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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Neural Circuit Tracer Resource Report Resource Website 1+ mentions |
Neural Circuit Tracer (RRID:SCR_000116) | NCTracer | software resource | Open source software for automated and manual tracing of neurites from light microscopy stacks of images. NCTracer 2.0 is developed for the Windows 7, 64-bit operating system and requires a minimum of 4 GB of RAM. This version does not run on 32-bit computers, Mac or Linux OS. | neuronal circuit, neuron tracing, branch structure, automated tracing |
is related to: Dataset of dendritic spine neck lengths and head sizes is related to: experimental studies reporting connection probabilities and/or unitary PSP amplitudes has parent organization: Northeastern University; Massachusetts; USA |
NINDS NS063494 | PMID:21562803 | nlx_152603 | https://bpb-us-w2.wpmucdn.com/sites.northeastern.edu/dist/9/312/files/2020/09/User-Guide-V-4-0.pdf | SCR_000116 | 2026-02-14 01:59:37 | 2 | ||||||
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Diffusion MRI of Traumatic Brain Injury Resource Report Resource Website |
Diffusion MRI of Traumatic Brain Injury (RRID:SCR_001637) | Diffusion MRI of TBI | data or information resource, portal, topical portal | Project to define a roadmap for diffusion MR imaging of traumatic brain imaging and design an infrastructure to implement the recommendations and tested to ensure feasibility, disseminate results, and facilitate deployment and adoption. The research roadmap and infrastructure development will concentrate on three areas: 1) standardization of diffusion imaging methodology, 2) trial design and patient selection for acute or chronic therapy, and 3) development of multi-center collaborations and repositories for evaluating whether advanced diffusion imaging does improve decision making and TBI patients' outcomes. # DTI MRI reproducability: One of the major areas of investigation in this project is to study the reproducibility of data acquisition and image analysis algorithms. Understanding reproducibility defines a base level of deviation from which scans can be analyzed with statistical significance. As part of this work they are also developing site qualification criteria with the intention of setting limits on the MR system minimal performance for acceptable use in TBI evaluation. # Infrastructure for image storage, analysis and visualization: There is a continuing need to refine and extend software methods for diffusion MRI data analysis and visualization. Not only to translate tools into clinical practice, but also to encourage continuation of the innovation and development of new tools and techniques. To deliver upon these goals they are designing and implementing a storage and computational infrastructure to provide access to shared datasets and intuitive interfaces for analysis and visualization through a variety of tools. A strong emphasis has been placed on providing secure data sharing and the ability to add community defined common data elements. The infrastructure is built upon a Software-as-a-Service model, in which tools are hosted and managed remotely allowing users access through well-defined interfaces. The final service will also facilitate composition or orchestration of workflows composed of different analysis and processing tasks (for example using LONI or XNAT pipelines) with the ultimate goal of providing automated no-click evaluations of diffusion MRI data. # Tool development: The final aspect of this project aims to facilitate and encourage tool development and contribution. By providing access to open datasets, they will create a platform on which tool developers can compare and improve and their tools. When tools are sufficiently mature they can be exposed in the infrastructure mentioned above and used by researchers and other developers. | diffusion tensor imaging, diffusion mri, standard specification, image repository, analysis, visualization, data sharing, common data element, service resource, data set |
is related to: vIST/e is related to: Camino is related to: DTI and Fibertools Software Package is related to: Diffusion Tensor Imaging ToolKit is related to: ExploreDTI is related to: Connectome Mapping Toolkit is related to: TORTOISE is related to: MITK Diffusion is related to: MRtrix is related to: MIPAV: Medical Image Processing and Visualization is related to: DTI Blog is related to: FSL has parent organization: University of Chicago; Illinois; USA |
Traumatic brain injury | NINDS | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_153906 | SCR_001637 | 2026-02-14 02:00:04 | 0 | ||||||
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NeuroMorpho.Org Resource Report Resource Website 50+ mentions |
