Neuroscience Information Framework
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OMIM: DiseaseGeneAssociation
OMIM is a human curated authoritative source of information about disease to gene connections. The DiseaseGeneAssociation view is organized by the OMIM phenotype/disease identifiers, and lists all genes and text annotated to a given disease or phenotype. more about OMIM
Information on OMIM 352 Results
HumanBrainAtlas: Atlas
The Human Brain Atlas contains sections stained for cell bodies or nerve fibers, as well as corresponding MRI sections through a living human brain.
Information on HumanBrainAtlas 212 Results
NeuroLex: Brain regions
The Brain Region Registry is a curated knowledge base of brain regions developed within the Neurolex in collaboration with the International Neuroinformatics Coordinating Facility.
Information on NeuroLex 10 Results
BAMS: BrainRegions
BAMS provides information on brain regions, their categorization and proper nomenclature.
Information on BAMS 96 Results
HPO Annotations: DiseasePhenotypes
The HPO group provides annotations of human disease phenotypes, linked to OMIM, Orphanet, and DECIPHER.
Information on HPO Annotations 1,214 Results
IBVD: BrainVolumes
Internet Brain Volume Database provides neuroanatomical volumetric data for both group and individual cases.
Information on IBVD 81 Results
SumsDB: Activation Foci
SumsDB contains functional activation foci from published neuroimaging studies.
Information on SumsDB 471 Results
BrainMaps: Atlas
BrainMaps.org provides a high-resolution brain atlas of primate and non-primate brains.
Information on BrainMaps 10 Results
BrainInfo: Brain Region
BrainInfo provides authoritative atlas information including brain regions, nomenclature and relationships across seven languages.
Information on BrainInfo 174 Results
MPD: Dataset
The Mouse Phenome Database is a project at The Jackson Laboratory which collects and curates mouse strain survey data for behavior, physiology, and anatomy. Data are available for inbred and recombinant inbred strains, chromosome substitution strains, other classical panels, Collaborative Cross (CC) lines and Diversity Outbred (DO) populations.
Information on MPD 2 Results
Drug Related Gene Database: DRG
The DRG provides differential gene expression data relevant to addiction where data types include the effects of a drug, strain, or knockout on a particular gene, in a particular brain region. Share your data set.
Information on Drug Related Gene Database 468 Results
OMIM: GeneAllelePhenotype
Online Mendelian Inheritance in Man (OMIM) curates human genetic diseases from the literature. Diseases and phenotypes are annotated to both the gene and allelic variant level. This GeneAllelePhenotype view reflects the allelic phenotypes only, which do not reference the omim phenotype identifiers directly.
Information on OMIM 148 Results
OMIM: VariantPhenotypes
Online Mendelian Inheritance in Man (OMIM) curates human genetic diseases from the literature. The OMIM:VariantPhenotype view describes the curated relationships between genes, allelic variants (if available), and diseases/traits.
Information on OMIM 196 Results
NeuroLex: Neurons
The Neuron Registry is a curated knowledge base of neurons developed within the Neurolex in collaboration with the International Neuroinformatics Coordinating Facility.
Information on NeuroLex 2 Results
NeuroSynth: Activation Foci
NeuroSynth is a platform for large-scale, automated synthesis of functional magnetic resonance imaging (fMRI) data extracted from published articles using text mining tools. Note: The website is currently under maintenance, so the links may not be fully functional.
Information on NeuroSynth 2,429 Results
NeuroVault: MRI Data
NeuroVault is a public repository where researchers can publicly store and share unthresholded statistical brain activation maps produced by MRI and PET studies.
Information on NeuroVault 2 Results
GENSAT: GeneExpression
GENSAT contains gene expression data and maps of the mouse brain and spinal cord.
Information on GENSAT 1,039 Results
Integrated: Disease
Integrated Disease is a virtual database that indexes authoritative information on disease and treatment options from: NINDS Disorder List and PubMed Health.
Information on Integrated 11 Results
KEGG: Disease
KEGG is a database resource for understanding high-level functions and utilities of the biological system, such as the cell, the organism and the ecosystem, from molecular-level information, especially large-scale molecular datasets generated by genome sequencing and other high-throughput experimental technologies. KEGG:Disease describes the curated links between a disease, its pathways, human genes, and relevant literature.
Information on KEGG 4 Results
GeneReviews: Titles
GeneReviews are expert-authored, peer-reviewed disease descriptions ("chapters") presented in a standardized format and focused on clinically relevant and medically actionable information on the diagnosis, management, and genetic counseling of patients and families with specific inherited conditions.
