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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Brain Observatory Storage Service and Database (BossDB) Resource Report Resource Website 10+ mentions |
Brain Observatory Storage Service and Database (BossDB) (RRID:SCR_017273) | BossDB, bossDB, BOSS DB | data or information resource, data repository, storage service resource, database, service resource, image, 3d spatial image | BossDB (Brain Observatory Storage Service and Database) is a cloud-based ecosystem for the storage and management of public large-scale volumetric neuroimaging and connectomics datasets. This includes volumetric Electron Microscopy and X-Ray Micro/Nanotomography data with support for multi-channel image data, segmentations, annotations, meshes, and connectomes. BossDB integrates with community resources for data access, processing, visualization, and analysis, and includes an API that enables metadata management, rendering, datatype conversions, and ingest. | Johns Hopkins University Applied Physics Laboratory, JHU/APL, database, electron microscopy, xray, data, storage, archive, BRAIN Initiative, EM, XRM, XNH, ecosystem |
is used by: BICCN is recommended by: National Library of Medicine is recommended by: BRAIN Initiative is related to: Scalable Analytics for Brain Exploration Research is related to: Ecosystem for Multi-modal Brain-behavior Experimentation and Research has parent organization: BRAIN Initiative has parent organization: Johns Hopkins University; Maryland; USA |
BRAIN Initiative ; NIMH R24 MH114785 |
DOI:10.1101/217745 | Open | https://github.com/jhuapl-boss/boss/ | SCR_017273 | Brain Observatory Storage Service, bossDB, Block and Object Storage Service, BOSSDB, Block and Object Storage Service Database, Brain Observatory Storage Service and Database, BossDB | 2026-08-01 12:05:48 | 27 | |||||
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National Library of Medicine Resource Report Resource Website 100+ mentions |
National Library of Medicine (RRID:SCR_011446) | NLM | government granting agency | NLM collects, organizes, and makes available biomedical science information to scientists, health professionals, and the public. The Library's Web-based databases, including PubMed/Medline and MedlinePlus, are used extensively around the world. NLM conducts and supports research in biomedical communications; creates information resources for molecular biology, biotechnology, toxicology, and environmental health; and provides grant and contract support for training, medical library resources, and biomedical informatics and communications research. Celebrating its 175th anniversary in 2011, the National Library of Medicine (NLM), in Bethesda, Maryland, is a part of the National Institutes of Health, U.S. Department of Health and Human Services (HHS). Since its founding in 1836 as the library of the U.S. Army Surgeon General, NLM has played a pivotal role in translating biomedical research into practice. It is the world's largest biomedical library and the developer of electronic information services that deliver trillions of bytes of data to millions of users every day. Scientists, health professionals, and the public in the United States and around the globe search the Library's online information resources more than 1 billion times each year. The Library is open to all and has many services and resources for scientists, health professionals, historians, and the general public. NLM has over 17 million books, journals, manuscripts, audiovisuals, and other forms of medical information on its shelves, making it the largest health-science library in the world. In today's increasingly digital world, NLM carries out its mission of enabling biomedical research, supporting health care and public health, and promoting healthy behavior by: * Acquiring, organizing, and preserving the world's scholarly biomedical literature; * Providing access to biomedical and health information across the country in partnership with the 5,800-member National Network of Libraries of Medicine (NN/LM); * Serving as a leading global resource for building, curating and providing sophisticated access to molecular biology and genomic information, including those from the Human Genome Project and NIH Common Fund; * Creating high-quality information services relevant to toxicology and environmental health, health services research, and public health; * Conducting research and development on biomedical communications systems, methods, technologies, and networks and information dissemination and utilization among health professionals, patients, and the general public; * Funding advanced biomedical informatics research and serving as the primary supporter of pre- and post-doctoral research training in biomedical informatics at 18 U.S. universities. |
