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https://www.merative.com/real-world-evidence/real-world-data-analytics#skiptheform-marketscan
Employer-sourced medical and drugs claims database of the under-65 working population and their dependents, as well as 65+ with Medicare supplemental insurance paid by employers.
Proper citation: MarketScan by Merative (RRID:SCR_027329) Copy
https://camarades.shinyapps.io/NDC-SOLES/
Web application to systematically collect, synthesise, and display experimental evidence in genetically-modified animal models of neurodevelopmental conditions.
Proper citation: NDC-SOLES (RRID:SCR_027274) Copy
https://github.com/wenmm/EssSubgraph/tree/main
A model algorithm that integrates omics data and network data to predict essential genes.
Proper citation: EssSubgraph (RRID:SCR_027354) Copy
Software algorithm for restitching overlapping image crops with intensity adjustment. Crops are intensity corrected and weight adjusted to produce uniform intensity composite image.
Proper citation: adaptive_stitching (RRID:SCR_027653) Copy
https://atlantis.bioinfolab.sns.it
Integrative database for human proteome structural and functional sites. Used for understanding role of specific residues in protein structures, complexes, and interaction networks. Integrates various structural and functional annotation layers for each residue, offering comprehensive understanding of protein functionality.
Proper citation: Atlantis (RRID:SCR_027648) Copy
http://www.genome.gov/27549169
THIS RESOURCE IS NO LONGER IN SERVICE. Documented on October 30,2025. 2012 workshop to establish a Central Resource of Data from Genome Sequencing Projects. The workshop addressed the challenges to aggregating and analyzing data sets from genome sequencing studies, such as: * Data sets being generally hard to access. * Data residing in various databases. * Variant and exposure/phenotype data not being comparable across studies. Participants in the workshop discussed options for dealing with these challenges, along with their costs and tradeoffs. Videos and accompanying slides from the workshop are available. Also available as a video playlist on GenomeTV
Proper citation: NHGRI: Establishing a Central Resource of Data from Genome Sequencing Projects (RRID:SCR_003205) Copy
Open source software ecosystem designed to facilitate harmonization, search, and discovery of neuroimaging study cohorts across decentralized datasets. Allows researchers to find participants across different studies based on specific clinical, demographic, and imaging criteria without needing to merge all the original data into a single central database. Provides tools to connect a local neuroimaging dataset with others in decentralized framework using linked data principles.You can contribute to Neurobagel by enhancing its tools (annotation, querying), improving documentation, adding new features/models, fixing bugs, or sharing your own data/expertise to help researchers find and harmonize brain imaging cohorts through standardized metadata and knowledge graphs.
Proper citation: Neurobagel (RRID:SCR_027847) Copy
Data platform providing centralized and secure access to rich, longitudinal brain, behavioral, and genomic data from both the Adolescent Brain Cognitive Development (ABCD) and the HEALthy Brain and Child Development (HBCD) Studies. By bringing together data from both studies, the NBDC Data Hub facilitates integrative research on early life and adolescent development, helping researchers explore developmental trajectories across the lifespan.
Proper citation: NIH Brain Development Cohorts (NBDC) Data Hub (RRID:SCR_027710) Copy
http://bionlp.bcgsc.ca/cancermine/
Text-mined and routinely updated database of drivers, oncogenes and tumor suppressors in different types of cancer.
Proper citation: CancerMine (RRID:SCR_027748) Copy
Database of complete listing of data sets generated by the Brain Initiative Cell Atlas Network (BICAN). Used to find, access, and use data from the BRAIN Initiative's efforts to map brain cell types, integrating molecular, anatomical, and functional data from mouse, primate, and human brains. Its purpose is to provide a comprehensive, open-access "parts list" of the brain, accelerate neuroscience discovery, and help understand brain disorders by offering links to raw data, visualizations, and tools for a vast array of cell types and circuits.
Proper citation: Brain Initiative Cell Atlas Network Data Catalog (RRID:SCR_027884) Copy
https://www.addgene.org/collections/brain-armamentarium/
Collection of molecular genetic reagents to gain access to many different brain cell types. Provides scientists with advanced genetic tools, primarily AAV (Adeno-Associated Virus) vectors with cell-type specific "enhancers," to precisely target, map, monitor, and manipulate specific cell types and circuits in the brain and spinal cord.