Information on GeneReviews 2 Results
HPO Annotations: Phenotype to gene
HPO annotations provide annotations of human phenotypes and diseases. This phenotype to gene view is the associations between a phenotype and it's putative causative gene based on the link between a gene and it's known involvement in a disease.
Information on HPO Annotations 799 Results
Integrated: BrainGeneExpression
Integrated Brain Gene Expression is a virtual database indexing brain region gene expression data from mice from: Gene Expression Nervous System Atlas (GENSAT), Allen Mouse Brain Atlas, and Mouse Genome Informatics (MGI).
Information on Integrated 7,498 Results
MPD: StrainPhenotypes
The Mouse Phenome Database is a project at The Jackson Laboratory which collects and curates mouse strain survey data for behavior, physiology, and anatomy. Data are available for inbred and recombinant inbred strains, chromosome substitution strains, other classical panels, Collaborative Cross (CC) lines and Diversity Outbred (DO) populations. The MPD:StrainPhenotypes view computes the extreme outlier phenotypes (>2 s.d.) as compared to the overall mean for each assay, and maps the quantitative measurements to their qualitative phenotype. (The strains measured for each assay varies, and therefore the means computed may be drawn from collections of different strains.)
Information on MPD 21 Results
Orphanet: Diseases
Orphanet is the reference portal for information on rare diseases and orphan drugs, for all audiences. Orphanet’s aim is to help improve the diagnosis, care and treatment of patients with rare diseases. This view displays information on disorders including clinical signs, synonyms, and epidemiological data.
Information on Orphanet 22 Results
Coriell Cell Repositories: NIGMS
The Coriell Cell Repositories provides cell cultures and DNA from the NIGMS research repositories available to the research community.
Information on Coriell Cell Repositories 20 Results
Clinical Genomic Database: GeneticCondition
The Clinical Genomic Databaseis a manually curated database of conditions with known genetic causes, focusing on medically significant genetic data with available interventions. The GeneticCondition view provides information on conditions with known single gene alterations.
Information on Clinical Genomic Database 6 Results
Integrated: Software
Integrated Software is a virtual database indexing software and tools from: SciCrunch, NITRC, Visiome Platform, Cerebellar Platform, Brain Machine Interface Platform and Genetic Analysis Software (GAS).
Information on Integrated 10 Results
OneMind: BioBanks
One Mind Biospecimen Bank Listing is an international registry of biomaterial supply resources - visit SciCrunch to register your resource.
Information on OneMind 1 Results
SFARI Gene / AutDB: AnimalModels
AutDB provides information on animal models used in autism research.
Information on SFARI Gene / AutDB 6 Results
Educational Resources in Neuroscience: Materials
Educational Resources in Neuroscience is a database that lists, reviews, and rates resources for teaching neuroscience at the graduate and undergraduate level.
Information on Educational Resources in Neuroscience 1 Results
RePORTER: CurrentNIHGrants
NIH RePORTER provides a list of funded grants across NIH institutes.
Information on RePORTER 312 Results
F1000: Posters
F1000 Posters is an open access repository of conference posters and slides from across biology and medicine.
Information on F1000 11 Results
MGI: MousePhenotypes
Mouse Genome Informatics offered by Jackson Laboratory includes information on integrated genetic, genomic, phenotypic, and biological data of the laboratory Mouse. The MGI:Phenotypes view presents the curated relationships between genotypes and phenotypes.
Information on MGI 359 Results
HPO Annotations: Disease to gene
The HPO group provides annotations of human phenotypes in disease. The disease to gene view is a set of known associations between genes and diseases.
Information on HPO Annotations 8 Results
MPD: MeasurementDefinitions
The Mouse Phenome Database is a project at the Jackson Laboratory, which characterizes mouse studies based on the types of measurements that are made in each study. This MeasurementDefinitions view shows the curated mappings of the assay measurements to the relevant phenotype, trait, and anatomy terms at are measured.
Information on MPD 15 Results
ClinVar: GeneDisease
The ClinVar aggregates information about sequence variation and its relationship to human health. The ClinVar:GeneDisease shows the curated relationships between a gene and a ClinVar disease.
Information on ClinVar 6 Results
Orphanet: DiseaseGeneAssociation
Orphanet is the reference portal for information on rare diseases and orphan drugs, for all audiences. Orphanet’s aim is to help improve the diagnosis, care and treatment of patients with rare diseases. This view displays information on genes associated with rare diseases.
Information on Orphanet 6 Results
ClinVar: Trait
The ClinVaraggregates information about sequence variation and its relationship to human health. The ClinVar:Trait view provides a mapping of ClinVar traits, MedGen terms and other identifiers.