NeuroMorpho.Org (RRID:SCR_002145) | data repository, storage service resource, data or information resource, service resource, database | Centrally curated inventory of digitally reconstructed neurons associated with peer-reviewed publications that contains some of the most complete axonal arborizations digitally available in the community. Each neuron is represented by a unique identifier, general information (metadata), the original and standardized ASCII files of the digital morphological reconstruction, and a set of morphometric features. It contains contributions from over 100 laboratories worldwide and is continuously updated as new morphological reconstructions are collected, published, and shared. Users may browse by species, brain region, cell type or lab name. Users can also download morphological reconstructions for research and analysis. Deposition and distribution of reconstruction files ultimately prevents data loss. Centralized curation and annotation aims at minimizing the effort required by data owners while ensuring a unified format. It also provides a one-stop entry point for all available reconstructions, thus maximizing data visibility and impact. | neuron, morphological reconstruction, morphometry, axonal arborization, digital neuronal reconstruction, neuronal reconstruction, neuronal morphology, data sharing, annotation, brain region, neocortex, digital reconstruction, neurogenetics, neurochemistry, neuroscience, neurology, FASEB list |
is used by: NIF Data Federation is used by: BICCN is recommended by: National Library of Medicine is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: re3data.org is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: DONE: Detection of Outlier NEurons is related to: NIF Literature is related to: Computational Neurobiology and Imaging Center is related to: Integrated Manually Extracted Annotation is related to: xyz2swc is related to: Allen Institute for Brain Science has parent organization: George Mason University; Virginia; USA is parent organization of: NeuroMorpho.Org species ontology is parent organization of: NeuroMorpho.Org species ontology old |
NINDS R01 NS39600; MURI ONR N000141010198 |
PMID:17728438 PMID:16552417 PMID:18949582 |
Free, Available for download, Freely available | nif-0000-00006, r3d100010107 | http://www.nitrc.org/projects/neuromorpho_org http://neuromorpho.org/ https://doi.org/10.17616/R3WW2K |
SCR_002145 | Neuro Morpho, NeuroMorpho.org, NeuroMorpho | 2026-02-14 02:00:22 | 96 | |||||
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Music and Neuroimaging Laboratory Resource Report Resource Website |
Music and Neuroimaging Laboratory (RRID:SCR_005447) | Music and Neuroimaging Laboratory | portal, laboratory portal, data or information resource, organization portal, topical portal | The human brain has the remarkable ability to adapt in response to changes in the environment over the course of a lifetime. This is the mechanism for learning, growth, and normal development. Similar changes or adaptations can also occur in response to focal brain injuries, e.g., partially-adapted neighboring brain regions or functionally-related brain systems can either substitute for some of the lost function or develop alternative strategies to overcome a disability. Through ongoing research, the Music and Neuroimaging Laboratory''s mission is to: * Reveal the perceptual and cognitive aspects of music processing including the perception and memory for pitch, rhythmic, harmonic, and melodic stimuli. * Investigate the use of music and musical stimuli as an interventional tool for educational and therapeutic purposes. * Reveal the behavioral and neural correlates of learning, skill acquisition, and brain adaptation in response to changes in the environment or brain injury in the developing and adult brain. * Reveal the determinants and facilitators for recovery from brain injury. Project topics include: Aphasia Therapy, Singing and Speaking, Tone Deafness / Congenital Amusia, Motor Recovery Studies, Music and Emotions, Music and Autism, Children and Music Making, Brain Stimulation, Adult Musician Studies, Absolute Pitch Studies, Acute Stroke Studies | neuroimaging, music, autism, human, child, adult, singing, voice, motor system function, brain, brain injury, traumatic brain injury, stroke, emotion | has parent organization: Harvard Medical School; Massachusetts; USA | The Dana Foundation ; International Foundation for Music Research ; Grammy Foundation ; Nancy Lurie Marks Family Foundation ; Sourcetone LLC ; NSF ; NINDS ; NIDCD |
nlx_144538 | SCR_005447 | Music Neuroimaging Laboratory, Music & Neuroimaging Laboratory | 2026-02-14 02:01:06 | 0 | |||||||
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Rat Genome Database: Neurological Disease Portal Resource Report Resource Website 10+ mentions |
Rat Genome Database: Neurological Disease Portal (RRID:SCR_008685) | data or information resource, portal, topical portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 12,2023. Portal that provides researchers with easy access to data on rat genes, QTLs, strain models, biological processes and pathways related to neurological diseases. This resource also includes dynamic data analysis tools. | gene, analysis, biological, data, database, disease, genome, model, neurological, neuroscience, pathway, phenotype, qtl, rat, research | has parent organization: Medical College of Wisconsin; Wisconsin; USA | Neurological disease | RGD ; NINDS |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-33773 | http://rgd.mcw.edu | SCR_008685 | RGD Neurological Disease Portal | 2026-02-14 02:01:43 | 14 | |||||
