA staff and marked as Shared, an email notification will automatically be sent to the PI(s) of the grant(s) associated with the Collection to notify them.

  • During Collection creation, NDA staff determine the appropriate Permission Group based on the type of data to be submitted, the type of access that will be available to data access users, and the information provided by the Program Officer during grant award.

  • The NDA system does not allow for a single grant to be associated with more than one Collection; therefore, a single grant will not be listed in the Grant Information section of a Collection for more than one Collection.

  • In general, each Collection is associated with only one grant; however, multiple grants may be associated if the grant has multiple competing segments for the same grant number or if multiple different grants are all working on the same project and it makes sense to hold the data in one Collection (e.g., Cooperative Agreements).

Glossary

  • Number of human subjects enrolled in an NIH-funded clinical research study. The data is provided in annual progress reports.

  • A privilege provided to a user associated with an NDA Collection or NDA Study whereby that user can perform a full range of actions including providing privileges to other users. 

  • Generally, the Collection Owner is the contact PI listed on a grant. Only one NDA user is listed as the Collection owner. Most automated emails are primarily sent to the Collection Owner.

  • The Collection Phase provides information on data submission as opposed to grant/project completion so while the Collection phase and grant/project phase may be closely related they are often different.  Collection users with Administrative Privileges are encouraged to edit the Collection Phase.  The Program Officer as listed in eRA (for NIH funded grants) may also edit this field. Changes must be saved by clicking the Save button at the bottom of the page.  This field is sortable alphabetically in ascending or descending order. Collection Phase options include: 

    • Pre-Enrollment:  A grant/project has started, but has not yet enrolled subjects.
    • Enrolling:  A grant/project has begun enrolling subjects.  Data submission is likely ongoing at this point.
    • Data Analysis:  A grant/project has completed enrolling subjects and has completed all data submissions.
    • Funding Completed:  A grant/project has reached the project end date.
  • The Collection State indicates whether the Collection is viewable and searchable.  Collections can be either Private, Shared, or an Ongoing Study.  A Collection that is shared does not necessarily have shared data as the Collection State and state of data are independent of each other.  This field can be edited by Collection users with Administrative Privileges and the Program Officer as listed in eRA (for NIH funded grants). Changes must be saved by clicking the Save button at the bottom of the page.

  • An editable field with the title of the Collection, which is often the title of the grant associated with the Collection.

  • Data Use Limitations (DULs) describe the appropriate secondary use of a dataset and are based on the original informed consent of a research participant. NDA only accepts consent-based data use limitations defined by the NIH Office of Science Policy.

  • Provides the grant number(s) for the grant(s) associated with the Collection.  The field is a hyperlink so clicking on the Grant number will direct the user to the grant information in the NIH Research Portfolio Online Reporting Tools (RePORT) page.

  • A virtual container and organization structure for data and associated documentation from one grant or one large project/consortium. It contains tools for tracking data submission and allows investigators to define a wide array of other elements that provide context for the data, including all general information regarding the data and source project, experimental parameters used to collect any event-based data contained in the Collection, methods, and other supporting documentation. They also allow investigators to link underlying data to an NDA Study, defining populations and subpopulations specific to research aims. 

  • NDA Collections may be organized by scientific similarity into NIH Research Initiatives, to facilitate query tool user experience. NIH Research Initiatives map to one or multiple Funding Opportunity Announcements. 

  • Access to shared record-level data in NDA is provisioned at the level of a Permission Group. NDA Permission Groups consist of one or multiple NDA Collections that contain data with the same subject consents.

  • Number of human subject participants to be enrolled in an NIH-funded clinical research study. The data is provided in competing applications and annual progress reports.

  • Various documents and materials to enable efficient use of the data by investigators unfamiliar with the project and may include the research protocol, questionnaires, and study manuals.  

  • The total number of unique subjects for whom data have been shared and are available for users with permission to access data.

NDA Help Center

Collection - Shared Data Tab

This tab provides a quick overview of the Data Structure title, Data Type, and Number of Subjects that are currently Shared for the Collection. The information presented in this tab is automatically generated by NDA and cannot be edited. If no information is visible on this tab, this would indicate the Collection does not have shared data or the data is private.

The shared data is available to other researchers who have permission to access data in the Collection's designated Permission Group(s). Use the Download button to get all shared data from the Collection to the Filter Cart.

 

Frequently Asked Questions

  • To see what data your project have submitted are being used by a study, simply go the Associated Studies tab of your collection.  Alternatively, you may review an NDA Study Attribution Report available on the General tab.  

  • Often it becomes more difficult to organize and format data electronically after the project has been completed and the information needed to create a GUID may not be available; however, you may still contact a program staff member at the appropriate funding institution for more information.

  • Unlike completed projects where researchers may not have the information needed to create a GUID and/or where the effort needed to organize and format data becomes prohibitive, ongoing projects have more of an opportunity to overcome these challenges.  Please contact a program staff member at the appropriate funding institution for more information.

Glossary

  • A defined organization and group of Data Elements to represent an electronic definition of a measure, assessment, questionnaire, or collection of data points. Data structures that have been defined in the NDA Data Dictionary are available at https://nda.nih.gov/general-query.html?q=query=data-structure

  • A grouping of data by similar characteristics such as Clinical Assessments, Omics, or Neurosignal data.

  • The term 'Shared' generally means available to others; however, there are some slightly different meanings based on what is Shared.  A Shared NDA Collection or NDA Study is viewable and searchable publicly regardless of the user's role or whether the user has an NDA account.  A Shared Collection or NDA Study does not necessarily mean that data submitted to the Collection or used in the NDA Study have been shared as this is independently determined.  Data are shared according the schedule defined in a Collection's Data Expected Tab and/or in accordance with data sharing expectations in the NDA Data Sharing Terms and Conditions.  Additionally, Supporting Documentation uploaded to a Collection may be shared independent of whether data are shared, but will only be viewable and accessible if the Collection is Shared.

NDA Help Center

fMRi

fMRI stands for functional magnetic resonance imaging. fMRI tests measure blood flow, providing detailed functional images of the brain or body. 

Acquisition
The Acquisition parameters needed for an experiment include the following:

The name of the experiment is required. Please be concise and specific as possible.
Following experiment name, selection boxes are provided for the Equipment, Software, or other items specific to the experiment type. At least one selection is required for each. If NDAR does not have the appropriate listing, select Add New to add the information provided. Following the selection boxes, provide additional information may be required depending on the experiment type. Any required items are denoted by an asterisk (*).

Block/Event Design
At least one block/event is required. Note that any fields denoted with an asterisk (*) are required. All data must be devoid of personally identifiable data, including the contents of any files attached to the experiment.

Note: To simplify the definition of multiple events, we provide an Import from XML function. This function supports importing data from all three experiment sections (Acquisition, Block/Event Design, and Post Processing), at this time files cannot be uploaded from XML A test format is provided here and our XML Schema Definition (xsd) can be found here.

Post Processing
If you have completed any post-processing on your data, please choose 'Yes' for Has Postprocessing? If not, select 'No'. Depending on this selection the remaining post-processing fields will be enabled (some of which will be required). If you are initially providing data you can select 'No', then return to the experiment to add post-processing steps at a later date when the data are being provided.

Please provide information about post-processing manipulations, i.e. artifact detection algorithms, segmentation used for post data collection, items denoted with an asterisk (*) are required.

Frequently Asked Questions

Glossary

  • This button will add all selections to the Filter Cart. 

  • This button will allow you to copy all of the Experiment details as a template for a new experiment. 

  • Adds all data from the current selections in a Collection or NDA Study to the Filter Cart.

  • This button will allow you to return to the Experiments tab. 

NDA Help Center

Collection - Submissions Tab

Users with permission to access Shared data in the Collection’s assigned Permission Group may use this tab. 

Here, you can:

  • Review your uploads to your Collection, monitor their status, and download them individually to verify their contents.
  • Download individual datasets as a secondary user of the data approved for access.
  • Identify and download datasets containing errors identified by NDA's QA/QC process for review and resolution.
  • Report suspected or discovered Personally Identifiable Information in a submission via the Actions column.

Frequently Asked Questions

Glossary

  • The default view of Datasets within a Collection's Submission tab.

  • A Submission Loading Status on a Collection's Submission Tab that indicates that an issue has prevented the successful loading of the submission.  Users should contact the NDA Help Desk for assistance at NDAHelp@mail.nih.gov.

  • The NDA has two Submission Cycles per year - January 15 and July 15.

  • An interface to notify NDA that data may not be submitted during the upcoming/current submission cycle.  

  • The unique and sequentially assigned ID for a submission (e.g. a discrete upload via the Validation and Upload Tool), which may contain any number of datafiles, Data Structures and/or Data Types, regardless of the Submission Loading Status. A single submission may be divided into multiple Datasets, which are based on Data Type.

  • The total number of unique subjects for whom data have been shared and are available for users with permission to access data.

  • The total number of unique subjects for whom data have been submitted, which includes data in both a Private State and a Shared State.

NDA Help Center

Collection - Publications Tab

The number of Publications is displayed in parentheses next to the tab name. Clicking on any of the Publication Titles will open the Publication in a new internet browsing tab. 

Collection Owners, Program Officers, and users with Submission or Administrative Privileges for the Collection may mark a publication as either Relevant or Not Relevant in the Status column. 

 

Frequently Asked Questions

  • Publications are considered relevant to a collection when the data shared is directly related to the project or collection.

  • PubMed, an online library containing journals, articles, and medical research. Sponsored by NiH and National Library of Medicine (NLM). 

Glossary

  • A link to the Create an NDA Study page that can be clicked to start creating an NDA Study with information such as the title, journal and authors automatically populated.

  • Indicates that the publication has not yet been reviewed and/or marked as Relevant or Not Relevant so it has not been determined whether an NDA Study is expected.

  • A publication that is not based on data related to the aims of the grant/project associated with the Collection or not based on any data such as a review article and, therefore, an NDA Study is not expected to be created.

  • PubMed provides citation information for biomedical and life sciences publications and is managed by the U.S. National Institutes of Health's National Library of Medicine.

  • The PUBMed ID is the unique ID number for the publication as recorded in the PubMed database.  

  • A publication that is based on data related to the aims of the grant/project associated with the Collection and, therefore, an NDA Study is expected to be created.

NDA Help Center

EEG

EEG stands for electroencencephalogram and is a test used to measure electrical activity in the brain.

Acquisition
The Acquisition parameters needed for an experiment include the following:

Name of the experiment is required. Please be concise and specific as possible.
Following experiment name, selection boxes are provided for the Equipment, Software, or other items specific to experiment type. At least one selection is required for each. If NDAR does not have the appropriate listing, select Add New to add the information provided. Following the selection boxes, provide additional information may be required depending on experiment type. Any required items are denoted by an asterisk (*).

Block/Event Design
At least one block/event is required. Note that any fields denoted with an asterisk (*) are required. All data must be devoid of personally identifiable data, including the contents of any files attached to the experiment.

Note: To simplify definition of multiple events, we provide an Import from XML function. This function supports importing data from all three experiment sections (Acquisition, Block/Event Design, and Post Processing), at this time files cannot be uploaded from XML A test format is provided here and our XML Schema Definition (xsd) can be found here.

Post Processing
If you have completed any post processing on your data, please choose 'Yes' for Has Postprocessing? If not, select 'No'. Depending on this selection the remaining post processing fields will be enabled (some of which will be required). If you are initially providing data you can select 'No', then return to the experiment to add post processing steps at a later date when the data are being provided.

