Dental Data: Repositories, by Topic

The goal of BioLINCC is to facilitate and coordinate the existing activities of the NHLBI Biorepository and the Data Repository and to expand their scope and usability to the scientific community through a single web-based user interface.

NDEx is an online commons where scientists can upload, share, and publicly distribute biological networks and pathway models. The NDEx Project maintains a web-accessible public server, a documentation website, provides seamless connectivity to Cytoscape as well as programmatic access using a variety of languages including Python and Java. NDEx  users can easily create accounts or sign in using their Google credentials thanks to  the supported open authentication (OAUTH2) method  and mint DOIs for their networks to use in publications or include in other resources for long term access. 

ClinicalTrials.gov is a registry and results database of publicly and privately supported clinical studies of human participants conducted around the world.

TrialShare is a transformative approach to data-sharing that enables clinical trial transparency. TrialShare provides clinical trial investigators the unprecedented ability to access de-identified study data, review published analysis methods, and perform real-time, interactive graphical analyses in collaboration with other researchers

DSDR is a data sharing project providing curation and archiving services for the demographic and population sciences community. 

The NCS Archive, a data and sample repository for the National Children’s Study, provides access to data and samples collected from over 5,600 U.S. birth families to study environmental influences on child health and development.

NACDA acquires and preserves data relevant to gerontological research, processing as needed to promote effective research use, disseminates them to researchers, and facilitates their use.

The Division of Intramural Population Health Research (DIPHR) of the Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD) maintains an extensive repository of datasets from completed studies, including biospecimens and ancillary data.

NICHD DASH is a centralized resource for researchers to store and access de-identified data from NICHD funded research studies for the purposes of secondary research use.

The NIDDK Central Repository stores biosamples, genetic and other data collected in designated NIDDK-funded clinical studies. The purpose of the NIDDK Central Repository is to expand the usefulness of these studies by allowing a wider research community to access data and materials beyond the end of the study.

PATRIC, the Bacterial Bioinformatics Resource Center, supports research on bacterial infectious diseases by serving as a repository of genomic and other data with associated metadata for over 100,000 bacterial genomes.

The Virus Pathogen Resource (ViPR) provides a searchable public repository of genomic, proteomic and other important research data for more than 500,000 strains of pathogenic viruses along with a suite of tools for analyzing these data.

Gene Expression Omnibus is a public functional genomics data repository supporting MIAME-compliant submissions of array- and sequence-based data. Tools are provided to help users query and download experiments and curated gene expression profiles.

GenBank is the NIH genetic sequence database, an annotated collection of all publicly available DNA sequences. GenBank is designed to provide and encourage access within the scientific community to the most up to date and comprehensive DNA sequence information.

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.

TCIA is a service which de-identifies and hosts a large archive of medical images of cancer accessible for public download. The data are organized as “Collections”, typically patients related by a common disease (e.g. lung cancer), image modality (MRI, CT, etc) or research focus.

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.

ImmPort is a public data sharing repository funded by DAIT. The data sources are primarily DAIT-funded clinical trials, associated mechanistic studies, and other basic and applied immunology research programs.

The SRA is NIH's primary archive of high-throughput sequencing data and is part of the International Nucleotide Sequence Database Collaboration (INSDC) that includes at the NCBI Sequence Read Archive (SRA), the European Bioinformatics Institute (EBI), and the DNA Database of Japan (DDBJ). Data submitted to any of the three organizations are shared among them.

BigMouth is an oral health database developed from partially de-identified electronic health record data contributed by dental schools who are part of the Consortium for Oral Health Research and Informatics (COHRI). Access to the database is provided by i2b2, an open source data warehousing tool. See the Data Tools tab on this guide for access to i2b2

The Universal Protein Resource (UniProt) is a comprehensive resource for protein sequence and annotation data.

The DIP database, a founding member of the International Molecular Exchange Consortium catalogs experimentally determined interactions between proteins. It combines information from a variety of sources to create a single, consistent set of protein-protein interactions.

The Transporter Classification Database details a comprehensive classification system for membrane transport proteins known as the Transporter Classification (TC) system.

The mission of the RCSB Protein Data Bank (PDB) is to Sustain a unique data resource of three-dimensional  biomolecular structure information.

PeptideAtlas is a multi-organism, publicly accessible compendium of peptides identified in a large set of tandem mass spectrometry proteomics experiments. Mass spectrometer output files are collected for human, mouse, yeast, and several other organisms, and searched using the latest search engines and protein sequences.