NIMH Data Archive - Data

Genomics

Neuroimaging

Phenotype¹

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Clinical Trial

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

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.

Select	Experiment Id	Experiment Name	Experiment Type	Created On

24	HI-NGS_R1	Omics	02/16/2011
475	MB1-10 (CHOP)	Omics	06/07/2016
490	Discovery and CRISPR validation of genetic factors associated with antipsychotic-induced weight gain and cardiometabolic risk	Omics	07/07/2016
501	PharmacoBOLD Resting State	fMRI	07/27/2016
506	PVPREF	Omics	08/05/2016
509	ABC-CT Resting v2	EEG	08/18/2016
13	Comparison of FI expression in Autistic and Neurotypical Homo Sapiens	Omics	12/28/2010
18	AGRE/Broad Affymetrix 5.0 Genotype Experiment	Omics	01/06/2011
22	Stitching PCR Sequencing	Omics	02/14/2011
26	ASD_Methylation	Omics	03/01/2011
29	Microarray family 03 (father, mother, sibling)	Omics	03/24/2011
37	Standard paired-end sequencing of BCRs	Omics	04/19/2011
38	Illumina Mate-Pair BCR sequencing	Omics	04/19/2011
39	Custom Jumping Libraries	Omics	04/19/2011
40	Custom CapBP	Omics	04/19/2011
41	Immunofluorescence	Omics	05/11/2011
43	Autism brain sample genotyping, Illumina	Omics	05/16/2011
47	ARRA Autism Sequencing Collaboration at Baylor. SOLiD 4 System	Omics	08/01/2011
53	AGRE Omni1-quad	Omics	10/11/2011
59	AGP genotyping	Omics	04/03/2012
60	Ultradeep 454 sequencing of synaptic genes from postmortem cerebella of individuals with ASD and neurotypical controls	Omics	06/23/2012
63	Microemulsion PCR and Targeted Resequencing for Variant Detection in ASD	Omics	07/20/2012
76	Whole Genome Sequencing in Autism Families	Omics	01/03/2013
519	Resting	fMRI	11/08/2016
90	Genotyped IAN Samples	Omics	07/09/2013
91	NJLAGS Axiom Genotyping Array	Omics	07/16/2013
93	AGP genotyping (CNV)	Omics	09/06/2013
106	Longitudinal Sleep Study. H20 200. Channel set 2	EEG	11/07/2013
107	Longitudinal Sleep Study. H20 200. Channel set 3	EEG	11/07/2013
108	Longitudinal Sleep Study. AURA 200	EEG	11/07/2013
105	Longitudinal Sleep Study. H20 200. Channel set 1	EEG	11/07/2013
109	Longitudinal Sleep Study. AURA 400	EEG	11/07/2013
116	Gene Expression Analysis WG-6	Omics	01/07/2014
131	Jeste Lab UCLA ACEii: Charlie Brown and Sesame Street - Project 1	Eye Tracking	02/27/2014
132	Jeste Lab UCLA ACEii: Animacy - Project 1	Eye Tracking	02/27/2014
133	Jeste Lab UCLA ACEii: Mom Stranger - Project 2	Eye Tracking	02/27/2014
134	Jeste Lab UCLA ACEii: Face Emotion - Project 3	Eye Tracking	02/27/2014
145	AGRE/FMR1_Illumina.JHU	Omics	04/14/2014
146	AGRE/MECP2_Sanger.JHU	Omics	04/14/2014
147	AGRE/MECP2_Junior.JHU	Omics	04/14/2014
151	Candidate Gene Identification in familial Autism	Omics	06/09/2014
152	NJLAGS Whole Genome Sequencing	Omics	07/01/2014
154	Math Autism Study - Vinod Menon	fMRI	07/15/2014
155	Resting	fMRI	07/25/2014
156	Speech	fMRI	07/25/2014
159	Emotion	fMRI	07/25/2014
160	syllable contrast	EEG	07/29/2014
167	School-age naturalistic stimuli	Eye Tracking	09/19/2014
44	AGRE/Broad Affymetrix 5.0 Genotype Experiment	Omics	06/27/2011
45	Exome Sequencing of 20 Sporadic Cases of Autism Spectrum Disorder	Omics	07/15/2011

Collection - Add Experiment

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PsychENCODE Consortium #5032

General
Experiments (135)
Shared Data
Publications (724)
Data Expected (15)
Associated Studies (5)

Collection Title	Collection Investigators	Collection Description
Collection Title:	PsychENCODE Consortium
Collection Investigators:	Zhiping Weng; Mark Gerstein
Collection Description:	Established in 2015 by the National Institute of Mental Health (NIMH), the PsychENCODE Consortium (PEC) is a multi-site investigation of the genomic basis of neuropsychiatric diseases. The aim is to create a resource of mechanistic insights to guide future therapeutic development. Genomic influences on neural function are remarkably complex, characterized by a highly polygenic risk architecture and often located in the non-coding parts of the genome. A key objective of PEC is to delineate an enhanced framework of regulatory genomic elements associated with neuropsychiatric disorders. Multidisciplinary PEC teams are working to generate large-scale gene expression and regulatory data from human postmortem brains across several major psychiatric disorders. Brain tissue is characterized across multiple developmental stages and include bulk tissue, single cell, and sorted cell types. The goal is to map and functionally validate disease‐associated variants, regulatory elements, genes and cell types. Data from Phase I was presented in a collection of 11 papers published in Science, Science Translational Medicine, and Science Advances. This collection is summarized in the Science special issue "Revealing the brain's molecular architecture" . Phase II – which will enhance cellular and developmental resolution – is currently underway.
Data Repository:	NIMH Data Archive
Permission Group:
Collection Creation Date:	09/20/2023
Data Use Limitations:	The use of this data is limited to Health/Medical/Biomedical purposes, and does not include the study of population origins or ancestry (HMB). Requestor agrees to make results of studies using the data available to the larger scientific community (PUB). The use of this data includes methods development research (e.g. development and testing of software or algorithms).
NIH Research Initiative:	PsychENCODE Consortium
Collection Phase:	Enrolling
Blinded Clinical Trial:	No
Total Funded Amount:	$137,282,427.00
Subjects Shared:	4,667
Collection DOI:	10.15154/1g4m-dy13

{"values":[]}

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Funding Sources:

Funding Source Name	Funding Source URL
NIH - Extramural	None

Supporting Documentation:

Grant Information:

Project Number	Title	Start Date	Original End Date	End Date	Planned Enrollment	Actual Enrollment	Organization	Funds Obligated
U01MH103340-01	Genetic variants affect brain gene expression and risks of psychiatric disorders	06/10/2014	05/31/2017	05/31/2017	Not Reported	Not Reported	UNIVERSITY OF ILLINOIS AT CHICAGO	$2,464,072.00
U01MH103346-01	The USC PsychENCODE Project	06/15/2014	05/31/2017	05/31/2017	Not Reported	Not Reported	UNIVERSITY OF SOUTHERN CALIFORNIA	$1,462,501.00
U01MH103365-01	Gene regulatory elements and transcriptome in iPSCs and embryonic human cortex	06/15/2014	05/31/2017	05/31/2017	Not Reported	Not Reported	YALE UNIVERSITY	$1,462,340.00
U01MH103392-01	Cis-Regulatory Epigenome Mappings in Schizophrenia	06/15/2014	05/31/2017	05/31/2017	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$1,830,695.00
U01MH103339-01	Transcriptional and Epigenetic Signatures of Human Brain Development and Autism	06/15/2014	05/31/2017	05/31/2017	Not Reported	Not Reported	YALE UNIVERSITY	$3,387,402.00
R21MH102791-01	Establishing comprehensive and quantitative maps of DNA methylation in the develo	08/01/2014	07/31/2016	07/31/2017	Not Reported	Not Reported	LIEBER INSTITUTE, INC.	$595,750.00
R01MH105472-01	Decoding schizophrenia-From GWAS to functional regulatory variants	09/19/2014	06/30/2018	06/30/2018	Not Reported	Not Reported	DUKE UNIVERSITY	$1,573,679.00
P50MH106934-01	Functional Genomics of Human Brain Development	09/19/2014	07/31/2019	07/31/2019	Not Reported	Not Reported	YALE UNIVERSITY	$2,969,187.00
R21MH103877-01	GABA Epigenomes in Autism	09/26/2014	08/31/2016	08/31/2017	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$447,115.00
R21MH105881-01	Long non-coding RNAs in gene regulatory networks underlying Autism	12/01/2014	11/30/2016	11/30/2017	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$465,413.00
R01MH105898-01	RNA Sequencing of the Limbic System in Bipolar Disorder	09/01/2015	05/31/2019	02/28/2021	300	Not Reported	JOHNS HOPKINS UNIVERSITY	$3,137,397.00
R21MH105853-01	Decomposing cell type-specific marks in post-mortem human brain studies	09/03/2015	08/31/2017	08/31/2019	Not Reported	Not Reported	LIEBER INSTITUTE, INC.	$508,750.00
R21MH109956-01	Characterizing the developing human brain transcriptome at single-base resolution	05/01/2016	04/30/2018	04/30/2019	Not Reported	Not Reported	LIEBER INSTITUTE, INC.	$502,150.00
R01MH110905-01	2/2-Measuring translational dynamics and the proteome to identify potential brain biomarkers for psychiatric disease	07/08/2016	04/30/2020	04/30/2020	Not Reported	Not Reported	UNIVERSITY OF CHICAGO	$1,092,180.00
R01MH110920-01	1/2 Measuring translational dynamics and the proteome to identify potential brain biomakers for psychiatric disease	07/08/2016	04/30/2020	04/30/2021	Not Reported	Not Reported	UPSTATE MEDICAL UNIVERSITY	$2,049,505.00
R01MH110928-01	3/3 Integrative Genomic Analysis of Human Brain Development and Autism	07/21/2016	04/30/2020	04/30/2020	Not Reported	Not Reported	UNIVERSITY OF CALIFORNIA, SAN FRANCISCO	$1,294,456.00
R01MH110926-01	1/3 Integrative Genomic Analysis of Human Brain Development and Autism	07/21/2016	04/30/2020	04/30/2021	Not Reported	Not Reported	YALE UNIVERSITY	$3,204,238.00
R01MH109677-01	Risk genetic variants and cis regulation of gene expression in Bipolar Disorder	08/01/2016	05/31/2021	05/31/2021	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$2,617,098.00
R01MH110927-01	2/3 Integrative Genomic Analysis of Human Brain Development and Autism	08/10/2016	04/30/2020	04/30/2020	Not Reported	Not Reported	UNIVERSITY OF CALIFORNIA LOS ANGELES	$2,073,628.00
R01MH110921-01	Molecular Profiling of Schizophrenia	09/01/2016	12/31/2020	12/31/2020	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$5,122,345.00
R01MH111721-01	Integrative Genomics of the Corticolimbic Circuit in Major Depressive Disorder	09/06/2017	05/31/2022	05/31/2024	400	Not Reported	JOHNS HOPKINS UNIVERSITY	$4,163,018.00
R01MH109715-01	Mapping the role of long noncoding RNAs in gene regulatory networks in schizophrenia	12/01/2017	11/30/2022	11/30/2024	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$3,982,639.00
R01MH117406-01	The Spatiotemporal Landscape of the Human Brain Epitranscriptome	07/01/2018	03/31/2023	03/31/2025	Not Reported	Not Reported	WEILL MEDICAL COLL OF CORNELL UNIV	$3,311,487.00
U01MH116438-01	Massively parallel characterization of psychiatric disease associated regulatory elements in defined cell types	07/06/2018	03/31/2023	12/31/2023	Not Reported	Not Reported	UNIVERSITY OF CALIFORNIA, SAN FRANCISCO	$3,339,852.00
U01MH116488-01	1/2 Cell Type and Region-Specific Regulatory Networks in Human Brain Development and Disorders	07/06/2018	03/31/2023	03/31/2024	Not Reported	Not Reported	YALE UNIVERSITY	$6,470,162.00
U01MH116492-01	1/2 Discovery and validation of neuronal enhancers associated with the development of psychiatric disorders	07/06/2018	03/31/2023	03/31/2023	Not Reported	Not Reported	UNIV OF MASSACHUSETTS MED SCH WORCESTER	$3,650,615.00
R01MH117293-01	1/3 Understanding PTSD through Postmortem Targeted Brain Multi-omics	07/25/2018	04/30/2023	02/28/2030	Not Reported	Not Reported	UNIVERSITY OF TEXAS AT AUSTIN	$3,636,960.00