Please provide information about post-processing manipulations, i.e. artifact detection algorithms, segmentation used for post data collection, items denoted with an asterisk (*) are required.

Frequently Asked Questions

Glossary

  • This button will add all selections to the Filter Cart. 

  • This button will allow you to copy all of the Experiment details as a template for a new experiment. 

  • Adds all data from the current selections in a Collection or NDA Study to the Filter Cart.

  • This button will allow you to return to the Experiments tab. 

NDA Help Center

Collection - Data Expected

The Data Expected tab displays the list of all data that NDA expects to receive in association with the Collection as defined by the contributing researcher, as well as the dates for the expected initial upload of the data, and when it is first expected to be shared, or with the research community. Above the primary table of Data Expected, any publications determined to be relevant to the data within the Collection are also displayed - members of the contributing research group can use these to define NDA Studies, connecting those papers to underlying data in NDA.

The tab is used both as a reference for those accessing shared data, providing information on what is expected and when it will be shared, and as the primary tracking mechanism for contributing projects. It is used by both contributing primary researchers, secondary researchers, and NIH Program and Grants Management staff.

Contributing researchers just getting started on their project will need to define this list by adding all of the items they are collecting under their grant and setting their schedule according to the NDA Data Sharing Regimen. If you fall into this category, you can begin by clicking "add new Data Expected" and selecting which data structures you will be using, saving the page after each change, or requesting new structures by adding and naming a new item, providing any materials NDA Data Dictionary Curators can use to help define your structure. For more information see the tutorial on creating Data Expected.

If you are a contributing researcher creating this list for the first time, or making changes to the list as your project progress, please note the following:

  • Although items you add to the list and changes you make are displayed, they are not committed to the system until you Save the entire page using the "Save" button at the bottom of your screen. Please Save after every change to ensure none of your work is lost.
  • If you attempt to add a new structure, the title you provide must be unique - if another structure exists with the same name your change will fail.
  • Adding a new structure to this list is the only way to request the creation of a new Data Dictionary definition.

 

Frequently Asked Questions

  • An NDA Data Structure is comprised of multiple Data Elements to make up an electronic definition of an assessment, measure, questionnaire, etc will have a corresponding Data Structure.

  • The NDA Data Dictionary is comprised of electronic definitions known as Data Structures.

Glossary

  • Data specific to the primary aims of the research being conducted (e.g. outcome measures, other dependent variables, observations, laboratory results, analyzed images, volumetric data, etc.) including processed images.

  • Items listed on the Data Expected list in the Collection which may be an individual and discrete Data Structure, Data Structure Category, or Data Structure Group.

  • A defined organization and group of Data Elements to represent an electronic definition of a measure, assessment, questionnaire, or collection of data points. Data structures that have been defined in the NDA Data Dictionary are available at https://nda.nih.gov/general-query.html?q=query=data-structure

  • An NDA term describing the affiliation of a Data Structure to a Category, which may be disease/disorder or diagnosis related (Depression, ADHD, Psychosis), specific to data type (MRI, eye tracking, omics), or type of data (physical exam, IQ).

  • A Data Item listed on the Data Expected tab of a Collection that indicates a group of Data Structures (e.g., ADOS or SCID) for which data may be submitted instead of a specific Data Structure identified by version, module, edition, etc. For example, the ADOS Data Structure Category includes every ADOS Data Structure such as ADOS Module 1, ADOS Module 2, ADOS Module 1 - 2nd Edition, etc. The SCID Data Structure Group includes every SCID Data Structure such as SCID Mania, SCID V Mania, SCID PTSD, SCID-V Diagnosis, and more. 

  • A new Data Structure category, Evaluated Data is analyzed data resulting from the use of computational pipelines in the Cloud and can be uploaded directly back to a miNDAR database.  Evaluated Data is expected to be listed as a Data Item in the Collection's Data Expected Tab.

  • Imaging+ is an NDA term which encompasses all imaging related data including, but not limited to, images (DTI, MRI, PET, Structural, Spectroscopy, etc.) as well as neurosignal data (EEG, fMRI, MEG, EGG, eye tracking, etc.) and Evaluated Data.

  • Initial Submission and Initial Share dates should be populated according to the NDA Data Sharing Terms and Conditions. Any modifications to these will go through the approval processes outlined above. Data will be shared with authorized users upon publication (via an NDA Study) or 1-2 years after the grant end date specified on the first Notice of Award, as defined in the applicable Data Sharing Terms and Conditions.

  • Initial Submission and Initial Share dates should be populated according to these NDA Data Sharing Terms and Conditions. Any modifications to these will go through the approval processes outlined above. Data for all subjects is not expected on the Initial Submission Date and modifications may be made as necessary based on the project's conduct.

  • An NDA created Data Structure used to convey basic information about the subject such as demographics, pedigree (links family GUIDs), diagnosis/phenotype, and sample location that are critical to allow for easier querying of shared data.

  • The NDA has two Submission Cycles per year - January 15 and July 15.

  • An interface to notify NDA that data may not be submitted during the upcoming/current submission cycle.  

NDA Help Center

Collection - Permissions

Collection Owners, Program Officers, and users with Administrator privileges may view this tab.

The available permission groups include:

  • Query: This read-only access is generally for NIH Program Officers
  • Submission: This will grant read access and allow the user to upload data and create experiment definitions. This is for the typical contributing personnel member.
  • Administrator: In addition to the access provided to Query and Submission users, Admins can also edit the Collection itself, create or edit the Data Expected list, and edit user permissions. This access is for the PI, data managers, and anyone they wish to delegate this to.

The PI has a special designation as the Collection Owner in addition to administrator access.

Frequently Asked Questions

  • Collection Owners and Admins may assign Collection Privileges to anyone.

  • Yes, you can assign various Privileges to other users with an NDA account.

  • If you are the Collection Owner or have Admin privileges, you can view and make changes to the list of individuals who have access to the Collection on the Collection's Permissions tab.  Information on users who have access to data Shared in your Collection because they were granted access to a Permission Group is not available.

  • Staff/collaborators who are working submitting data to the Collection, checking the quality of the data, and/or analyzing data should have access for the duration of the project until all data have been submitted, NDA Studies have been created for data used in publications, and/or a collaborative relationship with the user exists.  

  • The individual listed as an Investigator on the General tab of the NDA Collection will generally be able to provide a user access to the NDA Collection.  Additional users may also have this ability if granted Administrator access to an NDA Collection; however, these users are not viewable unless your account has access to the NDA Collection.  Given this, it is best to contact the Investigator to request access to the Collection.

  • Privileges that can be assigned to a user include:
    Submission allows a user to submit data to Collection
    Query allows the user to download data from Collection even when in a Private state
    Admin is both the Submission and Query Privilege + the ability to give privileges to other users.

  • You may have staff who are working on the submission of data or other activities associated with data sharing such as the definition of the Data Expected list or NDA Experiment creation.  Also, many projects have multiple performance sites and wish to share data among the site PIs.  Submitting to the NDA facilitates access by all investigators working on a project even before data have been shared with other users.  You can control who gets access to data while in a Private state.

Glossary

  • A privilege provided to a user associated with an NDA Collection or NDA Study whereby that user can perform a full range of actions including providing privileges to other users. 

  • Access to shared record-level data in NDA is provisioned at the level of a Permission Group. NDA Permission Groups consist of one or multiple NDA Collections that contain data with the same subject consents.

NDA Help Center

Eye Tracking

EyeTracking tests follow the movement of the eye. The visual trajectory or focus can help determine predictions and assist in diagnoses. 

Acquisition
The Acquisition parameters needed for an experiment include the following:

The name of the experiment is required. Please be concise and specific as possible.
Following experiment name, selection boxes are provided for the Equipment, Software, or other items specific to the experiment type. At least one selection is required for each. If NDAR does not have the appropriate listing, select Add New to add the information provided. Following the selection boxes, provide additional information may be required depending on the experiment type. Any required items are denoted by an asterisk (*).

Block/Event Design
At least one block/event is required. Note that any fields denoted with an asterisk (*) are required. All data must be devoid of personally identifiable data, including the contents of any files attached to the experiment.

Note: To simplify the definition of multiple events, we provide an Import from XML function. This function supports importing data from all three experiment sections (Acquisition, Block/Event Design, and Post Processing), at this time files cannot be uploaded from XML A test format is provided here and our XML Schema Definition (xsd) can be found here.

Post Processing
If you have completed any post-processing on your data, please choose 'Yes' for Has Postprocessing? If not, select 'No'. Depending on this selection the remaining post-processing fields will be enabled (some of which will be required). If you are initially providing data you can select 'No', then return to the experiment to add post-processing steps at a later date when the data are being provided.

Please provide information about post-processing manipulations, i.e. artifact detection algorithms, segmentation used for post data collection, items denoted with an asterisk (*) are required.

Frequently Asked Questions

Glossary

  • This button will add all selections to the Filter Cart. 

  • This button will allow you to copy all of the Experiment details as a template for a new experiment. 

  • Adds all data from the current selections in a Collection or NDA Study to the Filter Cart.

  • This button will allow you to return to the Experiments tab. 

NDA Help Center

Collection - Experiments Tab

The number of Experiments included is displayed in parentheses next to the tab name. You may download all experiments associated with the Collection via the Download button. You may view individual experiments by clicking the Experiment Name and add them to the Filter Cart via the Add to Cart button.

Collection Owners, Program Officers, and users with Submission or Administrative Privileges for the Collection may create or edit an Experiment.

Please note: The creation of an NDA Experiment does not necessarily mean that data collected, according to the defined Experiment, has been submitted or shared.

Frequently Asked Questions

  • Yes -see the “Copy” button in the bottom left when viewing an experiment. There are two actions that can be performed via this button:

    1. Copy the experiment with intent for modifications.  
    2. Associate the experiment to the collection. No modifications can be made to the experiment.

     

Glossary

  • An Experiment must be Approved before data using the associated Experiment_ID may be uploaded.

  • The ID number automatically generated by NDA which must be included in the appropriate file when uploading data to link the Experiment Definition to the subject record.

NDA Help Center

Omics

Omics is a collective group of technologies, related to a field of study in Biology such as Genomics or proteomics. 

Experiment Parameters

To define an Omics experiment, provide a meaningful name and select a single molecule. The standard molecules are listed. However, if you are doing proteomic or environmental experiments, simply “Add New” and the new selection will be created. Only one value for molecule is permitted.

Next the technology (box 2) associated with the molecule will be presented along with its application. Again, only one selection is possible. If you wish to see all of NDAR’s options for any one box, Select “Show All”.

Platform

Continue to select the Platform (box 3).

Extraction

Next, the Extraction Protocol (box 4) and Kits (box 5) are presented based upon the Molecule selected and the Processing Protocol (box 6) and Kits (box 7) are presented based upon the Molecule and Technology Application (Box 1 and 2)

Processing

Note that for each of these (boxes 4, 5, 6, and 7) multiple selections are possible.

Additional Information

Lastly, the Software (box 8) and Equipment (box 9) is expected.

 

Once saved, the experiment will be associated with the Collection and by using the returned Experiment_ID, the NDA makes it possible to associate the experiment meta data directly with the data from the experiment.

Frequently Asked Questions

Glossary

  • This button will add all selections to the Filter Cart. 

  • This button will allow you to copy all of the Experiment details as a template for a new experiment. 

  • Adds all data from the current selections in a Collection or NDA Study to the Filter Cart.

  • This button will allow you to return to the Experiments tab. 

NDA Help Center

Collection - Associated Studies

Clicking on the Study Title will open the study details in a new internet browser tab. The Abstract is available for viewing, providing the background explanation of the study, as provided by the Collection Owner. 

