Avian Brain Circuitry Database
is the first database developed for storing, retrieving and cross-referencing neuroscience information about the connectivity of the avian brain.
Addgene is a non-profit organization dedicated to making it easier for scientists to share plasmids by operating a plasmid repository for the research community. We are working with hundreds of laboratories to assemble a high-quality library of published plasmids for use in research and discovery. By linking plasmids with articles, scientists can always find data related to the materials they request.
The Aging Genes Database includes genes and interventions that have been studied with respect to their effects on life-span or age-related neurological diseases. Due to the rapid pace of research in this field, the database will constantly change.
The Aging Genes Database includes genes and interventions that have been studied with respect to their effects on life-span or age-related neurological diseases. Due to the rapid pace of research in this field, the database will constantly change.
Allen Brain Atlas Connectivity Study
is a high-resolution map of neural connections in the mouse brain, built on an array of transgenic mice genetically engineered to target specific cell types.
The
AmiGO uses the Gene Ontology, which consists of a controlled vocabulary of terms covering biological concepts, to characterize genes into classes or categories. The data below, are essentially a set of links between a gene name including all known synonyms with an annotation to one of the Gene Ontology terms. Evidence for each statement can be found by clicking on the link, and typically includes some publication.
The
Antibody Registry aims to serve the scientific community by providing a set of unique identifiers for commercial and non-commercial antibody reagents allowing scientists to more easily keep track of data generated using a specific antibody.
The Antibody Registry allows any user to submit a new antibody or a set of antibodies to the registry. The links to individual vendors have been temporarily disabled, but we are working on re-establishing these. Note, some of the data herein is protected by restrictive licensing agreements. Using this data for commercial purposes is not permitted.
AutDB is an integrated resource for the austism research community. It is a publicly available, curatated, web-based, searchable database for autism research.
BAMS
is an online resource for information about brain regions, their categorization and nomenclature. Included in this view are gray matter regions, major fiber tracts, and ventricles
Separate data sets from BAMS include Cell Types, Molecules, Connections (between regions and cell types), and Relations (between parts identified different neuroanatomical atlases).
BAMS
is an online resource for information about brain regions, their categorization and nomenclature. Included in this view are gray matter regions, major fiber tracts, and ventricles
Separate data sets from BAMS include Cell Types, Molecules, Connections (between regions and cell types), and Relations (between parts identified different neuroanatomical atlases).
BAMS
is an online resource for information about brain regions, their categorization and nomenclature. Included in this view are gray matter regions, major fiber tracts, and ventricles
Separate data sets from BAMS include Cell Types, Molecules, Connections (between regions and cell types), and Relations (between parts identified different neuroanatomical atlases).
The
The Beta Cell Biology Consortium produces and maintains a list of available antibodies, and rates the usefulness of the antibodies requested within the consortium. Antibodies are made available through their online catalog and order form posted on their website.
BioDBCoreis a community-defined, uniform, generic description of the core attributes of biological databases. The BioDBCore checklist is overseen by the International Society for Biocuration, in collaboration with the BioSharing forum.
BioGrid is an online interaction repository with data compiled through comprehensive curation efforts. Our current index is version 3.1.85 and searches 30,287 publications for 461,097 raw protein and genetic interactions from major model organism species. All interaction data are freely provided through our search index and available via download in a wide variety of standardized formats.
BioNOT is a searchable database of negated biomedical sentences. The database consists of more than 32 million negated sentences. Negated sentences were detected using the algorithm described in - Shashank Agarwal, Hong Yu "Biomedical negation scope detection with Conditional Random Fields" Journal of the American Medical Informatics Association (JAMIA), 2010; 17:696-701.
BrainInfo is a substantial knowledge resource that can be searched using any of 17,000 structure names in seven languages to find specific web pages at
50 different sites that provide information about any particular feature of the structures including atlases, cell types, cytoarchitecture, species differences, links to articles and connectivity. Note, only classical nervous system structures have images.
BrainMaps.org is an interactive multiresolution next-generation brain atlas that is based on over 20 million megapixels of sub-micron resolution, annotated, scanned images of serial sections of both primate and non-primate brains and that is integrated with a high-speed database for querying and retrieving data about brain structure and function over the internet.
Note, BrainMaps is currently undergoing an hardware upgrade, so the links may not be fully functional.
The Cell image library
is a freely accessible, easy-to-search, public repository of reviewed and annotated images, videos, and animations of cells from a variety of organisms, showcasing cell architecture, intracellular functionalities, and both normal and abnormal processes. The purpose of this database is to advance research, education, and training, with the ultimate goal of improving human health.
Cerebellar Platform is a digital research archive for cerebellar research. Available resources include mini-reviews of contemporary cerebellar research, list of papers and mathematical models for cerebellar operation.