R01MH117292-01	Site 3/3, Understanding PTSD through Postmortem Targeted Brain Multiomics	07/25/2018	04/30/2023	02/28/2030	Not Reported	Not Reported	MCLEAN HOSPITAL	$4,059,932.00
R01MH117291-01	2/3 Understanding PTSD through Postmortem Targeted Brain Multi-omics	07/25/2018	04/30/2023	02/28/2030	Not Reported	Not Reported	LIEBER INSTITUTE, INC.	$4,418,548.00
R56MH114899-01	2/3 Chromatin regulation during brain development and in ASD	08/01/2018	07/31/2020	07/31/2020	Not Reported	Not Reported	MAYO CLINIC ROCHESTER	$129,927.00
U01MH116441-01	Dynamic RNA Modifications in human brain development and autism	08/01/2018	04/30/2023	04/30/2023	Not Reported	Not Reported	EMORY UNIVERSITY	$4,939,503.00
R56MH114901-01	3/3 Chromatin regulation during brain development and in ASD	08/01/2018	07/31/2021	07/31/2021	Not Reported	Not Reported	DUKE UNIVERSITY	$355,941.00
R56MH114911-01	1/3 Chromatin regulation during brain development and in ASD	08/03/2018	07/31/2020	07/31/2020	Not Reported	Not Reported	YALE UNIVERSITY	$550,583.00
U01MH116487-01	2/2 - Cell Type and Region-Specific Regulatory Networks in Human Brain Development and Disorders	08/15/2018	05/31/2023	05/31/2023	Not Reported	Not Reported	UNIVERSITY OF CALIFORNIA, SAN FRANCISCO	$2,279,704.00
U01MH116489-01	2/2 Discovery and validation of neuronal enhancers associated with the development of psychiatric disorders	08/17/2018	04/30/2023	04/30/2025	Not Reported	Not Reported	UNIVERSITY OF CALIFORNIA LOS ANGELES	$4,523,653.00
U01MH116442-01	The 3D genome in transcriptional regulation across the postnatal life span, with implications for schizophrenia and bipolar disorder	09/01/2018	05/31/2023	05/31/2024	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$5,895,770.00
U01DA048279-01	Functional genomic resource and integrative model of dopaminergic circuitry associated with psychiatric disease	05/01/2019	02/29/2024	02/29/2024	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$2,181,466.00
R01MH116529-01	Integrated, cell type specific functional genomics analyses of regulatory sequence elements and their dynamic interaction networks in neuropsychiatric brain tissues	06/20/2019	03/31/2024	03/31/2024	Not Reported	Not Reported	STANFORD UNIVERSITY	$6,965,362.00
R01MH121521-01	Isoform-level probabilistic transcriptome-wide association to undercover neurogenetic mechanisms underlying complex psychiatric traits	01/03/2020	11/30/2024	11/30/2025	Not Reported	Not Reported	UNIVERSITY OF PENNSYLVANIA	$3,367,214.00
U01MH122849-01	Spatial registration of gene expression in the human brain	05/01/2020	04/30/2022	04/30/2024	Not Reported	Not Reported	LIEBER INSTITUTE, INC.	$1,747,260.00
U01MH122590-01	2/3 High-resolution mapping of cell type-specific DNA (hydroxy)methylation in the human brain during postnatal development and in psychiatric disease	05/01/2020	02/28/2025	02/28/2027	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$2,180,793.00
U01MH122591-01	1/3 High-resolution mapping of cell type-specific DNA (hydroxy)methylation in the human brain during postnatal development and in psychiatric disease.	05/01/2020	02/28/2025	02/28/2026	Not Reported	Not Reported	UPSTATE MEDICAL UNIVERSITY	$789,640.00
U01MH122592-01	3/3 High-resolution mapping of cell type-specific DNA (hydroxy)methylation in the human brain during postnatal development and in psychiatric disease	05/01/2020	02/28/2025	02/28/2025	Not Reported	Not Reported	UNIVERSITY OF CALIFORNIA, SAN DIEGO	$656,659.00
U01MH122678-01	1/2 Identification and Validation of Expression Quantitative Trait Loci (eQTLs) in discrete cell types across human brain development	02/01/2021	11/30/2025	11/30/2025	Not Reported	Not Reported	YALE UNIVERSITY	$3,639,826.00
U01MH122681-01	2/2 - Identification and Validation of Expression Quantitative Trait Loci (eQTLs) in discrete cell types across human brain development	02/10/2021	05/31/2026	05/31/2027	Not Reported	Not Reported	UNIVERSITY OF OXFORD	$2,541,479.00
R01MH126393-01	Laminar dissection of cortical human brain gene expression in neuropsychiatric disorders	06/23/2021	03/31/2026	09/30/2026	Not Reported	Not Reported	LIEBER INSTITUTE, INC.	$3,916,231.00
R01MH125516-01	Assessing Genomic, Regulatory and Transcriptional Variation at Single Nuclei Resolution in the Brains of Individuals with Autism Spectrum Disorder	07/27/2021	05/31/2026	05/31/2027	Not Reported	Not Reported	UNIVERSITY OF CALIFORNIA, SAN FRANCISCO	$3,817,229.00
U01MH122509-01	Discovery and validation of genetic variation impacting the gene regulatory landscape during human cortical development	08/01/2021	04/30/2026	04/30/2026	Not Reported	Not Reported	UNIV OF NORTH CAROLINA CHAPEL HILL	$2,806,641.00
R01MH126459-01	Gene Expression Regulation in Brains of East Asian, African, and European Descent Explains Schizophrenia GWAS in Diverse Populations.	03/25/2022	01/31/2027	01/31/2027	Not Reported	Not Reported	UPSTATE MEDICAL UNIVERSITY	$3,694,152.00
R01MH129301-01	Sex-specific trajectories in epigenomic regulation of brain patterning	04/15/2022	01/31/2027	01/31/2027	Not Reported	Not Reported	YALE UNIVERSITY	$4,545,530.00
R21MH129817-01	Mapping human brain cell type-specific isoform usage in ASD	05/11/2022	04/30/2024	07/31/2025	Not Reported	Not Reported	ICAHN SCHOOL OF MEDICINE AT MOUNT SINAI	$464,750.00