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Brain Research Institute Biobank Resources Resource Report Resource Website |
Brain Research Institute Biobank Resources (RRID:SCR_008756) | biomaterial supply resource, material resource, tissue bank, brain bank | Brain bank resources which include postmortem human frozen brain tissue and matched cerebrospinal fluid (CSF) and blood available for scientists to search for etiopathogeneses of human disease. The National Neurological Research Specimen Bank and the Multiple Sclerosis Human Neurospecimen Bank maintains a collection of quick frozen and formalin fixed postmortem human brain tissue and frozen cerebrospinal fluid from patients with neurological diseases, including Alzheimer's Disease, amyotrophic lateral sclerosis, depressive disorder/suicide, and epilepsy, among others. Diagnoses are documented by clinical medical records and gross/microscopic neuropathology. The Neuropathology Laboratory at the UCLA Medical Center maintains a bank of frozen, formalin and paraformaldehyde-fixed and paraffin-embedded postmortem human brain tissues and frozen cerebrospinal fluid (CSF) from patients who die with Alzheimer's disease and other dementing and degenerative illnesses, as well as control materials removed in a similar fashion from patients who are neurologically normal. | postmortem, brain, coronal, brain tissue, cerebral spinal fluid, blood, cerebral spinal fluid cell, cell-free cerebral spinal fluid, serum, plasma, buffy coat, frozen, formalin fixed, paraformaldehyde-fixed, paraffin-embedded, neurological disease, alzheimer's disease, amyotrophic lateral sclerosis, depressive disorder, suicide, epilepsy, huntington's disease, multiple sclerosis, parkinson's disease, progressive supranuclear palsy, schizophrenia, stroke, cerebrovascular accident, fronto-temporal dementia, neurologically normal, coronal section, control, clinical data |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Brain Research Institute |
Neurological disease, Alzheimer's disease, Amyotrophic Lateral Sclerosis, Depressive Disorder, Suicide, Epilepsy, Huntington's disease, Multiple Sclerosis, Parkinson's disease, Progressive Supranuclear Palsy, Schizophrenia, Stroke, Cerebrovascular Accident, Fronto-temporal dementia, Aging | NINDS ; NIMH ; National MS Society ; United States Department of Veterans Affairs ; Veterans Affairs West Los Angeles Healthcare Center ; NIA |
Public, Available to the research community | nlx_143996 | http://www.bri.ucla.edu/bri_research/research_resources.asp | SCR_008756 | Brain Research Institute Research Resources, Brain Research Institute Biobanks, BRI Research Resources, BRI Biobanks, BRI Biobank Resources | 2026-02-14 02:01:44 | 0 | |||||
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Mayo Clinic Jacksonville: Neuropathology and Microscopy Resource Report Resource Website 1+ mentions |
Mayo Clinic Jacksonville: Neuropathology and Microscopy (RRID:SCR_008753) | biomaterial supply resource, material resource, tissue bank, brain bank | A brain bank and laboratory focused on memory and motor disorders. Brains are sent to the laboratory for diagnosis and research for the State of Florida Alzheimer Disease Initiative and for the Society for Progressive Supranuclear Palsy. As part of this brain banking function, fixed and frozen brain samples are obtained at autopsy and sent to the laboratory for diagnostic evaluation and for various types of research studies. The major types of analyses performed on the brain samples include neuro-histology, immunohistochemistry, confocal microscopy, electron microscopy and image analysis, as well as immunoassays. The latter are based upon Western blotting and enzyme linked immunoassays. The laboratory has a specific interest in the interface between normal aging and Alzheimer's disease, as well as in non-Alzheimer's degenerative disorders such as Lewy body dementia, corticobasal degeneration, progressive supranuclear palsy and frontotemporal dementia. The primary focus of research on aging is neuropathologic characterization of brains of individuals who had been prospectively and longitudinally evaluated during life. These studies aim to determine differences in a range of biologic parameters in brains of people with normal cognitive, mild cognitive impairment and dementia. Their focus on Parkinson's disease is to identify preclinical Parkinson's disease in order to develop means for early diagnosis. | tissue, brain, fixed, frozen, alzheimer's disease, normal aging, memory disorder, motor disorder, parkinson's disease, progressive supranuclear palsy, lewy body disease, corticobasal degeneration, frontotemporal dementia, dementia, mild cognitive impairment, mouse, neurofibrillary degeneration, postmortem, normal control, autopsy |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Mayo Clinic Florida; Florida; USA has parent organization: Mayo Alzheimer's Disease Research Center has parent organization: Florida Alzheimer's Disease Research Center |
Alzheimer's disease, Aging, Memory disorder, Motor disorder, Parkinson's disease, Progressive Supranuclear Palsy, Lewy Body Disease, Corticobasal Degeneration, Frontotemporal dementia, Dementia, Mild Cognitive Impairment | NIA P50-AG16574; NIA P50-AG25711; NINDS P50-40256 |