ChEBI, Chemical entities of biological interest,
is a freely available dictionary of molecular entities focused on ‘small’ chemical compounds. The molecular entities in question are either products of nature or synthetic products used to intervene in the processes of living organisms.
ORDB is a chemoreceptor database, which contains tools for investigators to analyse the functions of Olfactory-related G protein-coupled receptors. It also provides links to a local cluster of databases of related information in SenseLab, and to other relevant databases worldwide.
ClinicalTrials.gov is a registry of federally and privately supported clinical trials conducted in the United States and around the world. ClinicalTrials.gov gives you information about a trial's purpose, who may participate, locations, and phone numbers for more details. This information should be used in conjunction with advice from health care professionals.
CoCoMac (Collations of Connectivity data on the Macaque brain), connectivity view, is an approach to produce a systematic record of the known wiring of the primate brain. CoCoMac (Tracer), the main database, contains data from tracing studies on anatomical connectivity in the macaque cerebral cortex.
The Coriell Cell Repositories,
provide essential research reagents to the scientific community by establishing, verifying, maintaining, and distributing cell cultures and DNA derived from cell cultures. These collections, supported by funds from the National Institutes of Health (NIH) and several foundations, are extensively utilized by research scientists around the world.
The current index includes the NIGMS and the NINDS NINDS repository specimen.
The Coriell Cell Repositories,
provide essential research reagents to the scientific community by establishing, verifying, maintaining, and distributing cell cultures and DNA derived from cell cultures. These collections, supported by funds from the National Institutes of Health (NIH) and several foundations, are extensively utilized by research scientists around the world.
The current index includes the NIGMS and the NINDS NINDS repository specimen.
The Coriell Cell Repositories,
provide essential research reagents to the scientific community by establishing, verifying, maintaining, and distributing cell cultures and DNA derived from cell cultures. These collections, supported by funds from the National Institutes of Health (NIH) and several foundations, are extensively utilized by research scientists around the world.
The current index includes the NIGMS and the NINDS NINDS repository specimen.
The
Collaborative Research in Computational Neuroscience hosts experimental data sets of high quality that will be valuable for testing
computational models of the brain and new analysis methods. The data include
physiological recordings from sensory and memory systems, as well as eye
movement data.
CTN is a digital repository of resources created by and about NIDA's National Drug Abuse Treatment Clinical Trials Network (CTN). It provides CTN members and the public with a single point of access to research findings and other materials that are approved for dissemination throughout the CTN and to the larger community of providers, researchers and policy-makers.
DRG summarizes the data obtained from published work that describes differences in gene expression as a function of drug application. The links on the table and methods columns lead users to the original data (within each publication) if the paper is available. Note, much more data is available for each dataset via the 'Export' button, including a fuller description of the methods, drug paradigm and the experimental values.
The
DrugBank database is a unique bioinformatics and cheminformatics resource that combines detailed drug (i.e. chemical, pharmacological and pharmaceutical) data with comprehensive
drug target (i.e. sequence, structure, and pathway) information.
The EEGbase
is a system for storage and management of EEG/ERP resources - data, metadata, tools and materials related to EEG/ERP experiments. EEG base advances electrophysiology research by enabling access to public data, tools and results of research groups. Note, you will need to register to view data in EEGBase.
GARA a database of images depicting the spatial distribution of 2-deoxyglucose uptake evoked in the glomerular layer of the rat olfactory bulb in response to a wide range of defined odorant stimuli.
Gemma is a database and software system for the meta-analysis of gene expression data. Gemma contains data from hundreds of public microarray data sets, referencing hundreds of published papers. Users can search, access and visualize coexpression and differential expression results.
The Gene Ontology tools are developed within the Gene Ontology Consortium. They continue to be improved and expanded and you can receive support in using these tools by writing to the GO helpdesk.
GeneNetwork consists of linked resources and analysis tools for systems genetics. It has been designed for the analysis of networks of genes, transcripts, and classic phenotype data sets. GeneNetwork combines more than 25 years of legacy data generated by hundreds of scientists with genome sequence data and massive transcriptome data sets (expression genetic or eQTL data sets).
The
Retina Project is a collaboration between GENSAT project and the Roska Lab at FMI, Basel. The project and methods are described in Siegert et al. (Nature Neuroscience, 2009)
GENSAT contains a collection of pictorial gene expression maps of the brain and spinal
cord of the mouse. These maps were obtained using situ hybridization
and transgenic mouse techniques, i.e., EGFP and BAC-transgenics.
Gene Expression Omnibus: a public functional genomics data repository supporting MIAME-compliant data submissions. Array- and sequence-based data are accepted. Tools are provided to help users query and download experiments and curated gene expression profiles.