Clinical Trials:

helpcenter.collection.general-tab

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 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/nda/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

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.
How do I know when a NDA Collection has been created?

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

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.
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.
Collection Title

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

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

Contact NDA Help Desk

ID	Name	Created Date	Status	Type
2498	Test Experiment: Please Disregard	03/04/2024	Approved	Omics
2501	ATACSeq_MouseHAL	03/05/2024	Approved	Omics
2502	rnaSeq_NHP-Chimpanzee	03/05/2024	Approved	Omics
2503	rnaSeq_NHP-Macaque	03/05/2024	Approved	Omics
2504	3Dchromatin_HI-C	03/06/2024	Approved	Omics
2505	rnaSeq_BipSeq	03/06/2024	Approved	Omics
2506	ATACSeq_BrainDev3D	03/06/2024	Approved	Omics
2507	rnaSeq_BrainDev3D	03/06/2024	Approved	Omics
2508	HI-C_BrainDev3D	03/06/2024	Approved	Omics
2509	ChIPSeq_BrainDev3D	03/06/2024	Approved	Omics
2510	ATACSeq_BrainGVEX	03/06/2024	Approved	Omics
2511	rnaSeq_BrainGVEX	03/06/2024	Approved	Omics
2512	RPPA_BrainGVEX	03/06/2024	Approved	Omics
2513	TMT_BrainGVEX	03/06/2024	Approved	Omics
2514	miRNASeq_BrainGVEX	03/06/2024	Approved	Omics
2515	WGS_BrainGVEX	03/06/2024	Approved	Omics
2516	rnaSeq_BrainSpan	03/06/2024	Approved	Omics
2517	ChIPSeq_BrainTF_2	03/06/2024	Approved	Omics
2518	ATACSeq_BrainTF	03/06/2024	Approved	Omics
2519	Methylation_BrainTF	03/06/2024	Approved	Omics
2520	rnaSeq_BrainTF	03/06/2024	Approved	Omics
2521	WGS_BrainTF	03/06/2024	Approved	Omics
2522	rnaSeq_BrainVar	03/06/2024	Approved	Omics
2523	WGS_BrainVar	03/06/2024	Approved	Omics
2524	rnaSeq_CMC	03/06/2024	Approved	Omics
2525	scrnaSeq_CMC	03/06/2024	Approved	Omics
2526	ChIPSeq_CNON	03/06/2024	Approved	Omics
2527	HI-C_CNON	03/06/2024	Approved	Omics
2528	NOMeseq_CNON	03/06/2024	Approved	Omics
2529	HI-C_DopaModel	03/06/2024	Approved	Omics
2530	rnaSeq_DopaModel	03/06/2024	Approved	Omics
2531	ChIPSeq_EpiDiff	03/06/2024	Approved	Omics
2532	ChIPSeq_EpiDiff-II	03/06/2024	Approved	Omics
2533	Bisulfite-Seq_EpiGABA	03/06/2024	Approved	Omics
2534	ChIPSeq_EpiGABA	03/06/2024	Approved	Omics
2535	ERRBS_EpiGABA	03/06/2024	Approved	Omics
2536	Methylation_EpiGABA	03/06/2024	Approved	Omics
2537	rnaSeq_EpiGABA	03/06/2024	Approved	Omics
2538	ChIPSeq_EpiMap	03/06/2024	Approved	Omics
2539	ATACSeq_HumanFC	03/06/2024	Approved	Omics
2540	Bisulfite-Seq_LIBD-WGBS	03/06/2024	Approved	Omics
2541	Bisulfite-Seq_LIBD-WGBS-SCZD	03/06/2024	Approved	Omics
2542	HI-C_MidbrainGenomics	03/06/2024	Approved	Omics
2543	Bisulfite-Seq_NeuMet	03/06/2024	Approved	Omics
2544	oxBSseq_NeuMet	03/06/2024	Approved	Omics
2545	ATACSeq_NeuREs	03/06/2024	Approved	Omics
2546	CUTTag_NeuREs	03/06/2024	Approved	Omics
2547	ChIPSeq_NeuREs	03/06/2024	Approved	Omics
2548	rnaSeq_NeuREs	03/06/2024	Approved	Omics
2549	scrnaSeq_NeuREs	03/06/2024	Approved	Omics
2550	scrnaSeq_SZBDMulti-Seq	03/06/2024	Approved	Omics
2551	rnaSeq_SingleCellRNAseq	03/06/2024	Approved	Omics
2552	ChIPSeq_UCLA-ASD	03/06/2024	Approved	Omics
2553	Methylation_UCLA-ASD	03/06/2024	Approved	Omics
2554	rnaSeq_UCLA-ASD	03/06/2024	Approved	Omics
2555	bulkrnaSeq_UCLA-ASD	03/06/2024	Approved	Omics
2556	mirnaSeq_UCLA-ASD	03/06/2024	Approved	Omics
2557	scATACSeq_UCLA-ASD	03/06/2024	Approved	Omics
2558	scrnaSeq_UCLA-ASD	03/06/2024	Approved	Omics
2559	WGBS_WGBS-Pilot	03/06/2024	Approved	Omics
2560	ChIPSeq_Yale-ASD	03/06/2024	Approved	Omics
2561	rnaSeq_Yale-ASD	03/06/2024	Approved	Omics
2562	WGBS_flowRNA-WGBS	03/06/2024	Approved	Omics
2563	ATACSeq_iPSC	03/06/2024	Approved	Omics
2564	ChIPSeq_iPSC	03/06/2024	Approved	Omics
2565	rnaSeq_iPSC	03/06/2024	Approved	Omics
2566	scrnaSeq_iPSC	03/06/2024	Approved	Omics
2567	ATACSeq_iPSC-ASD	03/06/2024	Approved	Omics
2568	HI-C_iPSC-HiC	03/07/2024	Approved	Omics
2569	Proteomics_iPSCNeuroDiff	03/07/2024	Approved	Omics
2570	rnaSeq_iPSCNeuroDiff	03/07/2024	Approved	Omics
2571	isoSeq_lncRNA-Pilot	03/07/2024	Approved	Omics
2572	rnaSeq_lncRNA-Pilot	03/07/2024	Approved	Omics
2573	ATACSeq_referenceBrain	03/07/2024	Approved	Omics
2574	Bisulfite-Seq_referenceBrain	03/07/2024	Approved	Omics
2575	ChIPSeq_referenceBrain	03/07/2024	Approved	Omics
2576	HI-C_referenceBrain	03/07/2024	Approved	Omics
2578	isoSeq_referenceBrain	03/07/2024	Approved	Omics
2579	rnaSeq_referenceBrain	03/07/2024	Approved	Omics
2580	RPPA_referenceBrain	03/07/2024	Approved	Omics
2581	ATACSeq_CMC_Controlled	03/07/2024	Approved	Omics
2582	ATACSeq_CMC_Open	03/07/2024	Approved	Omics
2583	snpArray_BipSeq	03/14/2024	Approved	Omics
2584	snpArray_LIBD-WGBS	03/14/2024	Approved	Omics
2585	RNASeq_CMC_Controlled	03/14/2024	Approved	Omics
2586	RNASeq_CMC_Open	03/14/2024	Approved	Omics
2588	SNP_CMC_Controlled	03/15/2024	Approved	Omics
2589	WGS_CMS_Controlled	03/15/2024	Approved	Omics
2591	WGS_LIBD-WGBS-SCZD	03/21/2024	Approved	Omics
2593	ChIPSeq_Capstone	03/25/2024	Approved	Omics
2594	RNASeq_Capstone	03/25/2024	Approved	Omics
2595	WGS_Capstone	03/25/2024	Approved	Omics
2596	RNASeq_PsychiPSCneurons	03/25/2024	Approved	Omics
2797	snpArray_EpiGABA	01/06/2025	Approved	Omics
2799	ATACSeq_BrainGVEX	01/06/2025	Approved	Omics
2800	ATACSeq_CMC	01/06/2025	Approved	Omics
2801	ATACSeq_HumanFC	01/07/2025	Approved	Omics
2802	Bisulfite-Seq_EpiGABA	01/07/2025	Approved	Omics
2859	Bisulfite-Seq_flowRNA_WGBS	02/17/2025	Approved	Omics
2860	EM-seq_BrainTF	02/17/2025	Approved	Omics
2871	ChIPSeq_BrainTF	02/24/2025	Approved	Omics
2872	CITESeq_snMultiRegionDevelopmentalTranscriptomics	02/24/2025	Approved	Omics
2873	HiChIPseq_iPSC-ASD	02/24/2025	Approved	Omics
2874	lentiMPRA_NeuREs	02/24/2025	Approved	Omics
2875	lncrnaSeq_ASD-lncRNA	02/24/2025	Approved	Omics
2876	long-read-rnaSeq_MultiomeBrain	02/24/2025	Approved	Omics
2877	long-read-rnaSeq_UCLA-DevCtx	02/24/2025	Approved	Omics
2878	m6A-rnaSeq_m6A-seqAutism	02/24/2025	Approved	Omics
2879	oxBS-Seq_EpiGABA	02/24/2025	Approved	Omics
2880	Ribo-Seq_BrainGVEX	02/24/2025	Approved	Omics
2881	rnaSeq_CMC_HBCC	02/25/2025	Approved	Omics
2882	rnaSeq_EpiMap	02/25/2025	Approved	Omics
2883	rnaSeq_LIBD_szControl	02/25/2025	Approved	Omics
2884	rnaSeq_MDDseq	02/25/2025	Approved	Omics
2885	scATACseq_MultiomeBrain	02/25/2025	Approved	Omics
2886	snRNAseq_DevBrain	03/03/2025	Approved	Omics
2887	scRNAseq_IsoHuB	03/03/2025	Approved	Omics
2888	scRNAseq_LIBD_U01_DLPFC	03/03/2025	Approved	Omics
2889	scRNAseq_MultiomeBrain	03/03/2025	Approved	Omics
2890	scRNAseq_PTSDBrainomics	03/03/2025	Approved	Omics
2891	scRNAseq_scOrganomics	03/03/2025	Approved	Omics
2892	scRNAseq_SingleCellRNAseq	03/03/2025	Approved	Omics
2893	snpArray_BrainGVEX	03/03/2025	Approved	Omics
2894	snpArray_BrainSpan	03/03/2025	Approved	Omics
2895	snpArray_IsoHuB	03/03/2025	Approved	Omics
2896	snpArray_LIBD_U01_DLPFC	03/03/2025	Approved	Omics
2897	snpArray_MDDseq	03/03/2025	Approved	Omics
2898	imputedGenotypes_brainSCOPE	03/03/2025	Approved	Omics
2899	snpArray_PTSDBrainomics	03/03/2025	Approved	Omics
2900	snpArray_SZBDMulti-Seq	03/03/2025	Approved	Omics
2901	snpArray_UCLA-ASD	03/03/2025	Approved	Omics
2902	STARRSeq_NeuEnhancer	03/03/2025	Approved	Omics
2903	WGS_MultiomeBrain	03/03/2025	Approved	Omics
2904	MPRA_iPSC-ASD	03/03/2025	Approved	Omics
2938	Archive	04/29/2025	Approved	Omics

