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SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
Software repository for comparing structural (MRI) and functional neuroimaging (fMRI, PET, EEG, MEG) software tools and resources. NITRC collects and points to standardized information about structural or functional neuroimaging tool or resource.
Proper citation: NeuroImaging Tools and Resources Collaboratory (NITRC) (RRID:SCR_003430) Copy
http://www.behav.org/abcd/abcd.php
THIS RESOURCE IS NO LONGER IN SERVICE. Documented August 21, 2017.
Database developed for storing, retrieving and cross-referencing neuroscience information about the connectivity of the avian brain. It contains entries about the new and old terminology of the areas and their hierarchy and data on connections between brain regions, as well as a functional keyword system linked to brain regions and connections.
Proper citation: Avian Brain Circuitry Database (RRID:SCR_002401) Copy
Database of images, specimen records, and natural history information on ants including Search Tools, Regional Lists, In Depth Information, Ant Image Comparison Tool, PDF Field Guides, Maps on AntWeb and Google Earth, and Ant Genera of the World Slideshow. It is community driven and open to contribution from anyone with specimen records, natural history comments, or images. As of February of 2013, AntWeb has 97,814 ant images, of 23,272 specimens representing over 10,549 species. AntWeb provides tools for submitting images, specimen records, annotating species pages, and managing regional species lists. AntWeb contains information on the ant faunas of several areas in the Nearctic and Malagasy biogeographic regions, and global coverage of all ant genera. AntWeb provides tools for exploring the diversity and identification of ants (Hymenoptera: Formicidae). These tools have been developed to encourage the study of ants, to facilitate the use of ants in inventory and monitoring programs, and to provide ant taxonomists with access to images of type specimens. AntWeb illustrates the diversity of ants by providing information and high quality color images of many of the approximately 10,000 known species of ants. AntWeb currently focuses on the species of the Nearctic and Malagasy biogeographic regions, and the ant genera of the world. Over time, the site will grow to describe every species of ant known.
Proper citation: AntWeb (RRID:SCR_004851) Copy
http://commonfund.nih.gov/GTEx/
Project to study human gene expression and regulation in multiple tissues, providing valuable insights into mechanisms of gene regulation and its disease related perturbations. Genetic variation between individuals will be examined for correlation with differences in gene expression level to identify regions of the genome that influence whether and how much a gene is expressed. Includes initiatives: Novel Statistical Methods for Human Gene Expression Quantitative Trait Loci (eQTL) Analysis ,Laboratory, Data Analysis, and Coordinating Center (LDACC), caHUB Acquisition of Normal Tissues in Support of GTEx Project.
Proper citation: Genotype-Tissue Expression (RRID:SCR_013042) Copy
Online repository of information about Australian plants, animals, and fungi. Development started in 2006. The Commonwealth Scientific and Industrial Research Organisation is organisation significantly involved in development of ALA.
Proper citation: Atlas of Living Australia (RRID:SCR_006467) Copy
Data integration and dissemination project for carbohydrate and glycoconjugate related data. Computational and informatics resources for glycoscience. Portal provides user-friendly interface that facilitates exploration of glycoscience data from diverse international bioinformatics resources, including National Center for Biotechnology Information (NCBI), UniProt, Protein Data Bank (PDB), UniCarbKB, and GlyTouCan glycan structure repository. Retrieves information from data sources and integrates and harmonizes this data. Includes knowledge about molecular, biophysical and functional properties of glycans, genes, proteins and lipids organized in pathways and ontologies, plus data related to mutation and expression.
Proper citation: GlyGen (RRID:SCR_023438) Copy
http://purl.bioontology.org/ontology/BIOMODELS
OWL Representation of the models in the BioModels repository.
Proper citation: BioModels Ontology (RRID:SCR_010125) Copy
http://proteogenomics.musc.edu/ma/musc_madb.php?page=home&act=manage
Database that is a repository for DNA microarray data generated by MUSC investigators as well as researchers in the global research community.
Proper citation: MUSC DNA Microarray Database (RRID:SCR_010977) Copy
Open access repository. Contains research outputs and supporting data from staff and students, including published articles, conference papers, reports, datasets and theses.