Grants.gov is a central storehouse for information on over 1,000 grant programs open for application and provides access to approximately $500 billion in annual awards.
Health.Data.gov is a public resource designed to bring together high-value datasets, tools, and applications using data about health and health care to support your need for better knowledge and to help you to solve problems. These datasets and tools have been gathered from agencies across the Federal government with the goal of improving health for all Americans.
HomoloGene is a system for automated detection of homologs among the annotated genes of several completely sequenced eukaryotic genomes. HomoloGene makes use of amino acid sequence searching (blastp) to find distant relationships, but the procedure still refers to the DNA sequence for computation of some of the statistics. The matching strategy is guided by the taxonomic tree such that more closely related organisms are compared first. Moreover, HomoloGene entries include paralogs in addition to orthologs.
The
Human Brain Atlas from the Brain Biodiversity Bank of Michigan State University contains sections of human brain stained
for cell bodies or for nerve fibers, as well as corresponding MRI sections
through a living human brain.
Internet Brain Volume Database (IBVD) is a web-based searchable database of brain neuroanatomic volumetric observations. It is designed to access both group volumetric results as well as volume observations in individual cases.
The
The Kawasaki Disease dataset catalogs blood test results of patients with Kawasaki Disease, published in part by Sato et al. 2011. This information is available for download using the Export button below. The protein levels of the following proteins or protein components were measured: NT-proBNP, solubleST2, Copeptin, CT-proET-1, MR-proADM, MR-proANP, procalcitonin, and cardiac troponin. To cite these data please use this text "Data were published by Sato et. al. 2011 and made available via the NIF at http://uri.neuinfo.org/nif/registry/nif-0000-08429
The PDSP Ki Database gives affinity values for the interaction between most common drugs and receptors. The data are
sortable and downloadable to an excel spreadsheet (see export button). The right-most column presents the evidence, which come from published papers and internally derived
affinity values (these records have links back to the Ki home page).
The
UCSF Laboratory for Visual Neuroscience devises better ways to prevent and treat vision loss due to amblyopia and strabismus, and advances medical science by understanding the human visual system.
The
ModelDB provides an accessible location for storing and efficiently retrieving computational
neuroscience models. ModelDB is tightly coupled with NeuronDB. Models can be coded in any
language for any environment.
The
NIMH Chemical Synthesis and Drug Supply Program synthesizes, purifies, and distributes otherwise unavailable compounds to stimulate basic and clinical research in psychopharmacology. The following are abbreviations of column headers: HBA - Number of hydrogen-bond acceptor groups; HBD - Number of hydrogen-bond donor groups; RotB - Number of freely rotatable bonds; AlogP - Ghose-Crippen octanol-water partition coefficient; TPSA - Topological Polar Surface Area.
Neurodatabase.org is a repository of neurophysiology data, mainly single unit recordings from experimental animals, conforming to BrainML data models and protocols. Users can view and download the raw data from this site.
Neurofed Neuroscience Research Funding Contacts in the Federal Government: An informal compendium of names and contact information for nearly 300 research grant and scientific review administrators in 23 organizational units.
NeuroMorpho.org is a centrally curated inventory of digitally reconstructed neurons. NeuroMorpho.Org contains contributions from
over two-dozen labs and is continuously updated as new morphological reconstructions are collected, published,
and shared, with the goal of densely covering all available data.
NeuronDB at SenseLab provides a dynamically searchable database of three types of neuronal properties:
voltage gated conductances, neurotransmitter receptor, and neurotransmitter substances.
NeuronDB at SenseLab provides a dynamically searchable database of three types of neuronal properties:
voltage gated conductances, neurotransmitter receptor, and neurotransmitter substances.
NeuronDB at SenseLab provides a dynamically searchable database of three types of neuronal properties:
voltage gated conductances, neurotransmitter receptor, and neurotransmitter substances.
The NIF Integrated 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 also provided by NIF to PubMed and can be found in PubMed under the LinkOut link at the bottom of the paper.
The NIF Integrated Disease View is a virtual database currently indexing authoritative information on disease and treatment options from
NINDS Disorders and PubMed Health.
NINDS Disorders is a list of most disorders and diseases of the nervous system. Each disorder has prognosis, and clinical trials information as well as the foundations or groups that can provide support to patients.
GeneWeaver, formally Ontological Discovery Environment allows users to integrate phenotype centered gene sets across species, tissue and experimental platform. Sets can be stored, shared and compared privately, among user defined groups of investigators, and across all users.
OdorMapDB is designed to be a database to support the experimental analysis of the molecular and functional organization of the olfactory bulb and its basis for the perception of smell. It is primarily concerned with archiving, searching and analysing maps of the olfactory bulb generated by different methods.
Online Mendelian Inheritance in Man (OMIM) is a comprehensive, authoritative compendium of human genes and genetic phenotypes, containing information on all known mendelian disorders and over 12,000 genes.