helpcenter.collection.experiments-tab

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.

Contact NDA Help Desk

Shared Data:

Title	Type	Number of Subjects
ATAC Sequencing	Genomics	3015
Bisulfite Sequencing	Genomics	137
ChIP Sequencing	Genomics	706
High-throughput Chromosome Conformation Capture (Hi-C)	Genomics	110
Nucleosome Occupancy and Methylome Sequencing (NOMe-seq)	Genomics	65
Proteomics Samples	Genomics	666
PsychENCODE/Common Mind Summary	Clinical Assessments	1884
RNA Sequencing	Genomics	2875
SNP Array	Genomics	1631
Whole Genome Sequencing	Genomics	658

helpcenter.collection.shared-data-tab

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 Study is viewable and searchable publicly regardless of the user's role or whether the user has an NDA account. A Shared NDA Study does not necessarily mean that data 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.

Contact NDA Help Desk

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 ID	Study	Title	Journal	Authors	Date	Status
42624107	Create Study	Morphogen-guided neocortical organoids with anteroposterior areal identity.	Cell stem cell	Tsai, Yuan-Chen; Ozaki, Hajime; Almet, Axel A; Fleming, Isabel; Nie, Caihao; Luo, Songhao; Wang, Xinyi; Shiraiwa, Kaori; Noh, Matthew Jung Min; Trejo, Sunnyana; Sugita, Bret Kiyoshi; Dalal, Jiya; Gonzalez, Ruben Alberto; De Jesus, Briana; Branco, Nate; Chen, Gregory Li-Min; Gandal, Michael J; Nie, Qing; Watanabe, Momoko	September 3, 2026	Not Determined
42523206	Create Study	A consensus atlas of human brain development defines cell type-specific maturation trajectories across the lifespan.	bioRxiv : the preprint server for biology	Venkatesan, Sridevi; Nano, Patricia; Werner, Jonathan; Malaiya, Sonia; Herb, Brian; Gao, Yuan; Wang, Li; Bhaduri, Aparna; Nowakowski, Tomasz J; Colantuoni, Carlo; Ament, Seth A; Gillis, Jesse	July 17, 2026	Not Determined
42463696	Create Study	Single-nucleus analysis of the adult human olfactory epithelium uncovers shared neurogenesis programs with the brain.	Nature communications	Song, Liting; Fullard, John F; Coleman, Claire; Hennigan, Evelyn; Casey, Clara; Wang, Xinyi; Kawatake-Kuno, Ayako; Argyriou, Stathis; Kleopoulos, Steven; DeMaria, Samuel; Bendl, Jaroslav; Iloreta, Alfred Marc; Dong, Pengfei; Roussos, Panos	July 17, 2026	Not Determined
42432160	Create Study	Neuronal genetic risk within the multicellular landscape of schizophrenia.	Neuropsychopharmacology : official publication of the American College of Neuropsychopharmacology	Kwon, Sang Ho; Martinowich, Keri	July 10, 2026	Not Determined
42401576	Create Study	Multi-ancestry gene expression models amplify transcriptome-wide association study discovery and validation.	Nature communications	Bledsoe, Xavier; Watkins, Nathan; Bowen-Moore, Tavian; Shaw, Marlisa; Shah, Ravi V; Gamazon, Eric R	July 4, 2026	Not Determined
42395560	Create Study	Fine mapping of PTSD GWAS reveals a role for amygdala Foxp2 in regulation of fear and threat responses.	bioRxiv : the preprint server for biology	Ponomareva, O; Seabrook, L T; Maya-Martinez, M; Klengel, C; Balakundi, V; Kini, S; Catt, E; Zion, J; Shah, R; Martinez, P; Hernandez, E; Beatty, Z; Millet, M S; Flanagan-Burt, Q; Lussier, A A; Nievergelt, C M; Maihofer, A X; Koenen, K; PTSD Working Group of Psychiatric Genomics Consortium; PsychENCODE PTSD BrainOmics Project; Kleinman, J E; Suh, J; Carlezon Jr, W A; Daskalakis, N P; Ressler, K J	June 26, 2026	Not Determined
42263412	Create Study	Beyond the gene: isoform diversity as a key contributor to human brain disorders.	Current opinion in genetics & development	Ma, Yunlong; Jops, Connor; Gandal, Michael J	August 1, 2026	Not Determined
42155452	Create Study	Translatome profiling reveals opposing alterations in inhibitory and excitatory neurons of fragile X mice and identifies EPAC2 as a therapeutic target.	Neuron	Suresh, Anand; Kourdougli, Nazim; Nomura, Toshihiro; Buth, Jessie E; Miranda-Rottmann, Soledad; Sánchez-León, Carlos A; Wu, Michelle W; Nelson, Sofia M; Wall, Lauren T; Tran, Anne T; Araya, Roberto; Contractor, Anis; Gandal, Michael J; Portera-Cailliau, Carlos	September 16, 2026	Not Determined
42094142	Create Study	Combinatorial effects of gene dosage, polygenic background and environment on complex traits.	medRxiv : the preprint server for health sciences	Sacks, Molly F; Klein, Marieke; Bigdeli, Tim B; Kals, Mart; Oetjens, Matthew T; Bénitière, Florian; Johnson, Jacquelyn; Maihofer, Adam; Nõukas, Margit; Francis, Michael; Gorman, Bryan; Said, Iskander; Genovese, Giulio; Voloudakis, Georgios; Markianos, Kyriacos; Stein, Murray; Gelernter, Joel; Ledbetter, David H; Nievergelt, Caroline M; Martin, Christa Lese; Bourque, Vincent-Raphaël; Shanta, Omar; MacDonald, Jeffrey R; Thiruvahindrapuram, Bhooma; Ahangari, Mamad; Srinivasan, Anjali; Guevara, James; Hall, Jessica H; Haddon, Josephine E; Vingerhoets, Claudia; Linden, David; van Haelst, Mieke M; van den Bree, Marianne B M; Bearden, Carrie E; Gur, Raquel E; Crowley, T Blaine; McGinn, Daniel E; Emanuel, Beverly S; Zackai, Elaine H; Swillen, Ann; van Amelsvoort, Thérèse; Vorstman, Jacob; Bassett, Anne S; McDonald-McGinn, Donna M; Roussos, Panos; Aslan, Mihaela; Harvey, Philip D; Million Veteran Program, Estonian Biobank Research Team; Genes to Mental Health Network; Jacquemont, Sébastien; Pyarajan, Saiju; Lehto, Kelli; Visscher, Peter M; Sebat, Jonathan	May 1, 2026	Not Determined
42026031	Create Study	Augmenting extinction with counterconditioning strengthens and sustains neural safety representations in PTSD.	Translational psychiatry	Cooper, Samuel E; Keller, Nicole E; Bauer, Elizabeth A; Lambert, Sydney R; Hennings, Augustin C; Azar, Ameera A; Bibb, Sophia A; Nemeroff, Charles B; Cisler, Josh M; Lewis-Peacock, Jarrod A; Dunsmoor, Joseph E	April 23, 2026	Not Determined
41997475	Create Study	Can Psychiatric Genetics Advance Without Incorporating a Life Course Perspective?	Biological psychiatry	Dennis, Jessica K; Thorpe, Hayley H A; Choi, Karmel W; Courchesne-Krak, Natasia S; Miller, Alex P; Johnson, Emma C; Makowski, Carolina; Chen, Chi-Hua; Khokhar, Jibran Y; Doyle, Alysa E; Gandal, Michael J; Dick, Danielle M; Dunn, Erin C; Davis, Lea K; Agrawal, Arpana; Sanchez-Roige, Sandra	April 15, 2026	Not Determined
41942462	Create Study	Downregulated transcription in chromosomal domains of midbrain dopamine neurons linked to schizophrenia.	Nature communications	Singh, Swadha; Iskhakova, Marina; Lambert, Tova Y; Valada, Aditi; Shokrian, Neda; Evans, Viviana; Bendl, Jaroslav; Auluck, Pavan K; Marenco, Stefano; Wang, Minghui; Zhang, Bin; Hoffman, Gabriel E; Girdhar, Kiran; Roussos, Panos; Akbarian, Schahram	April 6, 2026	Not Determined
41875888	Create Study	Pan-neurodegeneration proteomics reveals disease subtypes and molecular signatures.	Cell	Shrestha, Him K; Sun, Huan; Yarbro, Jay M; Lee, DongGeun; Liu, Danting; Wang, Erming; McReynolds, Meghan; Zhang, Nan; Xie, Boer; Yang, Shu; Yu, Kaiwen; Poudel, Suresh; Li, Yuxin; Yuan, Zuo-Fei; Kong, Dehui; Wang, Minghui; Wang, Zhen; Niu, Mingming; Wang, Hong; Zaman, Masihuz; Wang, Ju; Vanderwall, David R; Sun, Yu; Wu, Zhiping; Chen, Ping-Chung; Bai, Bing; High, Anthony A; Faura, Júlia; Liu, Chunyu; Bennett, David A; Johnson, Erik C B; Seyfried, Nicholas T; Levey, Allan I; Haroutunian, Vahram; Serrano, Geidy E; Beach, Thomas G; DeTure, Michael; Kanekiyo, Takahisa; Petersen, Ronald C; Bu, Guojun; McLean, Pamela J; Dickson, Dennis W; Rademakers, Rosa; Yu, Gang; Wang, Xusheng; Zhang, Bin; Peng, Junmin	May 14, 2026	Not Determined