Primary v. Secondary Analysis: The Data Usage column will have one of these two choices. An associated study that is listed as being used for Primary Analysis indicates at least some and potentially all of the data used was originally collected by the creator of the NDA Study. Secondary Analysis indicates the Study owner was not involved in the collection of data, and may be used as supporting data. 

Private v. Shared State: Studies that remain private indicate the associated study is only available to users who are able to access the collection. A shared study is accessible to the general public. 

Frequently Asked Questions

  • Studies are associated to the Collection automatically when the data is defined in the Study. 

Glossary

  • A tab in a Collection that lists the NDA Studies that have been created using data from that Collection including both Primary and Secondary Analysis NDA Studies.

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1 Numbers reported are subjects by age
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Format should be in the following format: Activity Code, Institute Abbreviation, and Serial Number. Grant Type, Support Year, and Suffix should be excluded. For example, grant 1R01MH123456-01A1 should be entered R01MH123456

Please select an experiment type below

Collection - Use Existing Experiment

To associate an experiment to the current collection, just select an axperiment from the table below then click the associate experiment button to persist your changes (saving the collection is not required). Note that once an experiment has been associated to two or more collections, the experiment will not longer be editable.

The table search feature is case insensitive and targets the experiment id, experiment name and experiment type columns. The experiment id is searched only when the search term entered is a number, and filtered using a startsWith comparison. When the search term is not numeric the experiment name is used to filter the results.

SelectExperiment IdExperiment NameExperiment Type
Created On
24HI-NGS_R1Omics02/16/2011
475MB1-10 (CHOP)Omics06/07/2016
490Illumina Infinium PsychArray BeadChip AssayOmics07/07/2016
501PharmacoBOLD Resting StatefMRI07/27/2016
506PVPREFOmics08/05/2016
509ABC-CT Resting v2EEG08/18/2016
13Comparison of FI expression in Autistic and Neurotypical Homo SapiensOmics12/28/2010
18AGRE/Broad Affymetrix 5.0 Genotype ExperimentOmics01/06/2011
22Stitching PCR SequencingOmics02/14/2011
26ASD_MethylationOmics03/01/2011
29Microarray family 03 (father, mother, sibling)Omics03/24/2011
37Standard paired-end sequencing of BCRsOmics04/19/2011
38Illumina Mate-Pair BCR sequencingOmics04/19/2011
39Custom Jumping LibrariesOmics04/19/2011
40Custom CapBPOmics04/19/2011
41ImmunofluorescenceOmics05/11/2011
43Autism brain sample genotyping, IlluminaOmics05/16/2011
47ARRA Autism Sequencing Collaboration at Baylor. SOLiD 4 SystemOmics08/01/2011
53AGRE Omni1-quadOmics10/11/2011
59AGP genotypingOmics04/03/2012
60Ultradeep 454 sequencing of synaptic genes from postmortem cerebella of individuals with ASD and neurotypical controlsOmics06/23/2012
63Microemulsion PCR and Targeted Resequencing for Variant Detection in ASDOmics07/20/2012
76Whole Genome Sequencing in Autism FamiliesOmics01/03/2013
519RestingfMRI11/08/2016
90Genotyped IAN SamplesOmics07/09/2013
91NJLAGS Axiom Genotyping ArrayOmics07/16/2013
93AGP genotyping (CNV)Omics09/06/2013
106Longitudinal Sleep Study. H20 200. Channel set 2EEG11/07/2013
107Longitudinal Sleep Study. H20 200. Channel set 3EEG11/07/2013
108Longitudinal Sleep Study. AURA 200EEG11/07/2013
105Longitudinal Sleep Study. H20 200. Channel set 1EEG11/07/2013
109Longitudinal Sleep Study. AURA 400EEG11/07/2013
116Gene Expression Analysis WG-6Omics01/07/2014
131Jeste Lab UCLA ACEii: Charlie Brown and Sesame Street - Project 1Eye Tracking02/27/2014
132Jeste Lab UCLA ACEii: Animacy - Project 1Eye Tracking02/27/2014
133Jeste Lab UCLA ACEii: Mom Stranger - Project 2Eye Tracking02/27/2014
134Jeste Lab UCLA ACEii: Face Emotion - Project 3Eye Tracking02/27/2014
145AGRE/FMR1_Illumina.JHUOmics04/14/2014
146AGRE/MECP2_Sanger.JHUOmics04/14/2014
147AGRE/MECP2_Junior.JHUOmics04/14/2014
151Candidate Gene Identification in familial AutismOmics06/09/2014
152NJLAGS Whole Genome SequencingOmics07/01/2014
154Math Autism Study - Vinod MenonfMRI07/15/2014
155RestingfMRI07/25/2014
156SpeechfMRI07/25/2014
159EmotionfMRI07/25/2014
160syllable contrastEEG07/29/2014
167School-age naturalistic stimuliEye Tracking09/19/2014
44AGRE/Broad Affymetrix 5.0 Genotype ExperimentOmics06/27/2011
45Exome Sequencing of 20 Sporadic Cases of Autism Spectrum DisorderOmics07/15/2011
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Collection Summary Collection Charts
Collection Title Collection Investigators Collection Description
Early Biomarkers of Autism Spectrum Disorders in infants with Tuberous Sclerosis
Mustafa Sahin 
Autism Spectrum Disorders (ASD) has complex and varying etiologies. A lack of understanding regarding the underlying molecular and cellular mechanisms is a key barrier in finding effective treatments. Single-gene disorders that have a high prevalence of ASD provide unique opportunities to investigate the underlying biology and test treatments for autism. Tuberous Sclerosis Complex (TSC) is a genetic disorder in which approximately 50% of individuals are also affected with ASD. Importantly, TSC can be diagnosed before or at the time of birth, and thus infants with TSC allow us to observe prospectively the natural history of ASD and develop better tools for early detection of autism. On a molecular level, TSC disease manifestations result from the aberrant hyperactivity of mTOR that is caused by mutation in one of two TSC genes. Pharmacologic mTOR inhibition to correct the cellular defects in TSC is no longer a hope for the future, but rather an exciting reality with proven efficacy against various TSC disease manifestations. To determine the potential benefit these agents may have in treating or preventing ASD, it is imperative to identify early markers of autism in infants with TSC, so as to not put young children who will not develop ASD at unnecessary risk. Accumulating clinical and basic science evidence suggests that aberrant white matter connectivity represents a rational candidate as a biomarker in TSC. TSC mouse models demonstrate defects in the specification, guidance, and myelination of axons. More importantly, several groups have reported abnormalities in the normal-appearing white matter of TSC patients that can be identified by MR imaging, and loss of white matter microstructural integrity is associated with neurological and cognitive deficits. Furthermore, there is preliminary data indicating that white matter integrity can be improved by treatment with mTOR inhibitors in both animal models and in TSC patients. Taken together, these findings lead to the hypothesis that longitudinal assessment of white matter integrity and neural connectivity in TSC infants, through advanced MRI and EEG analysis, can be used as an early biomarker of subsequent ASD in this genetic disease. This proposal aims to establish a consortium of five Children's Hospitals that are geographically-distributed throughout the US to recruit TSC patients in the first year of life to test this hypothesis. State of the art imaging with 3 Tesla MRI scanners, advanced EEG technology, validated neurodevelopmental assessment tools, genetic analysis, and standardized clinical measures through age 36 months will be utilized. The clinical consortium will be supported by a centralized Data Coordinating Center with experience in another rare disease (neurofibromatosis). Collaboration with Leadership Education in Neurodevelopmental and Related Disabilities (LEND) programs at each center will provide additional interdisciplinary research training and education expertise in ASD and TSC. As a result of the research outlined in this proposal, better understanding of brain connectivity and its relationship to ASD in TSC will pave the way for new interventions for this and related causes of autism.
NIMH Data Archive
10/22/2012
Autism Centers of Excellence (ACE)
Funding Completed
Close Out
Shared
No
$13,349,935.00
164
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NIH - Extramural None


U01NS082320-01 Early Biomarkers of Autism Spectrum Disorders in infants with Tuberous Sclerosis 09/01/2012 08/31/2019 165 146 BOSTON CHILDRENS HOSPITAL $13,349,935.00

helpcenter.collection.general-tab

NDA Help Center

Collection - General

Fields available for edit on the top portion of the page include:

  • Collection Title
  • Investigators
  • Collection Description
  • Collection Phase
  • Funding Source
  • Clinical Trials

Collection Status: The visibility status of an NDA Collection. Collection Status can be Shared or Private. Collections in Shared status are visible to all users and can be searched in the NDA Query Tool. Private Collections are not visible to NDA users. The Status of an NDA Collection only affects the visibility of information about the Collection (metadata) and does not relate to the status of the record-level research data in the NDA Collection.

Collection Phase: The current status of a research project submitting data to an NDA Collection, based on the timing of the award and/or the data that have been submitted.

  • Pre-Enrollment: The default entry made when the NDA Collection is created.
  • Enrolling: Data have been submitted to the NDA Collection or the NDA Data Expected initial submission date has been reached for at least one data structure category in the NDA Collection.
  • Data Analysis: Subject level data collection for the research project is completed and has been submitted to the NDA Collection. The NDA Collection owner or the NDA Help Desk may set this phase when they’ve confirmed data submission is complete and submitted subject counts match at least 90% of the target enrollment numbers in the NDA Data Expected. Data submission reminders will be turned off for the NDA Collection.
  • Funding Completed: The NIH grant award (or awards) associated with the NDA Collection has reached its end date. NDA Collections in Funding Completed phase are assigned a subphase to indicate the status of data submission.
    • The Data Expected Subphase indicates that NDA expects more data will be submitted
    • The Closeout Subphase indicates the data submission is complete.
    • The Sharing Not Met Subphase indicates that data submission was not completed as expected.

Blinded Clinical Trial Status:

  • This status is set by a Collection Owner and indicates the research project is a double blinded clinical trial. When selected, the public view of Data Expected will show the Data Expected items and the Submission Dates, but the targeted enrollment and subjects submitted counts will not be displayed.
  • Targeted enrollment and subjects submitted counts are visible only to NDA Administrators and to the NDA Collection or as the NDA Collection Owner.
  • When an NDA Collection that is flagged Blinded Clinical Trial reaches the maximum data sharing date for that Data Repository (see https://nda.nih.gov/about/sharing-regimen.html), the embargo on Data Expected information is released.

Funding Source

The organization(s) responsible for providing the funding is listed here.

Supporting Documentation

Users with Submission privileges, as well as Collection Owners, Program Officers, and those withAdministrator privileges, may upload and attach supporting documentation. By default, supporting documentation is shared to the general public, however, the optionis also available tolimit this information to qualified researchers only.

Grant Information

Identifiable details are displayed about the Project of which the Collection was derived from. You may click in the Project Number to view a full report of the Project capturedby the NIH.

Clinical Trials

Any data that is collected to support or further the research of clinical studies will be available here. Collection Owners and those with Administrator privileges may add new clinical trials.

Frequently Asked Questions

  • How do I know when a NDA Collection has been created?
    When a Collection is created by NDA staff and marked as Shared, an email notification will automatically be sent to the PI(s) of the grant(s) associated with the Collection to notify them.
  • How does the NIMH Data Archive (NDA) determine which Permission Group data are submitted into?
    During Collection creation, NDA staff determine the appropriate Permission Group based on the type of data to be submitted, the type of access that will be available to data access users, and the information provided by the Program Officer during grant award.
  • Is a single grant number ever associated with more than one Collection?
    The NDA system does not allow for a single grant to be associated with more than one Collection; therefore, a single grant will not be listed in the Grant Information section of a Collection for more than one Collection.
  • Why is there sometimes more than one grant included in a Collection?
    In general, each Collection is associated with only one grant; however, multiple grants may be associated if the grant has multiple competing segments for the same grant number or if multiple different grants are all working on the same project and it makes sense to hold the data in one Collection (e.g., Cooperative Agreements).