is used by: DisGeNET recommends: Brain Image Library recommends: Data Archive BRAIN Initiative recommends: OpenNeuro recommends: Brain Observatory Storage Service and Database (BossDB) recommends: CRCNS recommends: NCBI database of Genotypes and Phenotypes (dbGap) recommends: NIMH Data Archive recommends: ENCODE recommends: Genotype-Tissue Expression recommends: HMP Data Analysis and Coordination Center recommends: Illuminating the Druggable Genome recommends: Kids First Data Resource Portal recommends: HMS LINCS Database recommends: Metabolomics Workbench recommends: Patient-Reported Outcomes Measurement Information System recommends: Cancer Nanotechnology Laboratory (caNanoLab) recommends: Cancer Imaging Archive (TCIA) recommends: Network Data Exchange (NDEx) recommends: eyeGENE recommends: National Eye Institute (NEI) Commons recommends: National Sleep Research Resource (NSRR) recommends: CardioVascular Research Grid (CVRG) recommends: AMP-AD Knowledge Portal recommends: National Archive of Computerized Data on Aging (NACDA) recommends: National Institute on Aging Genetics of Alzheimer’s Disease Data Storage Site (NIAGADS) recommends: Immune Tolerance Network TrialShare recommends: The Immunology Database and Analysis Portal (ImmPort) recommends: VectorBase recommends: Virus Pathogen Resource (ViPR) recommends: LONI Image and Data Archive recommends: NeuroImaging Tools and Resources Collaboratory (NITRC) recommends: Child Language Data Exchange System (CHILDES) recommends: Data and Specimen Hub (NICHD DASH) recommends: National Children's Study (NCS) Archive recommends: PhonBank recommends: Archive of Data on Disability to Enable Policy (ADDEP) recommends: National Addiction and HIV Data Archive Program (NAHDAP) recommends: Neuroscience Information Framework recommends: National Institute on Drug Abuse Center for Genetic Studies recommends: NIDA Data Share recommends: AphasiaBank recommends: FluencyBank recommends: NIDDK Central Repository recommends: NIDDK Information Network (dkNET) recommends: Nuclear Receptor Signaling Atlas recommends: Chemical Effects in Biological Systems (CEBS) recommends: Cell Image Library (CIL) recommends: PhysioNet recommends: Transporter Classification Database recommends: Biological General Repository for Interaction Datasets (BioGRID) recommends: Federal Interagency Traumatic Brain Injury Research Informatics System recommends: NeuroMorpho.Org recommends: Parkinson’s Disease Biomarkers Program Data Management Resource (PDBP DMR) recommends: The NINDS Human Cell and Data Repository (NHCDR) recommends: ClinicalTrials.gov recommends: dbSNP recommends: dbVar recommends: GenBank recommends: Gene Expression Omnibus (GEO) recommends: NCBI Sequence Read Archive (SRA) recommends: 1000 Functional Connectomes Project recommends: exRNA Atlas recommends: Accelerating Medicines Partnership Type 2 Diabetes Knowledge Portal (AMP-T2D) recommends: PeptideAtlas recommends: Zebrafish Information Network (ZFIN) recommends: FlyBase recommends: Database of Interacting Proteins (DIP) recommends: Mouse Genome Informatics (MGI) recommends: UniProt recommends: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) recommends: European Nucleotide Archive (ENA) recommends: Analysis, Visualization, and Informatics Lab-space (AnVIL) recommends: DNA DataBank of Japan (DDBJ) recommends: UniProtKB recommends: SPARC Portal is related to: CureHunter is related to: Entrez has parent organization: National Institutes of Health is parent organization of: MalariaWorld is parent organization of: GenNav is parent organization of: NIH Common Data Element Repository is parent organization of: MEDLINE is parent organization of: ClinicalTrials.gov is parent organization of: Developmental and Reproductive Toxicology Database is parent organization of: Directory of Health Organizations Online is parent organization of: Haz-Map: Occupational Exposure to Hazardous Agents is parent organization of: Hazardous Substances Data Bank is parent organization of: Drug Information Portal is parent organization of: NIH Data Sharing Repositories is parent organization of: MeSH is parent organization of: Unified Medical Language System is parent organization of: NCBI is parent organization of: MedlinePlus is parent organization of: RxNorm is parent organization of: Bibliography on Alternatives to the Use of Live Vertebrates in Biomedical Research and Testing is parent organization of: Chemical Carcinogenesis Research Information System is parent organization of: International Toxicity Estimates for Risk is parent organization of: BLAST Assembled RefSeq Genomes is parent organization of: Cross-Sectional and Longitudinal Aging Study is parent organization of: OrbitProject is parent organization of: Household Products Database is parent organization of: Entrez Utilities is parent organization of: Epidemiology of Chronic Disease in the Oldest Old |