41831411	Create Study	Integrating multiomic layers to decode psychiatric disease mechanisms.	Current opinion in genetics & development	Sheu, Lyra; Girdhar, Kiran; Roussos, Panos	June 1, 2026	Not Determined
41757081	Create Study	Mapping spatially organized molecular and genetic signatures of schizophrenia across multiple scales in human prefrontal cortex.	bioRxiv : the preprint server for biology	Kwon, Sang Ho; Guo, Boyi; Fang, Cindy; Tippani, Madhavi; Bach, Svitlana V; Miller, Ryan A; Maguire, Sarah E; Iatrou, Artemis; Pertea, Geo; Eagles, Nicholas J; Valentine, Madeline R; Oh, Seyun; Jajoo, Aarti; Balakundi, Vijetha; Du, Yufeng; Nguyen, Annie B; Zhang, Ruth; Kaipa, Uma M; Divecha, Heena R; Lobana, Jashandeep S; Kleinman, Joel E; Han, Shizhong; Daskalakis, Nikolaos P; Hyde, Thomas M; Collado-Torres, Leonardo; Page, Stephanie C; Maynard, Kristen R; Hicks, Stephanie C; Martinowich, Keri	February 16, 2026	Not Determined
41757014	Create Study	Postnatal conversion of methylcytosine to hydroxymethylcytosine reconfigures the human neuronal epigenome.	bioRxiv : the preprint server for biology	Xu, Heng; Chien, Jo-Fan; Kozlenkov, Alexey; Vadukapuram, Ramu; Li, Junhao; Wei, Yu; Dwork, Andrew J; Liu, Chunyu; Dracheva, Stella; Mukamel, Eran A	February 19, 2026	Not Determined
41639050	Create Study	Several novel classes of small regulatory RNAs show widespread changes in schizophrenia and bipolar disorder and extensive linkages to critical brain processes.	Translational psychiatry	Nersisyan, Stepan; Loher, Phillipe; Nazeraj, Iliza; Shao, Zhiping; Fullard, John F; Voloudakis, Georgios; Girdhar, Kiran; Roussos, Panos; Rigoutsos, Isidore	February 4, 2026	Not Determined
41611887	Create Study	Developmental convergence and divergence in human stem cell models of autism.	Nature	Gordon, Aaron; Yoon, Se-Jin; Bicks, Lucy K; Martín, Jacqueline M; Pintacuda, Greta; Arteaga, Stephanie; Wamsley, Brie; Guo, Qiuyu; Elahi, Lubayna; Dolmetsch, Ricardo E; Bernstein, Jonathan A; O'Hara, Ruth; Hallmayer, Joachim F; Lage, Kasper; Pasca, Sergiu P; Geschwind, Daniel H	March 1, 2026	Not Determined
41412064	Create Study	PsychENCODE at 10: From genomic maps to mechanistic insights in mental illness.	Neuron	Roussos, Panos; Vaccarino, Flora M; Weng, Zhiping; Sestan, Nenad; Gerstein, Mark; Geschwind, Daniel H	December 17, 2025	Not Determined
41394650	Create Study	High cell-type specificity of eQTLs revealed by single-nucleus analyses of brain and blood.	bioRxiv : the preprint server for biology	Vochteloo, Martijn; Kooijmans, Anoek; Bakker, Joost; Oelen, Roy; Niewold, Jelmer; Kaptijn, Dan; Bonder, Marc Jan; van der Wijst, Monique; Huang, Yunfeng; Bryois, Julien; Tsai, Ellen A; Franke, Lude; Westra, Harm-Jan	November 28, 2025	Not Determined
41372416	Create Study	Mapping the genetic landscape across 14 psychiatric disorders.	Nature	Grotzinger, Andrew D; Werme, Josefin; Peyrot, Wouter J; Frei, Oleksandr; de Leeuw, Christiaan; Bicks, Lucy K; Guo, Qiuyu; Margolis, Michael P; Coombes, Brandon J; Batzler, Anthony; Pazdernik, Vanessa; Biernacka, Joanna M; Andreassen, Ole A; Anttila, Verneri; Børglum, Anders D; Breen, Gerome; Cai, Na; Demontis, Ditte; Edenberg, Howard J; Faraone, Stephen V; Franke, Barbara; Gandal, Michael J; Gelernter, Joel; Hatoum, Alexander S; Hettema, John M; Johnson, Emma C; Jonas, Katherine G; Knowles, James A; Koenen, Karestan C; Maihofer, Adam X; Mallard, Travis T; Mattheisen, Manuel; Mitchell, Karen S; Neale, Benjamin M; Nievergelt, Caroline M; Nurnberger, John I; O'Connell, Kevin S; Peterson, Roseann E; Robinson, Elise B; Sanchez-Roige, Sandra S; Santangelo, Susan L; Scharf, Jeremiah M; Stefansson, Hreinn; Stefansson, Kari; Stein, Murray B; Strom, Nora I; Thornton, Laura M; Tucker-Drob, Elliot M; Verhulst, Brad; Waldman, Irwin D; Walters, G Bragi; Wray, Naomi R; Yu, Dongmei; Anxiety Disorders Working Group of the Psychiatric Genomics Consortium; Attention-Deficit/Hyperactivity Disorder (ADHD) Working Group of the Psychiatric Genomics Consortium; Autism Spectrum Disorders Working Group of the Psychiatric Genomics Consortium; Bipolar Disorder Working Group of the Psychiatric Genomics Consortium; Eating Disorders Working Group of the Psychiatric Genomics Consortium; Major Depressive Disorder Working Group of the Psychiatric Genomics Consortium; Nicotine Dependence GenOmics (iNDiGO) Consortium; Obsessive-Compulsive Disorder and Tourette Syndrome Working Group of the Psychiatric Genomics Consortium; Post-Traumatic Stress Disorder Working Group of the Psychiatric Genomics Consortium; Schizophrenia Working Group of the Psychiatric Genomics Consortium; Substance Use Disorders Working Group of the Psychiatric Genomics Consortium; Lee, Phil H; Kendler, Kenneth S; Smoller, Jordan W	January 1, 2026	Not Determined
41366183	Create Study	Multi-region m6A epitranscriptome profiling of the human brain reveals spatial and temporal variation and enrichment of disease-associated loci.	Nature neuroscience	Shafik, Andrew M; Peng, Yong; Zhang, Zijie; Chang, Chen; Wang, Pingluan; Lim, Junghwa; Song, Hongjun; He, Chuan; Chen, Mengjie; Jin, Peng	January 1, 2026	Not Determined
41356351	Create Study	Dopamine receptor 1-expressing cells in the ventral hippocampus encode cocaine-context associations.	Research square	Kondev, Veronika; Godino, Arthur; Kipp, Brian T; Hennigan, Evelyn; Casey, Clara; Patel, Vishwendra; Naguib, Sarah; Ripp, Adam; Abroon, Jacob; Kahn, Liz; Racine, Isla; Chen, Earnest P; Blaschke, Clementine; Minier-Toribio, Angelica; Estill, Molly; LaBanca, Alexa; Gan, Li; Fullard, John F; Roussos, Panos; Nestler, Eric J	November 25, 2025	Not Determined
41332620	Create Study	Orchestrating Spatial Transcriptomics Analysis with Bioconductor.	bioRxiv : the preprint server for biology	Crowell, Helena L; Dong, Yixing; Billato, Ilaria; Cai, Peiying; Emons, Martin; Gunz, Samuel; Guo, Boyi; Li, Mengbo; Mahmoud, Alexandru; Manukyan, Artür; Pagès, Hervé; Panwar, Pratibha; Rao, Shreya; Sargeant, Callum J; Kern, Lori Shepherd; Ramos, Marcel; Sun, Jieran; Totty, Michael; Carey, Vincent J; Chen, Yunshun; Collado-Torres, Leonardo; Ghazanfar, Shila; Hansen, Kasper D; Martinowich, Keri; Maynard, Kristen R; Patrick, Ellis; Righelli, Dario; Risso, Davide; Tiberi, Simone; Waldron, Levi; Gottardo, Raphael; Robinson, Mark D; Hicks, Stephanie C; Weber, Lukas M	November 21, 2025	Not Determined
41315269	Create Study	Impact of common variants on brain gene expression from RNA to protein to schizophrenia risk.	Nature communications	Liang, Qiuman; Jiang, Yi; Shieh, Annie W; Zhou, Dan; Chen, Rui; Wang, Feiran; Xu, Meng; Niu, Mingming; Wang, Xusheng; Pinto, Dalila; Wang, Yue; Cheng, Lijun; Vadukapuram, Ramu; Zhang, Chunling; Grennan, Kay; Giase, Gina; White, Kevin P; Peng, Junmin; Li, Bingshan; Liu, Chunyu; Chen, Chao; Wang, Sidney H	November 28, 2025	Not Determined