Information on ClinVar 7 Results
Coriell Cell Repositories: CellLines
The Coriell Cell Repositories provides cell cultures and DNA from NIGMS and the NINDS research repositories available to the research community.
Information on Coriell Cell Repositories 20 Results
Coriell Cell Repositories: All
The Coriell Cell Repositories provides cell cultures and DNA from NIGMS and the NINDS research repositories available to the research community.
Information on Coriell Cell Repositories 20 Results
Integrated: Podcasts
Integrated Podcasts is a virtual database currently indexing multiple podcast resources. A list of the participating resources is provided here.
Information on Integrated 5 Results
SciCrunch: Registry
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, materials, and more - visit SciCrunch to register your resource.
Information on SciCrunch 9 Results
ProteomeXchange: Datasets
ProteomeXchange provides access to mass spectrometry based proteomics data from the repositories PRIDE, PeptideAtlas, and MassIVE.
Information on ProteomeXchange 1 Results
CTD: DiseasePathway
Comparative Toxicogenomics Database (CTD) provides information on effects of environmental chemicals on human health. The Diseasepathway view is a set of associations between pathways and diseases.
Information on CTD 2 Results
BREDE: Activation Foci
Brede Database provides functional activation foci data (Talairach coordinates) from published neuroimaging articles.
Information on BREDE 2 Results
Integrated: Blog
Integrated Blogs is a
virtual database indexing a variety of scientific blog and news resources. A list of the participating resources is provided here.
Information on Integrated 34 Results
GeneWeaver: GeneInfo
GeneWeaver provides integrated genotype-phenotype information across species, tissues and experimental paradigms, formally known as Ontological Discovery Environment (ODE).
Information on GeneWeaver 14 Results
Integrated: Animals
Integrated Animals is a virtual database currently indexing available animal strains and mutants from: AGSC (Ambystoma), BCBC (mice), BDSC (flies), CGC (worms), CWRU Cystic Fibrosis Mouse Models (mice), DGGR (flies), FlyBase (flies), IMSR (mice), MGI (mice), MMRRC (mice), NSRRC (pig), NXR (Xenopus), RGD (rats), Sperm Stem Cell Libraries for Biological Research (rats), Tetrahymena Stock Center (Tetrahymena), XGSC (Xiphophorus), ZFIN (zebrafish), and ZIRC (zebrafish). Note, the IMSR data is linked, but users may need to re-execute the search if the top mouse is not returned properly.
Information on Integrated 187 Results
Integrated: News
The Integrated News is an index of important scientific news. Currently indexing
Wired Science and
The Guardian: Science
Information on Integrated 7 Results
Integrated: Annotation
The Integrated Manually Extracted Annotation is a virtual database of annotations manually created by various database curators. Each row represents an annotation item such as the reagent used in a paper or a data set link. Many of these annotations are published in PubMed as LinkOuts. (View participating resources)
Information on Integrated 2,740 Results
Gemma: Microarray
Gemma provides tools and data for meta-analysis of functional genomics data.
Information on Gemma 102,606 Results
Visiome: VisionData
Visiome Platform is an interdisciplinary repository of data, models and tools related to vision research.
Information on Visiome 1 Results
DrugBank: Proteins
The DrugBank contains detailed psychopharmacological information about drug related proteins.
Information on DrugBank 1 Results
Integrated: Datasets
The Integrated Datasets is a virtual database currently indexing a variety of data sets. A list of the participating data resources is provided here.
Information on Integrated 42 Results
EnsemblVariation: VariantPhenotypes
TheENSEMBL project produces genome databases for vertebrates and other eukaryotic species, and makes this information freely available online. The ENSEMBL:VariantPhenotypes view links human genomic variants with their curated diseases (currently limited here to OMIM diseases), aggregated into ENSEMBL from a variety of sources.
Information on EnsemblVariation 4 Results
GEO: MicroarrayExperiment
Gene Expression Omnibus contains gene-specific information from submitted microarray and sequencing studies.
Information on GEO 12 Results
Integrated: Videos
Integrated Videos is a virtual database indexing videos and other multimedia from: NIH VideoCast, GoCognitive, UCSF Laboratory for Visual Neuroscience, The Guardian: Science Videos, BioInteractive, CLARITY resources and Journal of Visualized Experiments (JoVE). JoVE is a peer-reviewed, PubMed-indexed journal devoted to the publication of biological research in video format, and NIH VideoCast is a vast archive of scientific talks given at various NIH meetings and functions.