nlx_143952 | SCR_008753 | Mayo Clinic Jacksonville: Neuropathology Microscopy, Mayo Clinic Florida: Neuropathology and Microscopy, Neuropathology and Microscopy - Dennis W. Dickson, Mayo Clinic Florida: Neuropathology and Microscopy - Dennis W. Dickson | 2026-02-14 02:01:47 | 1 | |||||||
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BMAP - Brain Molecular Anatomy Project Resource Report Resource Website 1+ mentions |
BMAP - Brain Molecular Anatomy Project (RRID:SCR_008852) | BMAP | data or information resource, funding resource, portal, topical portal | The Brain Molecular Anatomy Project is a trans-NIH project aimed at understanding gene expression and function in the nervous system. BMAP has two major scientific goals: # Gene discovery: to catalog of all the genes expressed in the nervous system, under both normal and abnormal conditions. # Gene expression analysis: to monitor gene expression patterns in the nervous system as a function of cell type, anatomical location, developmental stage, and physiological state, and thus gain insight into gene function. In pursuit of these goals, BMAP has launched several initiatives to provide resources and funding opportunities for the scientific community. These include several Requests for Applications and Requests for Proposals, descriptions of which can be found in this Web site. BMAP is also in the process of establishing physical and electronic resources for the community, including repositories of cDNA clones for nervous system genes, and databases of gene expression information for the nervous system. Most of the BMAP initiatives so far have focused on the mouse as a model species because of the ease of experimental and genetic manipulation of this organism, and because many models of human disease are available in the mouse. However, research in humans, other mammalian species, non-mammalian vertebrates, and invertebrates is also being funded through BMAP. For the convenience of interested investigators, we have established this Web site as a central information resource, focusing on major NIH-sponsored funding opportunities, initiatives, genomic resources available to the research community, courses and scientific meetings related to BMAP initiatives, and selected reports and publications. When appropriate, we will also post initiatives not directly sponsored by BMAP, but which are deemed relevant to its goals. Posting decisions are made by the Trans-NIH BMAP Committee |
has parent organization: National Institutes of Health is parent organization of: BMAP cDNA Resources |
Aging | NINDS ; NIMH ; NIDA ; NEI ; NIA ; NIAAA ; NICHD ; NIDCD ; NIEHS ; NHGRI ; NIGMS |
nlx_149083 | SCR_008852 | Brain Molecular Anatomy Project, Trans-NIH Brain Molecular Anatomy Project | 2026-02-14 02:01:48 | 6 | |||||||
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Computational Neuroanatomy Group Resource Report Resource Website |
Computational Neuroanatomy Group (RRID:SCR_007150) | CNG | data or information resource, software resource, portal, topical portal | Multidisciplinary research team devoted to the study of basic neuroscience with a specific interest in the description and generation of dendritic morphology, and in its effect on neuronal electrophysiology. In the long term, they seek to create large-scale, anatomically plausible neural networks to model entire portions of a mammalian brain (such as a hippocampal slice, or a cortical column). Achievements by the CNG include the development of software for the quantitative analysis of dendritic morphology, the implementation of computational models to simulate neuronal structure, and the synthesis of anatomically accurate, large scale neuronal assemblies in virtual reality. Based on biologically plausible rules and biophysical determinants, they have designed stochastic models that can generate realistic virtual neurons. Quantitative morphological analysis indicates that virtual neurons are statistically compatible with the real data that the model parameters are measured from. Virtual neurons can be generated within an appropriate anatomical context if a system level description of the surrounding tissue is included in the model. In order to simulate anatomically realistic neural networks, axons must be grown as well as dendrites. They have developed a navigation strategy for virtual axons in a voxel substrate. | dendritic morphology, neuronal morphology, neuronal electrophysiology, mammalian brain, neural network, cell, model, morphology, network connectivity, basal ganglia, modeling software, hippocampus, hermissenda learning, caulescence, tree structure, neuron, virtual neural network, morphological class of neuron, virtual neuron, virtual brain, ca3 pyramidal cell, arborvitae, ca1 pyramidal cell, polymorphic cell, dg granule cell, axonal navigation, synaptic connectivity, neuroplasticity, neuroanatomy, neuroinformatics, computation, network model, neural circuit, cellular event, expression, ca3, ca1 pyramidal neuron, digital morphological reconstruction, digital reconstruction, dendrite, axon, neuronal tree, signaling pathway |
has parent organization: George Mason University: Krasnow Institute for Advanced Study is parent organization of: L-Measure is parent organization of: Hippocampus 3D Model |
