General Information about the 2023 NIH Data Management and Sharing Policy
UCSF
https://ucsflibrary.zendesk.com/hc/en-us/articles/4488341760279-NIH-2023-Data-Management-and-Sharing- Policy
NIH
https://sharing.nih.gov/data-management-and-sharing-policy/about-data-management-and-sharing- policies/data-management-and-sharing-policy-overview
Data Management Plan Templates for Grant Development
UCSF
Data Management Plan Template; General Research: https://ucsf.app.box.com/s/aumw7qfz2mhdadfyn6g2d3phqpn0oysv
UCSF
Data Management Plan Template; Clinical Research: https://ucsf.app.box.com/s/x2fif1fzzamv51m1e3rjbte33ikn8jv4
NIH
Data Management Plan Samples; Clinical, Human Genomic, and Non-Human Genomic: https://sharing.nih.gov/data-management-and-sharing-policy/planning-and-budgeting-for-data-management- and-sharing/writing-a-data-management-and-sharing-plan#sample-plans
Budget Guidance for Grant Development
UCSF
https://ucsf.app.box.com/s/k9huwnw1y3kuyt546ptlzg0gthpfjx9y
Data Sharing Repositories
Full List of Supported Repositories on NIH’s website
https://www.nlm.nih.gov/NIHbmic/nih_data_sharing_repositories.html
ImmPort – Immunology Database and Analysis Portal
ImmPort is funded by the NIH, NIAID, and DAIT in support of the NIH mission to share data with the public. Data shared through ImmPort has been provided by NIH-funded programs, other research organizations, and individual scientists ensureing these discoveries will be the foundation of future research.
Recommended use in the DEM: Immunology and Cytometry data.
ImmPort account is required for login
Tutorials: [email protected]
GEO – Gene Expression Omnibus
https://www.ncbi.nlm.nih.gov/geo/
GEO is an international public repository that archives and freely distributes microarray, next-generationn sequencing, and other forms of high-throughput functional genomics data submitted by the research community.
Recommended use in the DEM: Microarray, Next-gen sequencing, and other High-throughput function genomics data.
NCBI account if required for login
Tutorials: [email protected]
IEDB – Immune Epitope Database
Funded by NIAID. This repository contains antibody/B cell and T cell epitope information and epitope prediction and analysis tools for use by the research community worldwide. Immune epitopes are defined as molecular structures recognized by specific antigen receptors of the immune system, namely antibodies, B cell receptors, and T cell receptors. Immune epitopes from infectious diseases, excluding HIV, and immune-mediated diseases and the accompanying biological information are included.
Recommended use in the DEM: HLA typing data, T cell epitope data, B cell/antibody epitope data. Excludes data related to HIV.
Help Desk website: https://help.iedb.org/hc/en-us
Tutorials website: https://help.iedb.org/hc/en-us/sections/114094004331-Tutorials-and-Reference-Materials
IEDB account is required for login. https://dst.lji.org/Login.aspx
BV-BRC – Bacterial and Viral Bioinformatics Resource Center
The Bacterial and Viral Bioinformation Resource Center is one of two Bioinformatics Resource Center (BRCs) funded by the US NIAID. The BRCs for Infection Diseases program was initiated in 2004 with the main objective of providing public access to computational platforms and analysis tools that enable collecting, archiving, updated, and integrating a variety of genomics and related research data relevant to infectious diseases, and pathogens and their interactions with hosts.
TB Portals Program
https://tbportals.niaid.nih.gov
NIAID funded. The TB Portals Program actively collection international patient case data, including clinical. Imaging, and bacterial genomic information, from both drug-sensitive and resistant cases. These de-identified and integrated data are made publicly available after quality checks and physician-verification. Data within the TBU Portals are also linked to case-associated sputum samples stored locally. These samples can be used in additional research studies.
Cell Image Library
http://cellimagelibrary.org/pages/about
The Cell Image Library accepts image data sets that are too large for publishers to store, and provides access to the biomedical community. There are 10,000 datasets in 20TB of uploaded data as of mid-2018. The library inherits data from the Cell Centered Database at UCSD. Since its launch in 2010, the site has have 721,000 visitors and was cited by 175 research publications.
GenBank
https://www.ncbi.nlm.nih.gov/genbank
GenBank is the NIH genetic sequence database, an annotated collection of all publically available DNA sequence. GenBank is designed to provide and encourage access within the scientific community to the most up to date and comprehensive DNA sequence information.
Dryad
https://datadryad.org/stash or access via UCSF MyAccess
Dryad is a general purpose repository for a wide range of data types. Data can be submitted in any file format from any field of research. Data must be anonymized (i.e. no PHI) prior to upload.
https://ucsflibrary.zendesk.com/hc/en-us/articles/9656580509463-What-is-Dryad-
Recommended use in the DEM: Data types for which a specialized repository is not available. No data containing PHI.
UCSF credentials are required for login (via UC’s institutional Dryad account)
Guidance When Generating Data Containing PHI
UCSF
If it is possible to de-identify the data before sharing:
https://data.ucsf.edu/sharing-de-identified-data
UCSF
If it is not possible to de-identify the data before sharing:
Questions and Contact Info