The OpenfMRI project was established in 2010 to provide a resource for researchers interested in making their functional magnetic resonance imaging (fMRI) datasets
The
Gait in Parkinsons Disease dataset inside of PhysioNet contains measures of gait from patients with idiopathic PD and healthy controls. The database includes the vertical ground reaction force records of subjects as they walked at their usual, self-selected pace for approximately 2 minutes on level ground.
The times are linked to individual patients' gait data in this format.
The
Gait Dynamics in Neuro-Degenerative Disease Database inside of PhysioNet contains measures of gait from patients with
Parkinson's disease (n = 15), Huntington's disease (n = 20), or amyotrophic lateral sclerosis (n = 13). Records from 16 healthy control subjects are also included here.
The raw data were obtained using force-sensitive resistors, with the output roughly proportional to the force under the foot. Stride-to-stride measures of footfall contact times were derived from these signals.
Clicking on the links for individual patients will not be informative until the user reads the time series data explanation here.
PubMed Health
offers up-to-date information on diseases, conditions, drugs,
treatment options, and healthy living, with a special focus on comparative
effectiveness research from institutions around the world. PubMed Health is
produced by the National Center for Biotechnology, a division of the
National Library of Medicine at the National Institutes of Health.
PubMed Health
offers up-to-date information on diseases, conditions, drugs,
treatment options, and healthy living, with a special focus on comparative
effectiveness research from institutions around the world. PubMed Health is
produced by the National Center for Biotechnology, a division of the
National Library of Medicine at the National Institutes of Health.
ResearchCrossroads.org consolidates data from government sources and combines this information with grants and funding opportunities from private research foundations, presenting the most complete view of publicly funded medical research. This registry contains antibody product information organized according to genes, species, reagent types (antibodies, recombinant proteins, ELISA, siRNA, cDNA clones). The Antibody Registry allows any user to submit a new antibody or a set of antibodies to the registry via a web form, or via spreadsheet upload. Note, some of the data herein is protected by restrictive licensing agreements. Using this data for commercial purposes is not permitted.
The Simtk Neuromuscular Library
provides students, researchers and clincians with access to use, test and develop physics-based simulation models of biological structures.
Stem Cell Tables provide an overview of information about stem cells that have been derived from mice and humans. The tables summarize published research that characterizes cells that are capable of developing into cells of multiple germ layers (i.e., multipotent or pluripotent) or that can generate the differentiated cell types of another tissue (i.e., plasticity) such as a bone marrow cell becoming a neuronal cell. The tables do not include information about cells considered progenitor ore precursor cells or those that can proliferate without the demonstrated ability to generate cell types of other tissues.
SumsDB is a repository of brain-mapping data that includes stereotaxic coordinates ('foci')
from published neuroimaging studies. Press 'View in SumsDB' to view a table of search results for
the number of foci selected in 'Page Size' (10, 25, or 50). Press 'View on Brain' to directly launch
WebCaret and view the foci on the PALS cortical surface. Note that (x,y,z) values reported in the table
below represent coordinates standardized to the MNI152 stereotaxic space via the FLIRT registration
algorithm, rather than the particular stereotaxic space used in each published study.
SynapseWeb is a portal into the 3D ultrastructure of the brain and provides: Anatomy of astrocytes, axons, dendrites, hippocampus, organelles, synapses; procedures of 3D reconstruction and tissue preparation; as well as an atlas of ultrastructural neurocytology (by Josef Spacek), online aligned images, and reconstructed dendrites.
Toxin and Toxin Target Database (T3DB) is a unique bioinformatics resource that combines detailed toxin data with comprehensive toxin target information. The database currently houses over 2900 toxins including pollutants, pesticides, drugs, and food toxins, which are linked to corresponding toxin targets.
Visiome Platform is a digital research resource archive for vision science. The available resources include mathematical models, experimental stimuli, experimental data, and analytical tools.
WIKIPathways was established to facilitate the contribution and maintenance of pathway information by the biology community. WikiPathways is an open, collaborative platform dedicated to the curation of biological pathways.
WormBase is an international consortium of biologists and computer scientists dedicated to providing the research community with accurate, current, accessible information concerning the genetics, genomics and biology of C. elegans and some related nematodes. This table exposes the information about nematode genes from several sources put together by WormBase staff.
WormBase is an international consortium of biologists and computer scientists dedicated to providing the research community with accurate, current, accessible information concerning the genetics, genomics and biology of C. elegans and some related nematodes. This table exposes the information about nematode genes from several sources put together by WormBase staff.
The
XNAT houses the Open Access Series of Imaging Studies (OASIS) project aimed at making MRI data set of the brain freely available to the scientific community.