NINDS ; NIMH ; NSF ; Human Brain Project |
nif-0000-00503 | http://krasnow.gmu.edu/cn3/index3.html | SCR_007150 | Computational Neuroanatomy Group at the Krasnow Institute for Advanced Study | 2026-02-14 02:01:18 | 0 | ||||||
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BrainML Resource Report Resource Website |
BrainML (RRID:SCR_007087) | BrainML | data repository, storage service resource, data or information resource, service resource, narrative resource, database, standard specification |
Set of standards and practices for using XML to facilitate information exchange between user application software and neuroscience data repositories. It allows for common shared library routines to handle most of the data processing, but also supports use of structures specialized to the needs of particular neuroscience communities. This site also serves as a repository for BrainML models. (A BrainML model is an XML Schema and optional vocabulary files describing a data model for electronic representation of neuroscience data, including data types, formats, and controlled vocabulary. ) It focuses on layered definitions built over a common core in order to support community-driven extension. One such extension is provided by the new NIH-supported neuroinformatics initiative of the Society for Neuroscience, which supports the development of expert-derived terminology sets for several areas of neuroscience. Under a cooperative agreement, these term lists will be made available Open Source on this site. The repository function of this site includes the following features: * BrainML models are published in searchable, browsable form. * Registered users may submit new models or new versions of existing models to accommodate data of interest. * BrainML model schema and vocabulary files are made available at fixed URLs to allow software applications to reference them. * Users can check models and/or instance documents for correct format before submitting them using an online validation service. To complement the BrainML modeling language, a set of protocols have been developed for BrainML document exchange between repositories and clients, for indexing of repositories, and for data query. |
format, development, information, mechanism, metaformat, model, neuroinformatics, neuroscience, standard, terminology, validation, vocabulary, xml, data sharing, xml schema compact syntax, xml schema, interoperability, semantics |
is used by: Neurodatabase.org has parent organization: Weill Cornell Medical College; New York; USA |
Human Brain Project ; NIMH MH/NS57153; NINDS MH/NS57153 |
Public, The community can contribute to this resource | nif-0000-21070 | http://brainml.org | SCR_007087 | BrainML.org | 2026-02-14 02:01:26 | 0 | |||||
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ModelDB Resource Report Resource Website 100+ mentions |
ModelDB (RRID:SCR_007271) | ModelDB | data repository, storage service resource, data or information resource, service resource, database | Curated database of published models so that they can be openly accessed, downloaded, and tested to support computational neuroscience. Provides accessible location for storing and efficiently retrieving computational neuroscience models.Coupled with NeuronDB. Models can be coded in any language for any environment. Model code can be viewed before downloading and browsers can be set to auto-launch the models. The model source code has to be available from publicly accessible online repository or WWW site. Original source code is used to generate simulation results from which authors derived their published insights and conclusions. | repository, collection, network, neuron, computational, neuroscience, model, simulation, neural, data |
is used by: NIF Data Federation lists: ModelRun is listed by: 3DVC is listed by: Biositemaps is listed by: Integrated Models is related to: SimToolDB is related to: NeuronDB is related to: NeuronVisio is related to: Integrated Manually Extracted Annotation is related to: Allen Institute for Brain Science has parent organization: Yale University; Connecticut; USA works with: MicrocircuitDB |
NIMH ; NINDS ; NCI ; Human Brain Project ; NIDCD P01 DC004732; NIDCD R01 DC009977 |
PMID:15218350 PMID:15055399 PMID:8930855 |
Free, Freely available, Acknowledgement requested | nif-0000-00004, r3d100011330 | https://doi.org/10.17616/R3P61F | SCR_007271 | Model_DB, Model Database, Model DB, Model-DB | 2026-02-14 02:01:23 | 304 | ||||
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Cognitive and Emotional Health Project: The Healthy Brain Resource Report Resource Website |
Cognitive and Emotional Health Project: The Healthy Brain (RRID:SCR_007390) | CEHP | data or information resource, portal, database, topical portal | Trans-NIH project to assess the state of longitudinal and epidemiological research on demographic, social and biologic determinants of cognitive and emotional health in aging adults and the pathways by which cognitive and emotional health may reciprocally influence each other. A database of large scale longitudinal study relevant to healthy aging in 4 domains was created based on responses of investigators conducting these studies and is available for query. The four domains are: * Cognitive Health * Emotional Health * Demographic and Social Factors * Biomedical and Physiologic Factors | healthy aging, cognitive health, demographics, longitudinal study, aging study, late adult human, cognition, emotion, adult human, longitudinal, epidemiology, psychosocial, questionnaire, social factor, physiologic factor | has parent organization: National Institutes of Health | Cognitive impairment, Emotional disorder, Aging | NIA ; NIMH ; NINDS |