Glossary

  • Actual Enrollment
    Number of human subjects enrolled in an NIH-funded clinical research study. The data is provided in annual progress reports.
  • Administrator Privilege
    A privilege provided to a user associated with an NDA Collection or NDA Study whereby that user can perform a full range of actions including providing privileges to other users.
  • Collection Owner
    Generally, the Collection Owner is the contact PI listed on a grant. Only one NDA user is listed as the Collection owner. Most automated emails are primarily sent to the Collection Owner.
  • Data Use Limitations
    Data Use Limitations (DULs) describe the appropriate secondary use of a dataset and are based on the original informed consent of a research participant. NDA only accepts consent-based data use limitations defined by the NIH Office of Science Policy.
  • Grant
    Provides the grant number(s) for the grant(s) associated with the Collection. The field is a hyperlink so clicking on the Grant number will direct the user to the grant information in the NIH Research Portfolio Online Reporting Tools (RePORT) page.
  • NDA Collection
    A virtual container and organization structure for data and associated documentation from one grant or one large project/consortium. It contains tools for tracking data submission and allows investigators to define a wide array of other elements that provide context for the data, including all general information regarding the data and source project, experimental parameters used to collect any event-based data contained in the Collection, methods, and other supporting documentation. They also allow investigators to link underlying data to an NDA Study, defining populations and subpopulations specific to research aims.
  • Permission Group
    Access to shared record-level data in NDA is provisioned at the level of a Permission Group. NDA Permission Groups consist of one or multiple NDA Collections that contain data with the same subject consents.
  • Collection Phase
    The Collection Phase provides information on data submission as opposed to grant/project completion so while the Collection phase and grant/project phase may be closely related they are often different. Collection users with Administrative Privileges are encouraged to edit the Collection Phase. The Program Officer as listed in eRA (for NIH funded grants) may also edit this field. Changes must be saved by clicking the Save button at the bottom of the page. This field is sortable alphabetically in ascending or descending order. Collection Phase options include:
    • Pre-Enrollment: A grant/project has started, but has not yet enrolled subjects.
    • Enrolling: A grant/project has begun enrolling subjects. Data submission is likely ongoing at this point.
    • Data Analysis: A grant/project has completed enrolling subjects and has completed all data submissions.
    • Funding Completed: A grant/project has reached the project end date.
  • Planned Enrollment
    Number of human subject participants to be enrolled in an NIH-funded clinical research study. The data is provided in competing applications and annual progress reports.
  • NIH Research Initiative
    NDA Collections may be organized by scientific similarity into NIH Research Initiatives, to facilitate query tool user experience. NIH Research Initiatives map to one or multiple Funding Opportunity Announcements.
  • Collection State
    The Collection State indicates whether the Collection is viewable and searchable. Collections can be either Private, Shared, or an Ongoing Study. A Collection that is shared does not necessarily have shared data as the Collection State and state of data are independent of each other. This field can be edited by Collection users with Administrative Privileges and the Program Officer as listed in eRA (for NIH funded grants). Changes must be saved by clicking the Save button at the bottom of the page.
  • Supporting Documentation
    Various documents and materials to enable efficient use of the data by investigators unfamiliar with the project and may include the research protocol, questionnaires, and study manuals.
  • Collection Title
    An editable field with the title of the Collection, which is often the title of the grant associated with the Collection.
  • Total Subjects Shared
    The total number of unique subjects for whom data have been shared and are available for users with permission to access data.
IDNameCreated DateStatusType
112UCLA-Cincinnati EEG11/18/2013ApprovedEEG
117Boston EEGs01/09/2014ApprovedEEG
118Houston EEGs01/09/2014ApprovedEEG
119Birmingham01/13/2014ApprovedEEG
120Cincinnati EEGs01/13/2014ApprovedEEG
helpcenter.collection.experiments-tab

NDA Help Center

Collection - Experiments

The number of Experiments included is displayed in parentheses next to the tab name. You may download all experiments associated with the Collection via the Download button. You may view individual experiments by clicking the Experiment Name and add them to the Filter Cart via the Add to Cart button.

Collection Owners, Program Officers, and users with Submission or Administrative Privileges for the Collection may create or edit an Experiment.

Please note: The creation of an NDA Experiment does not necessarily mean that data collected, according to the defined Experiment, has been submitted or shared.

Frequently Asked Questions

  • Can an Experiment be associated with more than one Collection?

    Yes -see the “Copy” button in the bottom left when viewing an experiment. There are two actions that can be performed via this button:

    1. Copy the experiment with intent for modifications.
    2. Associate the experiment to the collection. No modifications can be made to the experiment.

Glossary

  • Experiment Status
    An Experiment must be Approved before data using the associated Experiment_ID may be uploaded.
  • Experiment ID
    The ID number automatically generated by NDA which must be included in the appropriate file when uploading data to link the Experiment Definition to the subject record.

Collection Owners and those with Collection Administrator permission, may edit a collection. The following is currently available for Edit on this page:

Shared Data

Data structures with the number of subjects submitted and shared are provided.

ACE Family Medical History Clinical Assessments 160
ACE Subject Medical History Clinical Assessments 160
ACE Subject Physical Exam Clinical Assessments 160
Child Behavior Checklist (CBCL) 1-5 Clinical Assessments 146
Classification of Seizures Clinical Assessments 160
Demographics Clinical Assessments 161
EEG Subject Files Imaging 162
Early Social Communication Scale (ESCS) Clinical Assessments 151
Image Imaging 135
Interval Medical History Clinical Assessments 155
Mullen Scales of Early Learning Clinical Assessments 158
Preschool Language Scales Fifth edition (PLS-5) Clinical Assessments 158
Research Subject Clinical Assessments 163
Summary of Seizure Diary counts Clinical Assessments 154
Vineland-II - Survey Form (2005) Clinical Assessments 154
helpcenter.collection.shared-data-tab

NDA Help Center

Collection - Shared Data

This tab provides a quick overview of the Data Structure title, Data Type, and Number of Subjects that are currently Shared for the Collection. The information presented in this tab is automatically generated by NDA and cannot be edited. If no information is visible on this tab, this would indicate the Collection does not have shared data or the data is private.

The shared data is available to other researchers who have permission to access data in the Collection's designated Permission Group(s). Use the Download button to get all shared data from the Collection to the Filter Cart.

Frequently Asked Questions

  • How will I know if another researcher uses data that I shared through the NIMH Data Archive (NDA)?
    To see what data your project have submitted are being used by a study, simply go the Associated Studies tab of your collection. Alternatively, you may review an NDA Study Attribution Report available on the General tab.
  • Can I get a supplement to share data from a completed research project?
    Often it becomes more difficult to organize and format data electronically after the project has been completed and the information needed to create a GUID may not be available; however, you may still contact a program staff member at the appropriate funding institution for more information.
  • Can I get a supplement to share data from a research project that is still ongoing?
    Unlike completed projects where researchers may not have the information needed to create a GUID and/or where the effort needed to organize and format data becomes prohibitive, ongoing projects have more of an opportunity to overcome these challenges. Please contact a program staff member at the appropriate funding institution for more information.

Glossary

  • Data Structure
    A defined organization and group of Data Elements to represent an electronic definition of a measure, assessment, questionnaire, or collection of data points. Data structures that have been defined in the NDA Data Dictionary are available at https://nda.nih.gov/general-query.html?q=query=data-structure
  • Data Type
    A grouping of data by similar characteristics such as Clinical Assessments, Omics, or Neurosignal data.
  • Shared
    The term 'Shared' generally means available to others; however, there are some slightly different meanings based on what is Shared. A Shared NDA Collection or NDA Study is viewable and searchable publicly regardless of the user's role or whether the user has an NDA account. A Shared Collection or NDA Study does not necessarily mean that data submitted to the Collection or used in the NDA Study have been shared as this is independently determined. Data are shared according the schedule defined in a Collection's Data Expected Tab and/or in accordance with data sharing expectations in the NDA Data Sharing Terms and Conditions. Additionally, Supporting Documentation uploaded to a Collection may be shared independent of whether data are shared, but will only be viewable and accessible if the Collection is Shared.

Collection Owners and those with Collection Administrator permission, may edit a collection. The following is currently available for Edit on this page:

Publications

Publications relevant to NDA data are listed below. Most displayed publications have been associated with the grant within Pubmed. Use the "+ New Publication" button to add new publications. Publications relevant/not relevant to data expected are categorized. Relevant publications are then linked to the underlying data by selecting the Create Study link. Study provides the ability to define cohorts, assign subjects, define outcome measures and lists the study type, data analysis and results. Analyzed data and results are expected in this way.