nlx_inv_1005117 | SCR_011446 | U.S. National Library of Medicine | 2026-08-01 12:04:09 | 391 | |||||||||
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Ecosystem for Multi-modal Brain-behavior Experimentation and Research Resource Report Resource Website 1+ mentions |
Ecosystem for Multi-modal Brain-behavior Experimentation and Research (RRID:SCR_026700) | EMBER | service resource, data or information resource, data repository, storage service resource | BRAIN Initiative data archive for multi-modal neurophysiological and behavioral data, supporting the Brain Behavior Quantification and Synchronization (BBQS) Program. Accessible and versatile data archive for storage, processing, and curation of multimodal neurophysiological and behavioral datasets. EMBER extends established BRAIN Initiative data infrastructure, provides new data harmonization and synchronization capabilities, and supports scalable integrations for data coordination and AI driven batch processing to enable the goals of the BBQS program. | data archive, multi-modal neurophysiological data, behavioral data, Brain Behavior Quantification and Synchronization (BBQS) Program, |
is related to: Distributed Archives for Neurophysiology Data Integration is related to: Brain Observatory Storage Service and Database (BossDB) has parent organization: BRAIN Initiative has parent organization: Johns Hopkins University; Maryland; USA |
NIMH R24MH136632; NIDA R24DA064430 |
Free, Freely available | SCR_026700 | , Ecosystem for Multi-modal Brain-behavior Experimentation and Research (EMBER), EMBER Archive | 2026-08-01 12:13:59 | 6 | |||||||
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Johns Hopkins University; Maryland; USA Resource Report Resource Website 10+ mentions |
Johns Hopkins University; Maryland; USA (RRID:SCR_010247) | JHU | university | Johns Hopkins University is private research university in Baltimore, Maryland. Founded in 1876, university was named for its first benefactor, American entrepreneur, abolitionist, and philanthropist Johns Hopkins. | private, university, Baltimore, Maryland |
uses: DIRECT2experts is affiliated with: Diabetes Research Centers is related to: Alzheimers Disease Genetics Consortium is related to: International AMD Genetics Consortium is related to: ABX Guide is related to: Clinical and Translational Science Awards Consortium is parent organization of: SynaptomeDB is parent organization of: Johns Hopkins University School of Medicine; Baltimore, Maryland; USA is parent organization of: sim4cc is parent organization of: MRI Studio is parent organization of: CKID A Prospective Cohort Study of Kidney Disease in Children is parent organization of: Nonalcoholic Steatohepatitis Clinical Research Network is parent organization of: ASprofile is parent organization of: GlimmerHMM is parent organization of: Neurogenetics and Behavior Center is parent organization of: Human Proteinpedia is parent organization of: Schramm Lab Spinal Cord Atlases is parent organization of: NetPath is parent organization of: Academic Drug Discovery Consortium is parent organization of: CardioVascular Research Grid (CVRG) is parent organization of: Johns Hopkins University; Undergraduate Neuroscience Program is parent organization of: Bowtie is parent organization of: FLASH is parent organization of: TMAJ is parent organization of: Gastroparesis Clinical Research Consortium is parent organization of: HPRD - Human Protein Reference Database is parent organization of: Atlweb: Alternatives to Animal Testing is parent organization of: Center for Inherited Disease Research is parent organization of: The Protein Coil Library is parent organization of: HIV Guide is parent organization of: Johns Hopkins School of Medicine Department of Molecular and Comparative Pathobiology is parent organization of: Classic Articles in Visual Perception is parent organization of: Experimental Man Blog is parent organization of: MYC Cancer Gene is parent organization of: JIST: Java Image Science Toolkit is parent organization of: DOTS WM tract segmentation is parent organization of: JHU Proj. in Applied Medical Imaging is parent organization of: LDDMM is parent organization of: Johns Hopkins Bloomberg School of Public Health; Maryland; USA is parent organization of: Genetic Resources Core Facility is parent organization of: LS-SNP/PDB is parent organization of: JHU Deep Sequencing and Microarray Core is parent organization of: Glimmer is parent organization of: Johns Hopkins University Labs and Facilities is parent organization of: CRAVAT is parent organization of: John Hopkins University, In-Vivo Cellular Molecular Imaging Center is parent organization of: RosettaDock is parent organization of: CoGAPS is parent organization of: Blox is parent organization of: National Resource