Proper citation: Abertay University Datasets (RRID:SCR_023127) Copy
Curated, open-access repository integrating publicly available transcriptomic data for Prunus dulcis and related stone-fruit species. Transcriptomic resource for almonds (Prunus dulcis).
Proper citation: FruitDBase (RRID:SCR_029077) Copy
https://www.tgh.org/institutes-and-services/cancer-institute/precision-medicine-bio-repository
Procures high-quality biologic specimens along with coded clinical and demographic data across broad ethnic, racial, and social demographic of patients. All specimens are systematically collected and processed so that their multi-functional potential for recovering high-quality bioanalytes (including RNA, genomic DNA, protein, enzymes and metabolites) is conserved. All specimens are stored and protected in a database hub to connect researchers conducting variety of scientific projects across multiple medical specialties. Muilti-disciplinary biorepository with capacity for generating specialized bioanalytes.
Proper citation: Tampa General Hospital-University of South Florida Health Precision Medicine Biorepository (RRID:SCR_027501) Copy
http://kwanlab.bio.cuhk.edu.hk/BSRD/
A repository for bacterial small regulatory RNA. They welcome you to submit new experimental validated sRNA targets.
Proper citation: BSRD (RRID:SCR_004249) Copy
Data analysis resource and repository for biological data related to circadian rhythms, sharing public data from over 10,000 experiments (in 2025). The main features of BioDare2 are: fast analysis of rhythmic data (rhythm detection and period, phase, amplitude), timeseries processing, attractive visualizations, simple data description, data sharing with permalinks, easy data uploads and a modern UI.
Proper citation: BioDare2 (RRID:SCR_027193) Copy
https://reprint-apms.org/?q=chooseworkflow
Database of Mass Spectrometry contaminants and pipeline for Affinity Purification coupled with Mass Spectrometry analysis. Contaminant repository for affinity purification mass spectrometry data. Database of standardized negative controls. Used to identify protein-protein interactions.
Proper citation: CRAPome (RRID:SCR_025008) Copy
Data repository service from the University of California Curation Center (UC3) that lets the UC community manage, archive, and share its valuable digital content. Merritt provides long-term preservation of digital assets, allows researchers to share data with others, or meet the data sharing and preservation requirements of a grant-funded project.
Proper citation: UC3 Merritt (RRID:SCR_000642) Copy
Platform for data discovery to enhance the reuse of clinical neuroscience and neuroimaging data. Provides NeuroBridge ontology, and combines machine learning with ontology based search of both neuroimaging repositories like XNAT databases and open access full text journals such as PubMed Central. Connects researchers with potential neuroimaging data, by searching text of papers describing neuroimaging studies that contain information on neuroimaging data.
Proper citation: NeuroBridge (RRID:SCR_023703) Copy
https://massive.ucsd.edu/ProteoSAFe/static/massive.jsp
Mass spectrometry Interactive Virtual Environment (MassIVE) is a community resource developed by the NIH-funded Center for Computational Mass Spectrometry to promote the global, free exchange of mass spectrometry data. Data repository for proteomics data.
Proper citation: Mass spectrometry Interactive Virtual Environment (MassIVE) (RRID:SCR_013665) Copy
Online repository of open access images including MR Sessions, MRI, Freesurfer APARC, Freesurfer ASEGs, Clinical Assessments, Atlas Scaling Factors, and Fast Segmentations data. CENTRAL currently contains 374 Projects, 3808 Subjects, and 5174 Imaging Sessions (June 2014). Central is powered by XNAT (The Extensible Neuroimaging Archive Toolkit), an open source software platform designed to facilitate management and exploration of neuroimaging and related data. XNAT includes a secure database backend and a rich web-based user interface.
Proper citation: XNAT Central (RRID:SCR_006235) Copy
https://github.com/openMetadataInitiative/openMINDS_computation
Software repository is part of the open Metadata Initiative for Neuroscience Data Structures (openMINDS). It extends openMINDS core, by providing schema-templates for adding metadata for simulation, data analysis and visualization.
Proper citation: openMINDS computation metadata model (RRID:SCR_026249) Copy
http://bioimage.ucsb.edu/bisque
Open source database for exchange and exploration of biological images. Used to store, visualize, organize and analyze images in cloud. Centered around database of images and metadata.
Proper citation: Bisque database (RRID:SCR_005559) Copy
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