PubMed IDStudyTitleJournalAuthorsDateStatus
34668231Create StudyProfile of Autism Spectrum Disorder in Tuberous Sclerosis Complex: Results from a Longitudinal, Prospective, Multisite Study.Annals of neurologyCapal, Jamie K; Williams, Marian E; Pearson, Deborah A; Kissinger, Robin; Horn, Paul S; Murray, Donna; Currans, Kristn; Kent, Bridget; Bebin, Martina; Northrup, Hope; Wu, Joyce Y; Sahin, Mustafa; Krueger, Darcy A; TACERN Study GroupDecember 1, 2021Not Determined
34343869Create StudyEpilepsy Is Heterogeneous in Early-Life Tuberous Sclerosis Complex.Pediatric neurologyIhnen, S Katie Z; Capal, Jamie K; Horn, Paul S; Griffith, Molly; Sahin, Mustafa; Bebin, E Martina; Wu, Joyce Y; Northrup, Hope; Krueger, Darcy A; TACERN study groupOctober 1, 2021Not Determined
33410532Create StudyTuber Locations Associated with Infantile Spasms Map to a Common Brain Network.Annals of neurologyCohen, Alexander L; Mulder, Brechtje P F; Prohl, Anna K; Soussand, Louis; Davis, Peter; Kroeck, Mallory R; McManus, Peter; Gholipour, Ali; Scherrer, Benoit; Bebin, E Martina; Wu, Joyce Y; Northrup, Hope; Krueger, Darcy A; Sahin, Mustafa; Warfield, Simon K; Fox, Michael D; Peters, Jurriaan M; Tuberous Sclerosis Complex Autism Center of Excellence Network Study GroupApril 1, 2021Not Determined
33011641Create StudyEpilepsy Risk Prediction Model for Patients With Tuberous Sclerosis Complex.Pediatric neurologyFarach, Laura S; Richard, Melissa A; Lupo, Philip J; Sahin, Mustafa; Krueger, Darcy A; Wu, Joyce Y; Bebin, Elizabeth M; Au, Kit Sing; Northrup, Hope; TACERN Study GroupDecember 1, 2020Not Determined
32927206Create StudyScalp EEG interictal high frequency oscillations as an objective biomarker of infantile spasms.Clinical neurophysiology : official journal of the International Federation of Clinical NeurophysiologyNariai, Hiroki; Hussain, Shaun A; Bernardo, Danilo; Motoi, Hirotaka; Sonoda, Masaki; Kuroda, Naoto; Asano, Eishi; Nguyen, Jimmy C; Elashoff, David; Sankar, Raman; Bragin, Anatol; Staba, Richard J; Wu, Joyce YNovember 1, 2020Not Determined
32418847Create StudyPilot Study of Neurodevelopmental Impact of Early Epilepsy Surgery in Tuberous Sclerosis Complex.Pediatric neurologyGrayson, Leslie E; Peters, Jurriaan M; McPherson, Tarrant; Krueger, Darcy A; Sahin, Mustafa; Wu, Joyce Y; Northrup, Hope A; Porter, Brenda; Cutter, Gary R; O'Kelley, Sarah E; Krefting, Jessica; Stone, Scellig S; Madsen, Joseph R; Fallah, Aria; Blount, Jeffrey P; Weiner, Howard L; Bebin, E Martina; TACERN Study GroupAugust 2020Not Determined
32348367Create StudyDeep learning in rare disease. Detection of tubers in tuberous sclerosis complex.PloS oneSánchez Fernández, Iván; Yang, Edward; Calvachi, Paola; Amengual-Gual, Marta; Wu, Joyce Y; Krueger, Darcy; Northrup, Hope; Bebin, Martina E; Sahin, Mustafa; Yu, Kun-Hsing; Peters, Jurriaan M; TACERN Study GroupJanuary 2020Not Determined
32133630Create StudyScalp electroencephalographic spikes predict impending epilepsy in tuberous sclerosis complex infants: A longitudinal observational study.EpilepsiaMolinero, Isaac; Ferastraoaru, Victor; Boro, Alexis; Moshé, Solomon LApril 1, 2020Not Determined
31864941Create StudyLanguage predictors of autism spectrum disorder in young children with tuberous sclerosis complex.Epilepsy & behavior : E&BSchoenberger, Alexandra; Capal, Jamie K; Ondracek, Annie; Horn, Paul S; Murray, Donna; Byars, Anna Weber; Pearson, Deborah A; Williams, Marian E; Bebin, Martina; Northrup, Hope; Wu, Joyce Y; Sahin, Mustafa; Krueger, Darcy AFebruary 2020Not Determined
31838998Create StudyEarly white matter development is abnormal in tuberous sclerosis complex patients who develop autism spectrum disorder.Journal of neurodevelopmental disordersProhl, Anna K; Scherrer, Benoit; Tomas-Fernandez, Xavier; Davis, Peter E; Filip-Dhima, Rajna; Prabhu, Sanjay P; Peters, Jurriaan M; Bebin, E Martina; Krueger, Darcy A; Northrup, Hope; Wu, Joyce Y; Sahin, Mustafa; Warfield, Simon K; TACERN Study GroupDecember 2019Not Determined
31812987Create StudyThe Connectivity Fingerprint of the Fusiform Gyrus Captures the Risk of Developing Autism in Infants with Tuberous Sclerosis Complex.Cerebral cortex (New York, N.Y. : 1991)Scherrer, Benoit; Prohl, Anna K; Taquet, Maxime; Kapur, Kush; Peters, Jurriaan M; Tomas-Fernandez, Xavier; Davis, Peter E; M Bebin, Elizabeth; Krueger, Darcy A; Northrup, Hope; Y Wu, Joyce; Sahin, Mustafa; Warfield, Simon KApril 14, 2020Not Determined
31811616Create StudyEEG Spectral Features in Sleep of Autism Spectrum Disorders in Children with Tuberous Sclerosis Complex.Journal of autism and developmental disordersCook, Ian A; Wilson, Andrew C; Peters, Jurriaan M; Goyal, Monisha N; Bebin, E Martina; Northrup, Hope; Krueger, Darcy; Leuchter, Andrew F; Sahin, Mustafa; TACERN Study GroupMarch 1, 2020Not Determined
31691264Create StudyScalp EEG spikes predict impending epilepsy in TSC infants: A longitudinal observational study.EpilepsiaWu, Joyce Y; Goyal, Monisha; Peters, Jurriaan M; Krueger, Darcy; Sahin, Mustafa; Northrup, Hope; Au, Kit S; O'Kelley, Sarah; Williams, Marian; Pearson, Deborah A; Hanson, Ellen; Byars, Anna W; Krefting, Jessica; Beasley, Mark; Cutter, Gary; Limdi, Nita; Bebin, E MartinaDecember 2019Not Determined
31569042Create StudyProspective observational study: Fast ripple localization delineates the epileptogenic zone.Clinical neurophysiology : official journal of the International Federation of Clinical NeurophysiologyNariai H, Hussain SA, Bernardo D, Fallah A, Murata KK, Nguyen JC, Rajaraman RR, Rao LM, Matsumoto JH, Lerner JT, Salamon N, Elashoff D, Sankar R, Wu JYNovember 2019Not Determined
31554896Create StudyExtra-axonal restricted diffusion as an in-vivo marker of reactive microglia.Scientific reportsTaquet, Maxime; Jankovski, Aleksandar; Rensonnet, Gaëtan; Jacobs, Damien; des Rieux, Anne; Macq, Benoît; Warfield, Simon K; Scherrer, BenoîtSeptember 2019Not Determined
31417372Create StudyReproducibility of Structural and Diffusion Tensor Imaging in the TACERN Multi-Center Study.Frontiers in integrative neuroscienceProhl, Anna K; Scherrer, Benoit; Tomas-Fernandez, Xavier; Filip-Dhima, Rajna; Kapur, Kush; Velasco-Annis, Clemente; Clancy, Sean; Carmody, Erin; Dean, Meghan; Valle, Molly; Prabhu, Sanjay P; Peters, Jurriaan M; Bebin, E Martina; Krueger, Darcy A; Northrup, Hope; Wu, Joyce Y; Sahin, Mustafa; Warfield, Simon KJanuary 2019Not Determined
31353853Create StudyWhite matter mean diffusivity correlates with myelination in tuberous sclerosis complex.Annals of clinical and translational neurologyPeters JM, Struyven RR, Prohl AK, Vasung L, Stajduhar A, Taquet M, Bushman JJ, Lidov H, Singh JM, Scherrer B, Madsen JR, Prabhu SP, Sahin M, Afacan O, Warfield SKJuly 2019Not Determined
31304656Create StudyResting-State fMRI Networks in Children with Tuberous Sclerosis Complex.Journal of neuroimaging : official journal of the American Society of NeuroimagingAhtam, Banu; Dehaes, Mathieu; Sliva, Danielle D; Peters, Jurriaan M; Krueger, Darcy A; Bebin, Elizabeth Martina; Northrup, Hope; Wu, Joyce Y; Warfield, Simon K; Sahin, Mustafa; Grant, Patricia Ellen; TACERN Study GroupNovember 2019Not Determined
31297797Create StudyIncreased electroencephalography connectivity precedes epileptic spasm onset in infants with tuberous sclerosis complex.EpilepsiaDavis, Peter E; Kapur, Kush; Filip-Dhima, Rajna; Trowbridge, Sara K; Little, Elaina; Wilson, Andrew; Leuchter, Andrew; Bebin, Elizabeth M; Krueger, Darcy; Northrup, Hope; Wu, Joyce Y; Sahin, Mustafa; Peters, Jurriaan M; Tuberous Sclerosis Autism Centers of Excellence Research NetworkAugust 2019Not Determined
31261349Create StudyLesion-Constrained Electrical Source Imaging: A Novel Approach in Epilepsy Surgery for Tuberous Sclerosis Complex.Journal of clinical neurophysiology : official publication of the American Electroencephalographic SocietyPeters, Jurriaan M; Hyde, Damon E; Chu, Catherine J; Boom, Merel; Scherrer, Benoit; Madsen, Joseph R; Stone, Scellig S; Ouaalam, Hakim; Prabhu, Sanjay P; Sahin, Mustafa; Warfield, Simon KJanuary 2020Not Determined
31018109Create StudyGenetic Etiologies, Diagnosis, and Treatment of Tuberous Sclerosis Complex.Annual review of genomics and human geneticsSalussolia, Catherine L; Klonowska, Katarzyna; Kwiatkowski, David J; Sahin, MustafaAugust 2019Not Determined
31005478Create StudyTuberous Sclerosis Complex Genotypes and Developmental Phenotype.Pediatric neurologyFarach LS, Pearson DA, Woodhouse JP, Schraw JM, Sahin M, Krueger DA, Wu JY, Bebin EM, Lupo PJ, Au KS, Northrup H, July 2019Not Determined
30945897Create StudyImpacting development in infants with tuberous sclerosis complex: Multidisciplinary research collaboration.The American psychologistWilliams ME, Pearson DA, Capal JK, Byars AW, Murray DS, Kissinger R, O'Kelley SE, Hanson E, Bing NM, Kent B, Wu JY, Northrup H, Bebin EM, Sahin M, Krueger D, April 2019Not Determined
30564771Create StudyInterrater reliability in visual identification of interictal high-frequency oscillations on electrocorticography and scalp EEG.Epilepsia openNariai, Hiroki; Wu, Joyce Y; Bernardo, Danilo; Fallah, Aria; Sankar, Raman; Hussain, Shaun ADecember 2018Not Determined
30443929Create StudyMotion-robust diffusion compartment imaging using simultaneous multi-slice acquisition.Magnetic resonance in medicineMarami B, Scherrer B, Khan S, Afacan O, Prabhu SP, Sahin M, Warfield SK, Gholipour AMay 2019Not Determined
30441054Create StudyAutomated Detection of High Frequency Oscillations in Human Scalp Electroencephalogram.Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual ConferenceCharupanit K, Nunez MD, Bernardo D, Bebin M, Krueger DA, Northrup H, Sahin M, Wu JY, Lopour BAJuly 2018Not Determined
30424962Create StudyLongitudinal Effects of Everolimus on White Matter Diffusion in Tuberous Sclerosis Complex.Pediatric neurologyPeters, Jurriaan M; Prohl, Anna; Kapur, Kush; Nath, Audrey; Scherrer, Benoit; Clancy, Sean; Prabhu, Sanjay P; Sahin, Mustafa; Franz, David Neal; Warfield, Simon K; Krueger, Darcy AJanuary 2019Not Determined
30296632Create StudyHigh vigabatrin dosage is associated with lower risk of infantile spasms relapse among children with tuberous sclerosis complex.Epilepsy researchHussain SA, Schmid E, Peters JM, Goyal M, Bebin EM, Northrup H, Sahin M, Krueger DA, Wu JY, December 2018Not Determined
30282007Create StudyTowards microstructure fingerprinting: Estimation of tissue properties from a dictionary of Monte Carlo diffusion MRI simulations.NeuroImageRensonnet G, Scherrer B, Girard G, Jankovski A, Warfield SK, Macq B, Thiran JP, Taquet MJanuary 2019Not Determined
30255984Create StudyGenetics, genomics, and genotype-phenotype correlations of TSC: Insights for clinical practice.American journal of medical genetics. Part C, Seminars in medical geneticsPeron, Angela; Au, Kit Sing; Northrup, HopeSeptember 2018Not Determined
30149055Create StudyA unified circuit for social behavior.Neurobiology of learning and memoryModi, Meera E; Sahin, MustafaNovember 2019Not Determined
30120133Create StudyRemoving high-frequency oscillations: A prospective multicenter study on seizure outcome.NeurologyJacobs, Julia; Wu, Joyce Y; Perucca, Piero; Zelmann, Rina; Mader, Malenka; Dubeau, Francois; Mathern, Gary W; Schulze-Bonhage, Andreas; Gotman, JeanSeptember 11, 2018Not Determined
30117265Create StudyA clinical update on tuberous sclerosis complex-associated neuropsychiatric disorders (TAND).American journal of medical genetics. Part C, Seminars in medical geneticsde Vries, Petrus J; Wilde, Lucy; de Vries, Magdalena C; Moavero, Romina; Pearson, Deborah A; Curatolo, PaoloSeptember 2018Not Determined
30101418Create StudyThe Way Forward for Mechanism-Based Therapeutics in Genetically Defined Neurodevelopmental Disorders.Clinical pharmacology and therapeuticsModi, Meera E; Sahin, MustafaOctober 2018Not Determined
30041061Create StudyExploring early human brain development with structural and physiological neuroimaging.NeuroImageVasung, Lana; Abaci Turk, Esra; Ferradal, Silvina L; Sutin, Jason; Stout, Jeffrey N; Ahtam, Banu; Lin, Pei-Yi; Grant, P EllenFebruary 2019Not Determined
29939236Create StudyCorpus Callosum White Matter Diffusivity Reflects Cumulative Neurological Comorbidity in Tuberous Sclerosis Complex.Cerebral cortex (New York, N.Y. : 1991)Baumer FM, Peters JM, Clancy S, Prohl AK, Prabhu SP, Scherrer B, Jansen FE, Braun KPJ, Sahin M, Stamm A, Warfield SKOctober 2018Not Determined
29687739Create StudyVigabatrin for Epileptic Spasms and Tonic Seizures in Tuberous Sclerosis Complex.Journal of child neurologyVan Der Poest Clement EA, Sahin M, Peters JMJuly 2018Not Determined
29673547Create StudyVisual and semi-automatic non-invasive detection of interictal fast ripples: A potential biomarker of epilepsy in children with tuberous sclerosis complex.Clinical neurophysiology : official journal of the International Federation of Clinical NeurophysiologyBernardo D, Nariai H, Hussain SA, Sankar R, Salamon N, Krueger DA, Sahin M, Northrup H, Bebin EM, Wu JY, July 2018Not Determined