nif-0000-00421 | SCR_007390 | Cognitive and Emotional Health Project (CEHP), Cognitive Emotional Health Project: The Healthy Brain, Cognitive Emotional Health Project, Cognitive and Emotional Health Project | 2026-02-14 02:01:31 | 0 | ||||||
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National NeuroAIDS Tissue Consortium Resource Report Resource Website 10+ mentions |
National NeuroAIDS Tissue Consortium (RRID:SCR_007323) | NNTC | biomaterial supply resource, material resource, tissue bank, brain bank | Collects, stores, and distributes samples of nervous tissue, cerebrospinal fluid, blood, and other tissue from HIV-infected individuals. The NNTC mission is to bolster research on the effects of HIV infection on human brain by providing high-quality, well-characterized tissue samples from patients who died with HIV, and for whom comprehensive neuromedical and neuropsychiatric data were gathered antemortem. Researchers can request tissues from patients who have been characterized by: * degree of neurobehavioral impairment * neurological and other clinical diagnoses * history of drug use * antiretroviral treatments * blood and CSF viral load * neuropathological diagnosis The NNTC encourages external researchers to submit tissue requests for ancillary studies. The Specimen Query Tool is a web-based utility that allows researchers to quickly sort and identify appropriate NNTC specimens to support their research projects. The results generated by the tool reflect the inventory at a previous time. Actual availability at the local repositories may vary as specimens are added or distributed to other investigators. | human immunodeficiency virus, nervous tissue, cerebral spinal fluid, blood, tissue, brain, neuromedical data, neuropsychiatric data, tissue, plasma, peripheral blood mononuclear cell, serum, urine, spinal cord, nervous tissue, pituitary gland, trigeminal ganglia, dorsal root ganglion, peripheral nerve, lymph node, liver, spleen, adipose tissue, bone marrow, muscle, hair, heart, thymus, kidney, lung, eye, brain, ante-mortem, post-mortem, normal, subsyndromic, minor cognitive motor disorder, hiv - associated dementia, cytomegalovirus encephalitis, neurological impairment, traumatic brain injury, neurocognitive disease, frozen, fixed, aids, one mind tbi, asymptomatic neurocognitive impairment, minor cognitive disorder, gene array, snp |
is listed by: One Mind Biospecimen Bank Listing is related to: Manhattan HIV Brain Bank is related to: CHARTER - CNS HIV Antiretroviral Therapy Effects Research |
Human immunodeficiency virus, Neurocognitive disease, Normal, Subsyndromic, Minor Cognitive Motor Disorder, HIV - Associated Dementia, Cytomegalovirus Encephalitis, Neurological impairment, Infectious disease | NIMH ; NINDS ; NIH Blueprint for Neuroscience Research |
Public: The NNTC encourages external researchers to submit tissue requests for ancillary studies. | nif-0000-00193 | SCR_007323 | nntc.org, nntc | 2026-02-14 02:01:21 | 11 | |||||
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Olfactory Receptor DataBase Resource Report Resource Website 1+ mentions |
Olfactory Receptor DataBase (RRID:SCR_007830) | ORDB | data repository, storage service resource, data analysis service, analysis service resource, data or information resource, production service resource, service resource, database | Database of vertebrate olfactory receptors genes and proteins. It supports sequencing and analysis of these receptors by providing a comprehensive archive with search tools for this expanding family. The database also incorporates a broad range of chemosensory genes and proteins, including the taste papilla receptors (TPRs), vomeronasal organ receptors (VNRs), insect olfaction receptors (IORs), Caenorhabditis elegans chemosensory receptors (CeCRs), and fungal pheromone receptors (FPRs). ORDB currently houses chemosensory receptors for more than 50 organisms. ORDB contains public and private sections which provide tools for investigators to analyze the functions of these very large gene families of 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. The database aims to house all of the known olfactory receptor and chemoreceptor sequences in both nucleotide and amino acid form and serves four main purposes: * It is a repository of olfactory receptor sequences. * It provides tools for sequence analysis. * It supports similarity searches (screens) which reduces duplicate work. * It provides links to other types of receptor information, e.g. 3D models. The database is accessible to two classes of users: * General public www users have full access to all the public sequences, models and resources in the database. * Source laboratories are the laboratories that clone olfactory receptors and submit sequences in the private or public database. They can search any sequence they deposited to the database against any private or public sequence in the database. This user level is suited for laboratories that are actively cloning olfactory receptors. | fungal, pheromone receptor, gene, chemosensory, chemosensory receptor, g protein-coupled receptor, olfaction receptor, protein, receptor, taste papilla receptor, vomeronasal organ receptor, olfactory receptor, nucleotide, amino acid, chemoreceptor sequence, olfactory receptor sequence, chemoreceptor, sequence |