Information on Integrated 2 Results
ArrayExpress: MicroarrayExperiment
ArrayExpress is a database of functional genomics experiments including gene expression where you can query and download data collected to MIAME and MINSEQE standards.
Information on ArrayExpress 10 Results
Integrated: Grants
Integrated Grants is a virtual database currently indexing funded research resources including NIH Research Portfolio Online Reporting Tool (RePORT) (current grants, updated monthly) and ResearchCrossroads (1970-2008, defunct as of 2009).
Information on Integrated 457 Results
BioNOT: Negation
BioNOT is a database of negated sentences mined across biomedical articles.
Information on BioNOT 2,468 Results
ClinicalTrials.gov: Trial List
ClinicalTrials.gov registry of clinical trials conducted primarily within USA.
Information on ClinicalTrials.gov 27 Results
ClinVar: VariantPhenotypes
The ClinVar aggregates information about sequence variation and its relationship to human health. The ClinVar:VariantPhenotypes view provides information on sequence alterations present in genes and the resulting phenotypes. For records listing more than one variation, data is presented with the assumption that the individual sequence alterations are in cis.
Information on ClinVar 68 Results
Integrated: Clinical Trials
Integrated Clinical Trials is a virtual database currently indexing clinical trials from: EU Clinical Trials Register and ClinicalTrials.gov.
Information on Integrated 27 Results
NCBI Gene: GeneRIF
NCBI Gene integrates information from a wide range of species. The GeneRIF view provides a listing of genes and their associated GeneRIFs (Gene Reference into Function).
Information on NCBI Gene 117 Results
Monarch: DiseaseModels
The Monarch Integrated Disease Models aggregates experimental models of disease from MGI, RGD, ZFIN, CORIELL Cell Line Database, WB, FB, and OMIA, listing asserted and inferred models of disease (via orthology from PANTHER).
Information on Monarch 52 Results
Integrated: Cell Lines
Integrated Cell Lines is a virtual database indexing available cell lines from: American Type Culture Collection (ATCC), Coriell Cell Repositories, Drosophila Genomics Resource Center (DGRC), International Stem Cell Registry, NIH Human Embryonic Stem Cell Registry, National Cancer Institute's Developmental Therapeutics Program (DTP) (note these are currently not available see link), Beta Cell Biology Consortium (BCBC), Nuclear Receptor Signaling Atlas (NURSA), and International Mouse Strain Resource (IMSR). Alert: The links to IMSR sometimes do not produce proper results in IMSR, we have asked them to update this, but currently users may need to take the identifier for the resource and use google to find the appropriate cell lines.
Information on Integrated 18 Results
GO: Gene Annotations
GO (Gene Ontology Consortium, composed of all major model organism databases) provides characterization of genes into functional classes based on the Gene Ontology.
Information on GO 183 Results
CTD: ChemDisease
Comparative Toxicogenomics Database (CTD) provides information on effects of environmental chemicals on human health. The ChemDisease view is a set of curated and inferred chemical–disease associations.
Information on CTD 147 Results
MGITransgenes: Transgenes
MGI Transgenes contains annotated gene expression data for transgenes and knock in alleles.
Information on MGITransgenes 1 Results
HGNC: Genes
The HUGO Gene Nomenclature Committee assigns standardised nomenclature to human genes. This HGNC:Gene view provides gene names, symbols, and additional data on approved genes.
Information on HGNC 1 Results
Integrated: Connectivity
Integrated Nervous System Connectivity is an aggregated dataset of connectivity statements from BAMS, CoCoMac, BrainMaps, Connectome Wiki, the Hippocampal-Parahippocampal Table of Temporal-Lobe.com and Avian Brain Circuitry Database. Connectome Wiki, CoCoMac, and Avian Brain Circuitry Database are no longer in service, so the links may not be functional.
Information on Integrated 1 Results
Integrated: GeneDiseaseInteraction
Integrated Gene-Disease Interaction is a virtual database currently indexing interaction between genes and diseases from the Online Mendelian Inheritance in Man (OMIM) and the Comparative Toxicogenomics Database (CTD).
Information on Integrated 180 Results
AntibodyRegistry: Antibodies
The Antibody Registry is the authoritative source for antibody identifiers, which can be used in publications to uniquely mark the antibodies used in a paper.
Information on AntibodyRegistry 1 Results
CTD: DiseaseGeneAssociation
Comparative Toxicogenomics Database (CTD) provides information on effects of environmental chemicals on human health. The DiseaseGeneAssociation view is a set of curated disease-gene associations (curated and inferred via chemical interactions) in vertebrates and invertebrates.
Information on CTD 4 Results
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