Proper citation: BRAIN Armamentarium AAV Collection (RRID:SCR_027885) Copy
Interactive database and user interface providing online access to validated alternative methods for U.S. regulatory and other contexts of use. Central hub and unified resource of validated alternative methods that enhances accessibility to validation study reports, data, protocols / SOPs, and information on regulatory guidance.Users can filter searches by alternative method types, defined approaches, Test Method Endpoint, and regulatory guidance.
Proper citation: Collection of Alternative Methods for Regulatory Application (CAMERA) (RRID:SCR_027893) Copy
http://polytraits.lifewatchgreece.eu/polytraits
Database on biological traits of polychaetes (bristle worms, Polychaeta: Annelida). It covers information about morphological, behavioural, reproductive and larval characteristics of polychaete taxa which has been collected from the literature.
Proper citation: polytraits (RRID:SCR_027932) Copy
Database offers integrated multi-omic data for patients across 33 cancer types. It encompasses gene expression, DNA methylation, somatic mutations, proteomic profiles, and chromatin accessibility, drawing from TCGA, GTEx, and CPTAC projects. Users can compare gene expression, DNA methylation, and protein levels between tumor and normal tissues, identifying differentially expressed genes and proteins, and examining gene-to-gene correlations. Provides oncogene mutation profiles and allows for survival analysis based on gene expression and methylation, linked to clinical parameters. Facilitates exploration of multi-omic correlations, such as gene expression with DNA methylation, and their variations with mutation status. Extends its analytical capabilities to include six major oncoviruses, offering insights into their impact on gene expression, methylation, and patient survival.
Proper citation: OncoDB (RRID:SCR_028340) Copy
https://db.genomics.cn/nanopore/
Open-access structural database dedicated to the exploration, analysis, and design of protein nanopores, which serve as essential molecular gateways in biological membranes and form the basis of many advanced biosensing and sequencing technologies. This platform integrates large-scale structure-guided mining and deep learning-based modeling using AlphaFold-Multimer and AlphaFold3 to provide high-confidence multimeric nanopore structures. Each entry includes detailed information on membrane embedding, pore geometry annotation, and constriction profiling to support functional and biophysical interpretation.
Proper citation: NanoporeDB (RRID:SCR_028466) Copy
Database of glycans 3D structural data and information that can be downloaded or used with Re-Glyco to rebuild glycoproteins from the RCSB PDB or EMBL-EBI AlphaFold repositories. Glycan structure database and toolbox designed to restore glycoproteins to their native and functional form.
Proper citation: GlycoShape (RRID:SCR_028443) Copy
Multi-organism database containing interactions and roles of proteins in inter- and intracellular signaling and transcriptional and post-transcriptional regulation.
Proper citation: OmniPath (RRID:SCR_028649) Copy
https://insectbraindb.org/app/
Database contains reference brain atlases for many insect species, neuron morphology when available, repository for published anatomical data, etc. Provides insect neuroanatomical and functional data.
Proper citation: Insect Brain Database (RRID:SCR_028617) Copy
Hardware accelerated bioinformatics system. Platform processes large sets of genomic data from next-generation sequencing (NGS). It converts raw genetic reads into aligned sequences and identifies genetic variants. Based on DRAGEN Bio-IT Processor, which is integrated on a Field Programmable Gate Array (FPGA) card, is available in a preconfigured server that can be seamlessly integrated into bioinformatics workflows. The platform can be loaded with highly optimized algorithms for many different NGS secondary analysis pipelines. Access Points: You can access or purchase it via local servers, integrated instrument computers, or cloud environments, but it cannot be freely downloaded or used without an authorized commercial license or supported Illumina ecosystem setup.
Proper citation: DRAGEN Bio-IT Platform (RRID:SCR_028815) Copy
http://www.alzheimersinfo.org/index.html
A national research center that conducts research for Alzheimer's disease, stroke and other nervous system disorders. The mission of the Center is to improve the treatment and prevention of Alzheimer's disease and other neurologic disorders by advancing scientific knowledge through creative and collaborative research.
Proper citation: Regions Hospital Alzheimer's Research Center (RRID:SCR_005128) Copy
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