is used by: NIF Data Federation is listed by: 3DVC is related to: Odor Molecules DataBase is related to: Integrated Manually Extracted Annotation has parent organization: Yale School of Medicine; Connecticut; USA |
Aging | Human Brain Project ; NIMH ; NIA ; NICD ; NINDS ; Multidisciplinary University Research Initiative ; National Aeronautics and Space Administration ; NIDCD RO1 DC 009977; NIDCD P01 DC 04732; NLM G08 LM05583 |
PMID:11752336 PMID:9847223 PMID:9218144 |
Public, Private, Acknowledgement requested, The community can contribute to this resource | nif-0000-03213 | SCR_007830 | Olfactory Receptors Database | 2026-02-14 02:01:26 | 4 | ||||
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Phenotypes and eXposures Toolkit Resource Report Resource Website 50+ mentions |
Phenotypes and eXposures Toolkit (RRID:SCR_006532) | PhenX Toolkit | catalog, data set, data or information resource, service resource, narrative resource, database, standard specification | Set of measures intended for use in large-scale genomic studies. Facilitate replication and validation across studies. Includes links to standards and resources in effort to facilitate data harmonization to legacy data. Measurement protocols that address wide range of research domains. Information about each protocol to ensure consistent data collection.Collections of protocols that add depth to Toolkit in specific areas.Tools to help investigators implement measurement protocols. | PhenX project, genome, phenotype, genome-wide association study, genetic variation, genomic study, substance abuse, addiction, substance use, environmental exposure, disease susceptibility, outcome, bio.tools |
is listed by: bio.tools is listed by: Debian has parent organization: RTI International has parent organization: Consensus Measures for Phenotype and Exposure has parent organization: Trans-Omics for Precision Medicine (TOPMed) Program has organization facet: PhenX Phenotypic Terms is organization facet of: Consensus Measures for Phenotype and Exposure |
NHGRI U01 HG004597; NHGRI U41HG007050; NIDA ; OBSSR ; NIMH ; NHLBI ; NIMHD ; TRSP ; NHGRI U24 HG012556; ODP ; NINDS ; NCI |
PMID:21749974 | Restricted | SCR_017475, biotools:PhenX_toolkit, nlx_144102 | https://bio.tools/PhenX_Toolkit | SCR_006532 | Phenotypes and eXposures Toolkit | 2026-02-14 02:01:18 | 61 | ||||
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PowerMap Resource Report Resource Website 1+ mentions |
PowerMap (RRID:SCR_006721) | PowerMap | software resource | Software tool specifically designed for neuroimaging data that implements theoretical power calculation algorithms based on non-central random field theory. It can also calculate power for statistical analyses with FDR (false discovery rate) corrections. This GUI (graphical user interface)-based tool enables neuroimaging researchers without advanced knowledge in imaging statistics to calculate power and sample size in the form of 3D images. This tool is currently under limited release for beta testing. At this time, only users that have been directed to this site by the PowerMap developers will receive support. | neuroimaging, statistical analyses, false discovery rate, 3d spatial image, power calculation, sample size |
has parent organization: Wake Forest School of Medicine; North Carolina; USA has parent organization: SourceForge |
NINDS NS059793 | PMID:22644868 | Free, Public | nlx_152808 | SCR_006721 | 2026-02-14 02:01:14 | 3 | ||||||
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HED Tags Resource Report Resource Website 1+ mentions |
HED Tags (RRID:SCR_014074) | HED | data or information resource, narrative resource, standard specification | Strategy guide for HED Annotation. Framework for systematically describing laboratory and real world events.HED tags are comma separated path strings. Organized in forest of groups with roots Event, Item, Sensory presentation, Attribute, Action, Participant, Experiment context, and Paradigm. Used for preparing brain imaging data for automated analysis and meta analysis. Applied to brain imaging EEG, MEG, fNIRS, multimodal mobile brain or body imaging, ECG, EMG, GSR, or behavioral data. Part of Brain Imaging Data Structure standard for brain imaging. | Data, structure, standard, EEG, brain, imaging, comma, separated, path, string, analysis, MEG, fNIRS, multimodal, ECG, EMG, GSR, behavioral, BRAIN Initiative |
is used by: NIMH Data Archive is used by: HeadIT is used by: OpenNeuro is recommended by: BRAIN Initiative has parent organization: University of California at San Diego; California; USA |