29572283Create StudyCerebellar volume as an imaging marker of development in infants with tuberous sclerosis complex.NeurologySrivastava, Siddharth; Prohl, Anna K; Scherrer, Benoit; Kapur, Kush; Krueger, Darcy A; Warfield, Simon K; Sahin, Mustafa; TACERN Study GroupApril 24, 2018Not Determined
29490194Create StudyAbnormal mTOR Activation in Autism.Annual review of neuroscienceWinden, Kellen D; Ebrahimi-Fakhari, Darius; Sahin, MustafaJuly 2018Not Determined
29101226Create StudyPresentation and Diagnosis of Tuberous Sclerosis Complex in Infants.PediatricsDavis, Peter E; Filip-Dhima, Rajna; Sideridis, Georgios; Peters, Jurriaan M; Au, Kit Sing; Northrup, Hope; Bebin, E Martina; Wu, Joyce Y; Krueger, Darcy; Sahin, Mustafa; Tuberous Sclerosis Complex Autism Center of Excellence Research NetworkDecember 2017Not Relevant
28844798Create StudyUtility of the Autism Observation Scale for Infants in Early Identification of Autism in Tuberous Sclerosis Complex.Pediatric neurologyCapal, Jamie K; Horn, Paul S; Murray, Donna S; Byars, Anna Weber; Bing, Nicole M; Kent, Bridget; Bucher, Lindsey A; Williams, Marian E; O'Kelley, Sarah; Pearson, Deborah A; Sahin, Mustafa; Krueger, Darcy A; TACERN Study GroupOctober 2017Relevant
28801253Create StudyInvestigating the maturation of microstructure and radial orientation in the preterm human cortex with diffusion MRI.NeuroImageEaton-Rosen Z, Scherrer B, Melbourne A, Ourselin S, Neil JJ, Warfield SKNovember 2017Not Determined
28714064Create StudyAssessing the validity of the approximation of diffusion-weighted-MRI signals from crossing fascicles by sums of signals from single fascicles.Magnetic resonance in medicineRensonnet G, Scherrer B, Warfield SK, Macq B, Taquet MApril 2018Not Determined
28649286Create StudyAutism spectrum disorder and epileptic encephalopathy: common causes, many questions.Journal of neurodevelopmental disordersSrivastava S, Sahin MJanuary 2017Not Relevant
28644979Create StudyIntraoperative fast ripples independently predict postsurgical epilepsy outcome: Comparison with other electrocorticographic phenomena.Epilepsy researchHussain SA, Mathern GW, Hung P, Weng J, Sankar R, Wu JYSeptember 2017Not Relevant
28643795Create StudyThe genomic landscape of tuberous sclerosis complex.Nature communicationsMartin KR, Zhou W, Bowman MJ, Shih J, Au KS, Dittenhafer-Reed KE, Sisson KA, Koeman J, Weisenberger DJ, Cottingham SL, Deroos ST, Devinsky O, Winn ME, Cherniack AD, Shen H, Northrup H, Krueger DA, Mackeigan JPJune 2017Not Relevant
28457992Create StudyInfluence of seizures on early development in tuberous sclerosis complex.Epilepsy & behavior : E&BCapal, Jamie K; Bernardino-Cuesta, Beatriz; Horn, Paul S; Murray, Donna; Byars, Anna Weber; Bing, Nicole M; Kent, Bridget; Pearson, Deborah A; Sahin, Mustafa; Krueger, Darcy A; TACERN Study GroupMay 2017Not Relevant
28127590Create StudyMotion-Robust Reconstruction based on Simultaneous Multi-Slice Registration for Diffusion-Weighted MRI of Moving Subjects.Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted InterventionMarami B, Scherrer B, Afacan O, Warfield SK, Gholipour AOctober 2016Not Determined
27956565Create StudyRandomized placebo-controlled study of lovastatin in children with neurofibromatosis type 1.NeurologyPayne, Jonathan M; Barton, Belinda; Ullrich, Nicole J; Cantor, Alan; Hearps, Stephen J C; Cutter, Gary; Rosser, Tena; Walsh, Karin S; Gioia, Gerard A; Wolters, Pamela L; Tonsgard, James; Schorry, Elizabeth; Viskochil, David; Klesse, Laura; Fisher, Michael; Gutmann, David H; Silva, Alcino J; Hunter, Scott J; Rey-Casserly, Celiane; Cantor, Nancy L; Byars, Anna W; Stavinoha, Peter L; Ackerson, Joseph D; Armstrong, Carol L; Isenberg, Jill; O'Neil, Sharon H; Packer, Roger J; Korf, Bruce; Acosta, Maria T; North, Kathryn N; NF Clinical Trials ConsortiumDecember 13, 2016Not Determined
27834639Create StudyMotion-Robust Diffusion-Weighted Brain MRI Reconstruction Through Slice-Level Registration-Based Motion Tracking.IEEE transactions on medical imagingMarami B, Scherrer B, Afacan O, Erem B, Warfield SK, Gholipour AOctober 2016Not Determined
27815402Create StudyLong-term treatment of epilepsy with everolimus in tuberous sclerosis.NeurologyKrueger, Darcy A; Wilfong, Angus A; Mays, Maxwell; Talley, Christina M; Agricola, Karen; Tudor, Cindy; Capal, Jamie; Holland-Bouley, Katherine; Franz, David NealDecember 6, 2016Not Determined
27647682Create StudyActive delineation of Meyer's loop using oriented priors through MAGNEtic tractography (MAGNET).Human brain mappingChamberland M, Scherrer B, Prabhu SP, Madsen J, Fortin D, Whittingstall K, Descoteaux M, Warfield SKJanuary 2017Relevant
27267556Create StudyAdvances and Future Directions for Tuberous Sclerosis Complex Research: Recommendations From the 2015 Strategic Planning Conference.Pediatric neurologySahin M, Henske EP, Manning BD, Ess KC, Bissler JJ, Klann E, Kwiatkowski DJ, Roberds SL, Silva AJ, Hillaire-Clarke CS, Young LR, Zervas M, Mamounas LA, July 2016Not Relevant
27199644Create StudyEditorial: Essential Pathways and Circuits of Autism Pathogenesis.Frontiers in neuroscienceDölen, Gül; Sahin, MustafaJanuary 2016Not Relevant
26715604Create StudyCongenital disorders of autophagy: an emerging novel class of inborn errors of neuro-metabolism.Brain : a journal of neurologyEbrahimi-Fakhari D, Saffari A, Wahlster L, Lu J, Byrne S, Hoffmann GF, Jungbluth H, Sahin MFebruary 2016Not Relevant
26632048Create StudySuper-resolution reconstruction in frequency, image, and wavelet domains to reduce through-plane partial voluming in MRI.Medical physicsGholipour A, Afacan O, Aganj I, Scherrer B, Prabhu SP, Sahin M, Warfield SKDecember 2015Not Determined
26529580Create StudyImproved fidelity of brain microstructure mapping from single-shell diffusion MRI.Medical image analysisTaquet M, Scherrer B, Boumal N, Peters JM, Macq B, Warfield SKDecember 2015Not Determined
26498039Create StudyClinical Electroencephalographic Biomarker for Impending Epilepsy in Asymptomatic Tuberous Sclerosis Complex Infants.Pediatric neurologyWu JY, Peters JM, Goyal M, Krueger D, Sahin M, Northrup H, Au KS, Cutter G, Bebin EMJanuary 2016Not Determined
26472761Create StudyGenes, circuits, and precision therapies for autism and related neurodevelopmental disorders.Science (New York, N.Y.)Sahin M, Sur MNovember 2015Not Determined
26432846Create StudyTubers are neither static nor discrete: Evidence from serial diffusion tensor imaging.NeurologyPeters JM, Prohl AK, Tomas-Fernandez XK, Taquet M, Scherrer B, Prabhu SP, Lidov HG, Singh JM, Jansen FE, Braun KP, Sahin M, Warfield SK, Stamm ANovember 3, 2015Not Determined
26362832Create StudyCharacterizing brain tissue by assessment of the distribution of anisotropic microstructural environments in diffusion-compartment imaging (DIAMOND).Magnetic resonance in medicineScherrer B, Schwartzman A, Taquet M, Sahin M, Prabhu SP, Warfield SKSeptember 2016Not Determined
26303409Create StudyCerebellar Development and Autism Spectrum Disorder in Tuberous Sclerosis Complex.Journal of child neurologySundberg M, Sahin MDecember 2015Not Relevant
26167096Create StudyAccelerated High Spatial Resolution Diffusion-Weighted Imaging.Information processing in medical imaging : proceedings of the ... conferenceScherrer B, Afacan O, Taquet M, Prabhu SP, Gholipour A, Warfield SK2015Not Determined
26022167Create StudyTuberous sclerosis complex.Pediatric clinics of North AmericaDiMario FJ, Sahin M, Ebrahimi-Fakhari DJune 2015Not Relevant
25986747Create StudyTuberous Sclerosis: A New Frontier in Targeted Treatment of Autism.Neurotherapeutics : the journal of the American Society for Experimental NeuroTherapeuticsDavis PE, Peters JM, Krueger DA, Sahin MJuly 2015Not Determined
25862116Create StudyMelatonin improves sleep in children with epilepsy: a randomized, double-blind, crossover study.Sleep medicineJain SV, Horn PS, Simakajornboon N, Beebe DW, Holland K, Byars AW, Glauser TAMay 2015Not Determined
25817702Create StudyLongitudinal changes in diffusion properties in white matter pathways of children with tuberous sclerosis complex.Pediatric neurologyBaumer FM, Song JW, Mitchell PD, Pienaar R, Sahin M, Grant PE, Takahashi EJune 2015Not Determined
25750257Create StudyAltered Structural Brain Networks in Tuberous Sclerosis Complex.Cerebral cortex (New York, N.Y. : 1991)Im K, Ahtam B, Haehn D, Peters JM, Warfield SK, Sahin M, Ellen Grant PMay 2016Not Determined
25695134Create StudyAutism and the synapse: emerging mechanisms and mechanism-based therapies.Current opinion in neurologyEbrahimi-Fakhari D, Sahin MApril 2015Not Relevant
25532776Create StudyTuberous sclerosis associated neuropsychiatric disorders (TAND) and the TAND Checklist.Pediatric neurologyde Vries PJ, Whittemore VH, Leclezio L, Byars AW, Dunn D, Ess KC, Hook D, King BH, Sahin M, Jansen AJanuary 2015Not Determined
25385396Create StudyHypsarrhythmia assessment exhibits poor interrater reliability: a threat to clinical trial validity.EpilepsiaHussain SA, Kwong G, Millichap JJ, Mytinger JR, Ryan N, Matsumoto JH, Wu JY, Lerner JT, Sankar RJanuary 2015Not Determined
25374355Create StudyThe neurology of mTOR.NeuronLipton JO, Sahin MOctober 2014Not Determined
24830765Create StudyClobazam: effect on frequency of seizures and safety profile in different subgroups of children with epilepsy.Pediatric neurologyKlehm J, Thome-Souza S, Sánchez Fernández I, Bergin AM, Bolton J, Harini C, Kadish NE, Libenson M, Peters J, Poduri A, Rotenberg A, Takeoka M, Bourgeois B, Loddenkemper TJuly 2014Not Determined
24684014Create StudyReliable selection of the number of fascicles in diffusion images by estimation of the generalization error.Information processing in medical imaging : proceedings of the ... conferenceScherrer B, Taquet M, Warfield SK2013Not Determined
24505801Create StudyCharacterizing the distribution of anisotropic micro-structural environments with diffusion-weighted imaging (DIAMOND).Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted InterventionScherrer B, Schwartzman A, Taquet M, Prabhu SP, Sahin M, Akhondi-Asl A, Warfield SK2013Not Determined
24505728Create StudyEstimation of a multi-fascicle model from single B-value data with a population-informed prior.Medical image computing and computer-assisted intervention : MICCAI ... International Conference on Medical Image Computing and Computer-Assisted InterventionTaquet M, Scherrer B, Boumal N, Macq B, Warfield SK2013Not Determined
24489482Create StudyDiffusion tensor imaging and related techniques in tuberous sclerosis complex: review and future directions.Future neurologyPeters JM, Taquet M, Prohl AK, Scherrer B, van Eeghen AM, Prabhu SP, Sahin M, Warfield SKSeptember 2013Not Determined
24486221Create StudyMechanism-based treatment in tuberous sclerosis complex.Pediatric neurologyJülich K, Sahin MApril 2014Not Determined
24446954Create StudyTreatment of infantile spasms with very high dose prednisolone before high dose adrenocorticotropic hormone.EpilepsiaHussain, Shaun A; Shinnar, Shlomo; Kwong, Grace; Lerner, Jason T; Matsumoto, Joyce H; Wu, Joyce Y; Shields, W Donald; Sankar, RamanJanuary 1, 2014Not Determined
24372698Create StudyInsult to injury: transient encephalopathy in a brain-injured adolescent.Journal of paediatrics and child healthPeters JM, Fernández ISMay 2014Not Determined
24235301Create StudyA mathematical framework for the registration and analysis of multi-fascicle models for population studies of the brain microstructure.IEEE transactions on medical imagingTaquet M, Scherrer B, Commowick O, Peters JM, Sahin M, Macq B, Warfield SKFebruary 2014Not Determined
23991336Create StudyContinuous Spikes and Waves during Sleep: Electroclinical Presentation and Suggestions for Management.Epilepsy research and treatmentSánchez Fernández, Iván; Chapman, Kevin E; Peters, Jurriaan M; Harini, Chellamani; Rotenberg, Alexander; Loddenkemper, TobiasJanuary 1, 2013Not Determined
23953953Create StudyLong-term response to high-dose diazepam treatment in continuous spikes and waves during sleep.Pediatric neurologySánchez Fernández I, Peters JM, An S, Bergin AM, Takeoka M, Rotenberg A, Kothare SV, Riviello JJ, Loddenkemper TSeptember 2013Not Determined
23859506Create Study[The brain functional network of children with autism: redundancy and disconnection].Medecine sciences : M/STaquet, Maxime; Peters, Jurriaan MJune 2013Not Determined
23852707Create StudyManagement of CNS-related Disease Manifestations in Patients With Tuberous Sclerosis Complex.Current treatment options in neurologyKrueger DAOctober 2013Not Determined
23744673Create StudySimultaneous truth and performance level estimation through fusion of probabilistic segmentations.IEEE transactions on medical imagingAkhondi-Asl, Alireza; Warfield, Simon KOctober 2013Not Determined
23445896Create StudyBrain functional networks in syndromic and non-syndromic autism: a graph theoretical study of EEG connectivity.BMC medicinePeters JM, Taquet M, Vega C, Jeste SS, Fernández IS, Tan J, Nelson CA, Sahin M, Warfield SK2013Not Determined
23291250Create StudyAutomated quantification of spikes.Epilepsy & behavior : E&BChavakula V, Sánchez Fernández I, Peters JM, Popli G, Bosl W, Rakhade S, Rotenberg A, Loddenkemper TFebruary 2013Not Determined
helpcenter.collection.publications-tab