helpcenter.collection.publications-tab

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.

Contact NDA Help Desk

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.

For NIMH HIV-related research that involves human research participants: Select the dictionary or dictionaries most appropriate for your research. If your research does not require all three data dictionaries, just ignore the ones you do not need. There is no need to delete extra data dictionaries from your NDA Collection. You can adjust the Targeted Enrollment column in the Data Expected tab to “0” for those unnecessary data dictionaries. At least one of the three data dictionaries must have a non-zero value.

Data Expected	Targeted Enrollment	Initial Submission	Initial Share	Status
Genomics/omics	3,200	03/14/2024	07/14/2024	Approved
Research Subject and Pedigree	1	01/15/2019	05/15/2019	Approved
NIH Data Use Limitations	3,200	03/14/2024	07/14/2024	Approved

To create your project's Data Expected list, use the "+New Data Expected" to add or request existing structures and to request new Data Structures that are not in the NDA Data Dictionary.

If the Structure you need already exists, locate it and specify your dates and enrollment when adding it to your Data Expected list. If you require changes to the Structure you need, select the indicator stating "No, it requires changes to meet research needs," and upload a file containing your requested changes.

If the structure you need is not yet defined in the Data Dictionary, you can select "Upload Definition" and attach the necessary materials to request its creation.

When selecting the expected dates for your data, make sure to follow the standard Data Sharing Regimen and choose dates within the date ranges that correspond to your project start and end dates.

Please visit the Completing Your Data Expected Tutorial for more information.