Swartz Foundation ; Army Research Laboratory Cooperative Agreement ; NIMH R01MH084819; NINDS R01 NS047293 |
PMID:27799907 | Free, Freely available | SCR_017630 | SCR_014074 | Hierarchical Event Descriptor Tags, Hierarchical Event Descriptor, HED, HED tags | 2026-02-14 02:02:56 | 7 | |||||
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NIH Pediatric MRI Data Repository Resource Report Resource Website |
NIH Pediatric MRI Data Repository (RRID:SCR_014149) | NIHPD | data or information resource, image collection, database | A database which contains longitudinal structural MRIs, spectroscopy, DTI and correlated clinical/behavioral data from approximately 500 healthy, normally developing children, ages newborn to young adult. | database, image collection, structural mri, dti, spectroscopy, human brain, child |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: National Institutes of Health |
NICHD ; National Institute on Drug Abuse ; NIMH ; NINDS |
Available to the research community, Access must be granted | http://pediatricmri.nih.gov/nihpd/info/index.html | SCR_014149 | Pediatric MRI Data Repository, NIH MRI Study of Normal Brain Development Pediatric MRI Data Repository | 2026-02-14 02:02:35 | 0 | ||||||
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Intrinsic Unscented Kalman Filter (IUKF) Tractography Software v1.0 Resource Report Resource Website |
Intrinsic Unscented Kalman Filter (IUKF) Tractography Software v1.0 (RRID:SCR_014127) | data visualization software, data processing software, software application, 3d visualization software, software resource | A tractography algorithm for HARDI which provides a relatively accurate and efficient fiber tracking mechanism by reconstructing a bi-tensor model for underlying signals and exploiting intrinsic operations on the space of diffusion tensors. Given HARDI data sets, IUKF is capable of tracking in the presence of complex local geometries, such as crossing and kissing fibers. Reconstruction is only performed at the voxels along estimated fibers. | filter, data visualization software, 3d visualization, tractography, algorithm, fiber tracking, HARDI |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Florida; Florida; USA |
NINDS NS066340 | Available for download | http://www.cise.ufl.edu/~salehian/Softwares.html | SCR_014127 | IUKF Tractography Software v1.0, IUKF Tractography Software, Intrinsic Unscented Kalman Filter Tractography Software, Intrinsic Unscented Kalman Filter Tractography Software v1.0 | 2026-02-14 02:02:56 | 0 | |||||||
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Brain atlas of the common marmoset Resource Report Resource Website |
Brain atlas of the common marmoset (RRID:SCR_005135) | Brain Atlas of the Common Marmoset | data or information resource, atlas | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on October 1, 2019. The first brain atlas for the common marmoset to be made available since a printed atlas by Stephan, Baron and Schwerdtfeger published in 1980. It is a combined histological and magnetic resonance imaging (MRI) atlas constructed from the brains of two adult female marmosets. Histological sections were processed from Nissl staining and digitized to produce an atlas in a large format that facilitates visualization of structures with significant detail. Naming of identifiable brain structures was performed utilizing current terminology. For the present atlas, an adult female was perfused through the heart with PBS followed by 10% formalin. The brain was then sent to Neuroscience Associates of Knoxville, TN, who prepared the brain for histological analysis. The brain was cut in the coronal (frontal) plane at 40 microns, every sixth section stained for Nissl granules with thionine and every seventh section stained for myelinated fibers with the Weil technique. The mounted sections were photographed at the NIH (Medical Arts and Photography Branch). The equipment used was a Nikon Multiphot optical bench with Zeiss Luminar 100 mm lens, and scanned with a Better Light 6100 scan back driven by Better Light Viewfinder 5.3 software. The final images were saved as arrays of 6000x8000 pixels in Adobe Photoshop 6.0. A scale in mm provided with these images permitted construction of the final Nissl atlas files with a horizontal and vertical scale. Some additional re-touching (brightness and contrast) was done with Adobe Photoshop Elements 2.0. The schematic (labeled) atlas plates were created from the Nissl images. The nomenclature came almost exclusively from brainmaps.org, where a rhesus monkey brain with structures labeled can be found. The labels for the MRI images were placed by M. R. Zametkin, under supervision from Dr. Newman. | callithrix jacchus jacchus, marmoset, primate neuroanatomy, callitrichidae, female, forebrain, thalamus, midbrain, brainstem, magnetic resonance imaging, adult, callithrix, histological section, nissl staining, brain, mri | has parent organization: NICHD Developmental Neuroethology - Laboratory of Comparative Ethology | NIH ; NICHD ; NINDS |
PMID:19744521 | THIS RESOURCE IS NO LONGER IN SERVICE. | nlx_144140 | SCR_005135 | Brain Atlas of the Common Marmoset Callithrix jacchus jacchus | 2026-02-14 02:06:25 | 0 |
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