NDA Help Center

Collection - Publications

The number of Publications is displayed in parentheses next to the tab name. Clicking on any of the Publication Titles will open the Publication in a new internet browsing tab.

Collection Owners, Program Officers, and users with Submission or Administrative Privileges for the Collection may mark a publication as either Relevant or Not Relevant in the Status column.

Frequently Asked Questions

  • How can I determine if a publication is relevant?
    Publications are considered relevant to a collection when the data shared is directly related to the project or collection.
  • Where does the NDA get the publications?
    PubMed, an online library containing journals, articles, and medical research. Sponsored by NiH and National Library of Medicine (NLM).

Glossary

  • Create Study
    A link to the Create an NDA Study page that can be clicked to start creating an NDA Study with information such as the title, journal and authors automatically populated.
  • Not Determined Publication
    Indicates that the publication has not yet been reviewed and/or marked as Relevant or Not Relevant so it has not been determined whether an NDA Study is expected.
  • Not Relevant Publication
    A publication that is not based on data related to the aims of the grant/project associated with the Collection or not based on any data such as a review article and, therefore, an NDA Study is not expected to be created.
  • PubMed
    PubMed provides citation information for biomedical and life sciences publications and is managed by the U.S. National Institutes of Health's National Library of Medicine.
  • PubMed ID
    The PUBMed ID is the unique ID number for the publication as recorded in the PubMed database.
  • Relevant Publication
    A publication that is based on data related to the aims of the grant/project associated with the Collection and, therefore, an NDA Study is expected to be created.

Relevant Publications
PubMed IDStudyTitleJournalAuthorsDate
28844798Create StudyUtility of the Autism Observation Scale for Infants in Early Identification of Autism in Tuberous Sclerosis Complex.Pediatric neurologyCapal, Jamie K; Horn, Paul S; Murray, Donna S; Byars, Anna Weber; Bing, Nicole M; Kent, Bridget; Bucher, Lindsey A; Williams, Marian E; O'Kelley, Sarah; Pearson, Deborah A; Sahin, Mustafa; Krueger, Darcy A; TACERN Study GroupOctober 2017
27647682Create StudyActive delineation of Meyer's loop using oriented priors through MAGNEtic tractography (MAGNET).Human brain mappingChamberland M, Scherrer B, Prabhu SP, Madsen J, Fortin D, Whittingstall K, Descoteaux M, Warfield SKJanuary 2017
Data Expected List: Mandatory Data Structures

These data structures are mandatory for your NDA Collection. Please update the Targeted Enrollment number to accurately represent the number of subjects you expect to submit for the entire study.

Data ExpectedTargeted EnrollmentInitial SubmissionSubjects SharedStatus
Research Subject and Pedigree info icon
15001/15/2015
163
Approved

You can use "Add New Data Expected" to add exsiting structures and create your project's list. However, this is also the method you can use to request new structures be created for your project. When adding the Data Expected item, if the structure already exists you can locate it and specify your dates and enrollment. To add a new structure and request it be defined in the Data Dictionary, select Upload Definition and attach the definition or material needed to create it, including manual, codebooks, forms, etc. If you have multiple files, please upload a zipped archive containing them all.

Expected dates should be selected based on the standard Data Sharing Regimen and are restricted to within date ranges based on the project start and end dates.

Data Expected List: Data Structures per Research Aims

These data structures are specific to your research aims and should list all data structures in which data will be collected and submitted for this NDA Collection. Please update the Targeted Enrollment number to accurately represent the number of subjects you expect to submit for the entire study.

Data ExpectedTargeted EnrollmentInitial SubmissionSubjects SharedStatus
Mullen Scales of Early Learning info icon
15007/15/2013
158
Approved
Genomics/omics info icon
3007/15/2013
0
Approved
ADOS info icon
15002/27/2018
0
Approved
ADI-R info icon
15002/27/2018
0
Approved
Medical History info icon
15001/15/2014
160
Approved
Demographics info icon
15007/15/2013
161
Approved
Child Behavior Checklist (CBCL) info icon
15007/15/2014
146
Approved
Early Social Communication Scales (ESCS) info icon
15007/15/2014
151
Approved
Preschool Language Scale (PLS) info icon
15007/15/2013
158
Approved
Physical Exam info icon
15007/15/2013
160
Approved
Classification of Seizures info icon
15007/15/2013
160
Approved
Summary of Seizure Diary counts info icon
15001/15/2014
154
Approved
Vineland (Parent and Caregiver) info icon
15007/15/2013
154
Approved
Imaging (Structural, fMRI, DTI, PET, microscopy) info icon
15007/15/2013
135
Approved
EEG info icon
15007/15/2014
162
Approved
Structure not yet defined
No Status history for this Data Expected has been recorded yet
helpcenter.collection.data-expected-tab

NDA Help Center

Collection - Data Expected

The Data Expected tab displays the list of all data that NDA expects to receive in association with the Collection as defined by the contributing researcher, as well as the dates for the expected initial upload of the data, and when it is first expected to be shared, or with the research community. Above the primary table of Data Expected, any publications determined to be relevant to the data within the Collection are also displayed - members of the contributing research group can use these to define NDA Studies, connecting those papers to underlying data in NDA.

The tab is used both as a reference for those accessing shared data, providing information on what is expected and when it will be shared, and as the primary tracking mechanism for contributing projects. It is used by both contributing primary researchers, secondary researchers, and NIH Program and Grants Management staff.

Contributing researchers just getting started on their project will need to define this list by adding all of the items they are collecting under their grant and setting their schedule according to the NDA Data Sharing Regimen. If you fall into this category, you can begin by clicking "Add New Data Expected" and selecting which data structures you will be using, saving the page after each change, or requesting new structures by adding and naming a new item, providing any materials NDA Data Dictionary Curators can use to help define your structure. For more information see the tutorial on creating Data Expected.

If you are a contributing researcher creating this list for the first time, or making changes to the list as your project progress, please note the following:

  • Although items you add to the list and changes you make are displayed, they are not committed to the system until you Save the entire page using the "Save"" button at the bottom of your screen. Please Save after every change to ensure none of your work is lost.
  • If you attempt to add a new structure, the title you provide must be unique - if another structure exists with the same name your change will fail.
  • Adding a new structure to this list is the only way to request the creation of a new Data Dictionary definition.