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 Expected	Targeted Enrollment	Initial Submission	Subjects Submitted	Initial Share	Subjects Shared	Status
Summary	3,200	03/18/2024	185	07/18/2024	0	Approved
Hi-C	3,200	03/14/2024	134	07/14/2024	110	Approved
Bisulfite Sequencing	3,200	03/14/2024	336	07/14/2024	137	Approved
ChIP Sequencing	3,200	03/14/2024	1,295	07/14/2024	706	Approved
SNP Array	3,200	03/14/2024	3,158	07/14/2024	1,631	Approved
RNA Sequencing	3,200	03/14/2024	3,647	07/14/2024	2,875	Approved
Whole Genome Sequencing	3,200	03/14/2024	679	07/14/2024	658	Approved
ATAC Sequencing	3,200	03/08/2024	3,022	07/08/2024	3,015	Approved
Proteomics samples	3,200	03/14/2024	671	07/14/2024	666	Approved
PsychENCODE/Common Mind Summary	3,200	03/18/2024	5,168	07/18/2024	1,884	Approved
Nucleosome Occupancy and Methylome Sequencing	3,200	03/14/2024	69	07/14/2024	65	Approved
PsychENCODE NOMe Sequencing	100	03/13/2024	0	07/13/2024	0	Requested New

Structure not yet defined

No Status history for this Data Expected has been recorded yet

helpcenter.collection.data-expected-tab

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.

Researchers who are starting their project need to update their Data Expected list to include all the Data Structures they are collecting under their grant and set their initial submission and sharing schedule according to the NDA Data Sharing Regimen.

To add existing Data Structures from the Data Dictionary, to request new Data Structure that are not in the Dictionary, or to request changes to existing Data Structures, click "+New Data Expected".

For step-by-step instructions on how to add existing Data Structures, request changes to an existing Structure, or request a new Data Structure, please visit the Completing Your Data Expected Tutorial.

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.

Contact NDA Help Desk

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 NameFilter by Study Name	DOIFilter by DOI	AbstractFilter by Abstract	Collection/Study SubjectsFilter by Collection/Study Subjects	Data UsageFilter by Data Usage	StateFilter by State
Cross-ancestry atlas of gene, isoform, and splicing regulation in the developing human brain.	10.15154/7wf7-3479	Neuropsychiatric genome-wide association studies (GWASs), including those for autism spectrum disorder and schizophrenia, show strong enrichment for regulatory elements in the developing brain. However, prioritizing risk genes and mechanisms is challenging without a unified regulatory atlas. Across 672 diverse developing human brains, we identified 15,752 genes harboring gene, isoform, and/or splicing quantitative trait loci, mapping 3739 to cellular contexts. Gene expression heritability drops during development, likely reflecting both increasing cellular heterogeneity and the intrinsic properties of neuronal maturation. Isoform-level regulation, particularly in the second trimester, mediated the largest proportion of GWAS heritability. Through colocalization, we prioritized mechanisms for about 60% of GWAS loci across five disorders, exceeding adult brain findings. Finally, we contextualized results within gene and isoform coexpression networks, revealing the comprehensive landscape of transcriptome regulation in development and disease.	485/485	Primary Analysis	Shared
Cross-ancestry, cell-type-informed atlas of gene, isoform, and splicing regulation in the developing human brain.	10.15154/82za-1n05	Genomic regulatory elements active in the developing human brain are notably enriched in genetic risk for neuropsychiatric disorders, including autism spectrum disorder (ASD), schizophrenia, and bipolar disorder. However, prioritizing the specific risk genes and candidate molecular mechanisms underlying these genetic enrichments has been hindered by the lack of a single unified large-scale gene regulatory atlas of human brain development. Here, we uniformly process and systematically characterize gene, isoform, and splicing quantitative trait loci (xQTLs) in 672 fetal brain samples from unique subjects across multiple ancestral populations. We identify 15,752 genes harboring a significant xQTL and map 3,739 eQTLs to a specific cellular context. We observe a striking drop in gene expression and splicing heritability as the human brain develops. Isoform-level regulation, particularly in the second trimester, mediates the greatest proportion of heritability across multiple psychiatric GWAS, compared with eQTLs. Via colocalization and TWAS, we prioritize biological mechanisms for ~60% of GWAS loci across five neuropsychiatric disorders, nearly two-fold that observed in the adult brain. Finally, we build a comprehensive set of developmentally regulated gene and isoform co-expression networks capturing unique genetic enrichments across disorders. Together, this work provides a comprehensive view of genetic regulation across human brain development as well as the stage-and cell type-informed mechanistic underpinnings of neuropsychiatric disorders.	158/158	Primary Analysis	Shared
Single-nucleus multiome analysis in the human prefrontal cortex identifies gene expression and cis-regulatory elements associated with aging	10.15154/17tr-qz43	Aging is an unavoidable part of life, but gaps still remain in the understanding of age-associated molecular changes within the brain. We generated single-nucleus multiome ATAC plus gene expression profiles in 357 human brain samples from European and African admixed ancestry individuals ranging from 15 to 100 years old. The final dataset consisted of paired transcriptomic and epigenomic profiles for over 1.5 million cells. These were classified into seven major cell types using canonical marker genes, and each type was analyzed for features associated with aging. Open chromatin regions were correlated with transcription factor expression to identify age-associated regulatory networks, and co-accessibility identified linked peaks and genes, revealing a catalog of putative cis-regulatory elements by cell type. These multiomic data serve as a resource to characterize transcriptional regulation by cell type and generate hypotheses about how these distinct profiles both influence and are influenced by aging and disease.	132/155	Primary Analysis	Shared
Molecular cascades and cell type-specific signatures in ASD revealed by single-cell genomics	10.15154/9amm-vr95	Genomic profiling in postmortem brain from autistic individuals has consistently revealed convergent molecular changes. What drives these changes and how they relate to genetic susceptibility in this complex condition are not well understood. We performed deep single-nucleus RNA sequencing (snRNA-seq) to examine cell composition and transcriptomics, identifying dysregulation of cell type-specific gene regulatory networks (GRNs) in autism spectrum disorder (ASD), which we corroborated using single-nucleus assay for transposase-accessible chromatin with sequencing (snATAC-seq) and spatial transcriptomics. Transcriptomic changes were primarily cell type specific, involving multiple cell types, most prominently interhemispheric and callosal-projecting neurons, interneurons within superficial laminae, and distinct glial reactive states involving oligodendrocytes, microglia, and astrocytes. Autism-associated GRN drivers and their targets were enriched in rare and common genetic risk variants, connecting autism genetic susceptibility and cellular and circuit alterations in the human brain.	67/67	Primary Analysis	Shared
Characterization of enhancer activity in early human neurodevelopment using Massively Parallel Reporter Assay (MPRA) and forebrain organoids.	10.15154/gswj-jk47	Regulation of gene expression through enhancers is one of the major processes shaping the structure and function of the human brain during development. High-throughput assays have predicted thousands of enhancers involved in neurodevelopment, and confirming their activity through orthogonal functional assays is crucial. Here, we utilized Massively Parallel Reporter Assays (MPRAs) in stem cells and forebrain organoids to evaluate the activity of ~ 7000 gene-linked enhancers previously identified in human fetal tissues and brain organoids. We used a Gaussian mixture model to evaluate the contribution of background noise in the measured activity signal to confirm the activity of ~ 35% of the tested enhancers, with most showing temporal-specific activity, suggesting their evolving role in neurodevelopment. The temporal specificity was further supported by the correlation of activity with gene expression. Our findings provide a valuable gene regulatory resource to the scientific community.	20/20	Primary Analysis	Shared

* Data not on individual level

helpcenter.collection.associated-studies-tab

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.

Contact NDA Help Desk

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