for Quantitative Functional MRI is parent organization of: Myrna is parent organization of: CAWorks is parent organization of: Principal Components Analysis of Scalar, Vector, and Mesh Vertex Data is parent organization of: Longitudinal MS Lesion Imaging Archive is parent organization of: Image Synthesis Tools is parent organization of: Atlases of amygdala and hippocampus for pediatric populations is parent organization of: HISAT2 is parent organization of: neurodata is parent organization of: Johns Hopkins University Integrated Imaging Center Core Facility is parent organization of: Center for Computational Biology at JHU is parent organization of: TopHat is parent organization of: PyRosetta is parent organization of: Ecosystem for Multi-modal Brain-behavior Experimentation and Research is parent organization of: Brain Observatory Storage Service and Database (BossDB) is parent organization of: Johns Hopkins University School of Medicine Genetic Resources Core Facility |
nlx_97251, , Wikidata: Q193727, GRID: grid.21107.35, ISNI: 0000 0001 2171 931, Crossref Funder ID: 100007880 | https://ror.org/00za53h95 | SCR_010247 | 2026-08-01 12:04:06 | 12 | ||||||||
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BICCN Resource Report Resource Website 100+ mentions |
BICCN (RRID:SCR_015820) | BICCN | portal, consortium, data or information resource, organization portal | Consortium for the cell census in the brain. Integrated network of data generating centers, data archives, and data standards developers, with the goal of systematic multimodal brain cell type profiling and characterization. Emphasis of the BICCN is on the whole mouse brain with demonstration of prototype feasibility for human and nonhuman primate brains. | cell census, neuroscience, brain, brain initiative cell census network, whole mouse brain, |
uses: QuickNII uses: HistoloZee uses: CellLocator uses: Semi-Manual Alignment to Reference Templates uses: LoomPy uses: Cytosplore Viewer uses: Allen Human Brain Atlas: BrainSpan (Atlas of the Developing Brain) uses: Blue Brain Cell Atlas uses: Enhanced and Unified Anatomical Labeling for Common Mouse Brain Atlas uses: Hippocampome.org uses: Neuron Phenotype Ontology uses: Brain Image Library uses: Distributed Archives for Neurophysiology Data Integration uses: NeuroMorpho.Org uses: Azimuth uses: Brain Observatory Storage Service and Database (BossDB) uses: Optimus Pipeline uses: scATAC Pipeline uses: Smart-seq2 Single Nucleus Multi Sample Pipeline uses: CEMBA MethylC Seq Pipeline uses: Brain Architecture Project uses: Single Cell Portal uses: MorphoHub uses: Enhanced and Unified Anatomical Labeling for Common Mouse Brain Atlas uses: Mouse Connectome Project uses: Allen Mouse Brain Reference Atlas uses: Allen Mouse Brain Common Coordinate Framework uses: Allen Human Reference Atlas, 3D, 2020 uses: NeMO Analytics uses: ANTS - Advanced Normalization ToolS uses: CloudReg uses: Brainome portal uses: CATlas uses: MetaNeighbor uses: Cell Annotation Platform uses: cellxgene uses: Neuroglancer uses: Vaa3D uses: QuickNII and VisuAlign uses: Hi5App uses: CloudVolume uses: neuroXiv uses: Brain Data Standards Ontology uses: Pittsburgh Supercomputing Center uses: Molecular Biosensor and Imaging Center uses: Generative Diffeomorphic Mapping uses: NIH NeuroBioBank uses: NeMOarchive lists: ccf_streamlines is related to: Mouse Connectome Project is related to: BarensLab Mini-Atlas is related to: Cumulus is related to: Pegasus is related to: Cirrocumulus is related to: Gene functional conservation across cell types and species is related to: BRAIN Initiative Cell Atlas Network is related to: ATAC Pipeline is related to: Slide-seq Pipeline is related to: Brain Knowledge Platform has parent organization: Allen Institute has parent organization: Allen Institute for Brain Science provides: mBrainAligner provides: BICCN Cell Registry provides: Cell Type Knowledge Explorer provides: Epiviz has organization facet: BICCN Anatomy and Morphology Project has organization facet: Cell Type Knowledge Explorer has organization facet: mBrainAligner has organization facet: Terra has organization facet: Allen Brain Cell Atlas has organization facet: Multiome Pipeline has organization facet: Allen Software Development Kit has organization facet: BICCN Imaging and analysis Techniques to Construct Cell Census Atlas of Human Brain has organization facet: Allen Brain Map BICCN Data Catalog has organization facet: snm3C Pipeline has organization facet: Paired-Tag Pipeline has organization facet: BuildIndices has organization facet: MapMyCells |
NIMH U19 MH114821; NIMH U19 MH114830; NIMH U19 MH114831 |
PMID:37390046 | Restricted | SCR_017266 | SCR_015820 | BICCN 2.0, BRAIN Initiative Cell Census Network, BRAIN Initiative Cell Census Network (BICCN) | 2026-08-01 12:05:30 | 227 | |||||