Frequently Asked Questions

  • What is an NDA Data Structure?
    An NDA Data Structure is comprised of multiple Data Elements to make up an electronic definition of an assessment, measure, questionnaire, etc will have a corresponding Data Structure.
  • What is the NDA Data Dictionary?
    The NDA Data Dictionary is comprised of electronic definitions known as Data Structures.

Glossary

  • Analyzed Data
    Data specific to the primary aims of the research being conducted (e.g. outcome measures, other dependent variables, observations, laboratory results, analyzed images, volumetric data, etc.) including processed images.
  • Data Item
    Items listed on the Data Expected list in the Collection which may be an individual and discrete Data Structure, Data Structure Category, or Data Structure Group.
  • Data Structure
    A defined organization and group of Data Elements to represent an electronic definition of a measure, assessment, questionnaire, or collection of data points. Data structures that have been defined in the NDA Data Dictionary are available at https://nda.nih.gov/general-query.html?q=query=data-structure
  • Data Structure Category
    An NDA term describing the affiliation of a Data Structure to a Category, which may be disease/disorder or diagnosis related (Depression, ADHD, Psychosis), specific to data type (MRI, eye tracking, omics), or type of data (physical exam, IQ).
  • Data Structure Group
    A Data Item listed on the Data Expected tab of a Collection that indicates a group of Data Structures (e.g., ADOS or SCID) for which data may be submitted instead of a specific Data Structure identified by version, module, edition, etc. For example, the ADOS Data Structure Category includes every ADOS Data Structure such as ADOS Module 1, ADOS Module 2, ADOS Module 1 - 2nd Edition, etc. The SCID Data Structure Group includes every SCID Data Structure such as SCID Mania, SCID V Mania, SCID PTSD, SCID-V Diagnosis, and more.
  • Evaluated Data
    A new Data Structure category, Evaluated Data is analyzed data resulting from the use of computational pipelines in the Cloud and can be uploaded directly back to a miNDAR database. Evaluated Data is expected to be listed as a Data Item in the Collection's Data Expected Tab.
  • Imaging Data
    Imaging+ is an NDA term which encompasses all imaging related data including, but not limited to, images (DTI, MRI, PET, Structural, Spectroscopy, etc.) as well as neurosignal data (EEG, fMRI, MEG, EGG, eye tracking, etc.) and Evaluated Data.
  • Initial Share Date
    Initial Submission and Initial Share dates should be populated according to the NDA Data Sharing Terms and Conditions. Any modifications to these will go through the approval processes outlined above. Data will be shared with authorized users upon publication (via an NDA Study) or 1-2 years after the grant end date specified on the first Notice of Award, as defined in the applicable Data Sharing Terms and Conditions.
  • Initial Submission Date
    Initial Submission and Initial Share dates should be populated according to these NDA Data Sharing Terms and Conditions. Any modifications to these will go through the approval processes outlined above. Data for all subjects is not expected on the Initial Submission Date and modifications may be made as necessary based on the project's conduct.
  • Research Subject and Pedigree
    An NDA created Data Structure used to convey basic information about the subject such as demographics, pedigree (links family GUIDs), diagnosis/phenotype, and sample location that are critical to allow for easier querying of shared data.
  • Submission Cycle
    The NDA has two Submission Cycles per year - January 15 and July 15.
  • Submission Exemption
    An interface to notify NDA that data may not be submitted during the upcoming/current submission cycle.

Collection Owners and those with Collection Administrator permission, may edit a collection. The following is currently available for Edit on this page:

Associated Studies

Studies that have been defined using data from a Collection are important criteria to determine the value of data shared. The number of subjects column displays the counts from this Collection that are included in a Study, out of the total number of subjects in that study. The Data Use column represents whether or not the study is a primary analysis of the data or a secondary analysis. State indicates whether the study is private or shared with the research community.

Study NameAbstractCollection/Study SubjectsData UsageState
Examining the validity of the use of ratio IQs in psychological assessments IQ tests are amongst the most used psychological assessments, both in research and clinical settings. For participants who cannot complete IQ tests normed for their age, ratio IQ scores (RIQ) are routinely computed and used as a proxy of IQ, especially in large research databases to avoid missing data points. However, because it has never been scientifically validated, this practice is questionable. In the era of big data, it is important to examine the validity of this widely used practice. In this paper, we use the case of autism to examine the differences between standard full-scale IQ (FSIQ) and RIQ. Data was extracted from four databases in which ages, FSIQ scores and subtests raw scores were available for autistic participants between 2 and 17 years old. The IQ tests included were the MSEL (N=12033), DAS-II early years (N=1270), DAS-II school age (N=2848), WISC-IV (N=471) and WISC-V (N=129). RIQs were computed for each participant as well as the discrepancy (DSC) between RIQ and FSIQ. We performed two linear regressions to respectively assess the effect of FSIQ and of age on the DSC for each IQ test, followed by additional analyses comparing age subgroups as well as FSIQ subgroups on DSC. Participants at the extremes of the FSIQ distribution tended to have a greater DSC than participants with average FSIQ. Furthermore, age significantly predicted the DSC, with RIQ superior to FSIQ for younger participants while the opposite was found for older participants. These results question the validity of this widely used alternative scoring method, especially for individuals at the extremes of the normal distribution, with whom RIQs are most often employed.158/17423Secondary AnalysisShared
Controls for SCCRIPTo establish a well characterized cohort for pediatric patients living with sickle cell disease161/11185Secondary AnalysisPrivate
Derivation of Brain Structure Volumes from MRI Neuroimages hosted by NDAR using C-PAC pipeline and ANTsAn automated pipeline was developed to reference Neuroimages hosted by the National Database for Autism Research (NDAR) and derive volumes for distinct brain structures using Advanced Normalization Tools (ANTs) and the Configurable-Pipeline for the Analysis of Connectomes (C-PAC) platform. This pipeline utilized the ANTs cortical thickness methodology discuessed in "Large-Scale Evaluation of ANTs and Freesurfer Cortical Tchickness Measurements" [http://www.ncbi.nlm.nih.gov/pubmed/24879923] to extract a cortical thickness volume from T1-weighted anatomical MRI data gathered from the NDAR database. This volume was then registered to an stereotaxic-space anatomical template (OASIS-30 Atropos Template) which was acquired from the Mindboggle Project webpage [http://mindboggle.info/data.html]. After registration, the mean cortical thickness was calculated at 31 ROIs on each hemisphere of the cortex and using the Desikan-Killiany-Tourville (DKT-31) cortical labelling protocol [http://mindboggle.info/faq/labels.html] over the OASIS-30 template. **NOTE: This study is ongoing; additional data my be available in the future.** As a result, each subject that was processed has a cortical thickness volume image and a text file with the mean thickness ROIs (in mm) stored in Amazon Web Services (AWS) Simple Storage Service (S3). Additionally, these results were tabulated in an AWS-hosted database (through NDAR) to enable simple, efficient querying and data access. All of the code used to perform this analysis is publicly available on Github [https://github.com/FCP-INDI/ndar-dev]. Additionally, as a computing platform, we developed an Amazon Machine Image (AMI) that comes fully equipped to run this pipeline on any dataset. Using AWS Elastic Cloud Computing (EC2), users can launch our publicly available AMI ("C-PAC with benchmark", AMI ID: "ami-fee34296", N. Virginia region) and run the ANTs cortical thickness pipeline. The AMI is fully compatible with Sun Grid Engine as well; this enables users to perform many pipeline runs in parallel over a cluster-computing framework.6/1428Secondary AnalysisShared
A Gyrification Analysis Approach Based on Laplace Beltrami Eigenfunction Level-SetsAn accurate measure of the complexity of patterns of cortical folding or gyrification is necessary for understanding normal brain development and neurodevelopmental disorders. Conventional gyrification indices (GIs) are calculated based on surface curvature (curvature-based GI) or an outer hull surface of the cortex (outer surface-based GI). The latter is dependent on the definition of the outer hull surface and a correspondence function between surfaces. In the present study, we propose the Laplace Beltrami-based gyrification index (LB-GI), a new curvature-based local GI computed using the first three Laplace Beltrami eigenfunction level-sets, which addresses shortcomings of the existing methods. The LB-GI was applied to investigate the cortical maturation profile of the human brain from preschool to early adulthood using the PING database. The results showed both positive and negative associations of cortical folding with age and revealed more details in patterns of cortical folding than conventional curvature based methods. It is anticipated that the LB-GI will prove advantageous in large clinical neuroimaging studies. 3/1054Secondary AnalysisPrivate
Derivation of Quality Measures for Structural Images by Neuroimaging PipelinesUsing the National Database for Autism Research cloud platform, MRI data were analyzed using neuroimaging pipelines that included packages available as part of the Neuroimaging Informatics Tools and Resources Clearinghouse (NITRC) Computational Environment to derive standardized measures of MR image quality. Structural QA was performed according to Haselgrove, et al (http://journal.frontiersin.org/Journal/10.3389/fninf.2014.00052/abstract) to provide values for Signal to Noise (SNR) and Contrast to Noise (CNR) Ratios that can be compared between subjects within NDAR and between other public data releases.6/423Secondary AnalysisShared
Derivation of Brain Structure Volumes from MRI Neuroimages hosted by NDAR using NITRC-CEA draft publication is in progress. GitHub repository with code for working with NDAR Data is available here: https://github.com/chaselgrove/ndar **Note this study is ongoing; additional may be added.**6/356Secondary AnalysisShared
A human craniofacial life-course: cross-sectional morphological covariations during postnatal growth, adolescence, and agingCovariations between anatomical structures are fundamental to craniofacial ontogeny, maturation and aging and yet are rarely studied in such a cognate fashion. Here we offer a comprehensive investigation of the human craniofacial complex using freely available software and MRI datasets representing 575 individuals from 0 to 79 years old. We employ both standard craniometrics methods as well as Procrustes based analyses to capture and document cross-sectional trends. Findings suggest that anatomical structures behave primarily as modules, and manifest integrated patterns of shape change as they compete for space, particularly with relative expansions of the brain during early postnatal life and of the face during puberty. Sexual dimorphism was detected in infancy and intensified during adolescence with gender differences in the magnitude and pattern of morphological covariation as well as of aging. These findings partly support the spatial-packing hypothesis and reveal important insights into phenotypic adjustments to deep-rooted, and presumably genetically defined, trajectories of morphological size and shape change that characterise the normal human craniofacial life-course.1/308Secondary AnalysisShared
A growth curve of the human eye from 0-20 yearsThis study involves the semi automatic segmentation of the eyes of pediatric subjects for volume measurements1/173Secondary AnalysisPrivate
* Data not on individual level
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NDA Help Center

Collection - Associated Studies

Clicking on the Study Title will open the study details in a new internet browser tab. The Abstract is available for viewing, providing the background explanation of the study, as provided by the Collection Owner.

Primary v. Secondary Analysis: The Data Usage column will have one of these two choices. An associated study that is listed as being used for Primary Analysis indicates at least some and potentially all of the data used was originally collected by the creator of the NDA Study. Secondary Analysis indicates the Study owner was not involved in the collection of data, and may be used as supporting data.

Private v. Shared State: Studies that remain private indicate the associated study is only available to users who are able to access the collection. A shared study is accessible to the general public.

Frequently Asked Questions

  • How do I associate a study to my collection?
    Studies are associated to the Collection automatically when the data is defined in the Study.

Glossary

  • Associated Studies Tab
    A tab in a Collection that lists the NDA Studies that have been created using data from that Collection including both Primary and Secondary Analysis NDA Studies.
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