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Scalable Analytics for Brain Exploration Research Resource Report Resource Website 1+ mentions |
Scalable Analytics for Brain Exploration Research (RRID:SCR_018812) | SABER, saber | software toolkit, workflow software, software application, data processing software, software resource, software library | Library of containerized tools and workflow deployment system for enabling processing of large neuroimaging datasets. Provides canonical neuroimaging workflows specified in standard workflow language (CWL), integration with workflow execution engine (Airflow), imaging database (bossDB), and parameter database (Datajoint) to deploy workflows at scale, and tools to automate deployment and optimization of neuroimaging pipelines. | Running containerized workflow, large neuroimaging datasets, canonical neuroimaging workflow, neuroimaging pipeline deployment, neuroimaging pipeline optimization | is related to: Brain Observatory Storage Service and Database (BossDB) | NIMH R24 MH114799 | DOI:10.1101/615161v1.full | Free, Available for download, Freely available | SCR_018812 | 2026-08-01 12:06:25 | 1 | |||||||
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BRAIN Initiative Resource Report Resource Website 10+ mentions |
BRAIN Initiative (RRID:SCR_006770) | NIH BRAIN Initiative | portal, organization portal, data or information resource | Project aimed at revolutionizing understanding of human brain, to show how individual cells and complex neural circuits interact, enable rapid progress in development of new technologies and data analysis tools to treat and prevent brain disorders. BRAIN Initiative encourages collaborations between neurobiologists and scientists from disciplines such as statistics, physics, mathematics, engineering, and computer and information sciences. Institutes and centers contributing to NIH BRAIN Initiative support those research efforts. | brain, connectomics, disorder, cell, neural, circuit, neurotechnology, data, repository, analysis |
uses: Single Cell Portal recommends: Human Neocortical Neurosolver recommends: Brain Gene Expression Analysis toolbox recommends: clusterExperiment recommends: BioWheel recommends: iELVis recommends: Mediation Analysis of Causality under Confounding recommends: MCell recommends: microMS recommends: MIIVsem recommends: MountainSort recommends: Myriads recommends: nelpy recommends: NetPyNE recommends: Neural Ideal recommends: NEURON recommends: Neuron Tools recommends: Neuroscience Gateway recommends: NUTMEG recommends: PetaVision recommends: PyNWB recommends: pyRayleighCuda recommends: ScanImage recommends: Scope recommends: Seizure-Waves recommends: Silver Lab Microscopy Software recommends: StimVision recommends: TReNA recommends: ALICE recommends: BioImage Suite recommends: EyeWire recommends: GIMME recommends: GMA recommends: Homer2 recommends: Brain Image Library recommends: Data Archive BRAIN Initiative recommends: OpenNeuro recommends: Brain Observatory Storage Service and Database (BossDB) recommends: 1000 Functional Connectomes Project recommends: FastProject recommends: Autopatcher recommends: cytoNet recommends: DiffuserCam recommends: gene Expression Analysis Resource recommends: NeMOarchive recommends: Distributed Archives for Neurophysiology Data Integration recommends: NIDA Data Share recommends: HED Tags lists: University of North Carolina Neuroscience Center and the BRAIN Initiative Viral Vector Core Facility is related to: Brain Image Library is related to: OpenNeuro is related to: Distributed Archives for Neurophysiology Data Integration is related to: NeMO Analytics is related to: Brainome portal is related to: CEMBA MethylC Seq Pipeline is related to: Seattle Alzheimer Disease Brain Cell Atlas is related to: EBRAINS is related to: Human Brain Variation Project has parent organization: National Institutes of Health is parent organization of: Data Archive BRAIN Initiative is parent organization of: OpenNeuro is parent organization of: Brain Observatory Storage Service and Database (BossDB) is parent organization of: Ecosystem for Multi-modal Brain-behavior Experimentation and Research has organization facet: 3D Developmental Mouse Brain Common Coordinate Framework |
Alzheimer's disease, Schizophrenia, Autism, Epilepsy, Traumatic brain injury | BRAIN Initiative | nlx_155554 | http://braininitiative.nih.gov/, http://www.whitehouse.gov/share/brain-initiative, http://en.wikipedia.org/wiki/BRAIN_Initiative | SCR_006770 | , Brain Research through Advancing Innovative Neurotechnologies Initiative, NIH Brain Research through Advancing Innovative Neurotechnologies Initiative | 2026-08-01 12:08:33 | 18 |
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The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
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