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Resource Name Proper Citation Abbreviations Resource Type Description Keywords Resource Relationships Related Condition Funding Defining Citation Availability Specification URL Alternate IDs Alternate URLs Old URLs Parent Organization Resource ID Synonyms Record Last Update Mentions Count
UBC National Core for Neuroethics
 
Resource Report
Resource Website
UBC National Core for Neuroethics (RRID:SCR_008063) data or information resource, organization portal, job resource, portal It is an interdisciplinary research group dedicated to tackling the ethical, legal, policy and social implications of frontier technological developments in the neurosciences. Our objective is to align innovations in the brain sciences with societal, cultural and individual human values through high impact research, education and outreach. The Core''s major research projects are focused on high impact, high visibility areas including the use of drugs and devices for neuroenhancement, ethics in neurodegenerative disease and regenerative medicine research, international and cross-cultural challenges in brain research, neuroimaging in the private sector, and the ethics of personalized medicine, among others. Members of the Core also lead initiatives aside from their research projects. Sponsors: This Core is supported by the University of Brititsh Columbia. drug, education, ethic, ethical, brain, brain science, human, implication, legal, neurodegenerative disease, neuroenhancement, neuroethics, neuroscience, outreach, policy, regenerative medicine, social, technological development, neuroimaging has parent organization: University of British Columbia; British Columbia; Canada nif-0000-10478 SCR_008063 University of British Columbia, UBC Neuroethics, National Core for Neuroethics 2026-07-28 09:42:16 0
HERMES
 
Resource Report
Resource Website
100+ mentions
HERMES (RRID:SCR_009584) HERMES software application, software toolkit, software resource, data processing software A toolbox for the Matlab environment designed to study functional and effective brain connectivity from neurophysiological data such as multivariate EEG and/or MEG records. It includes also visualization tools and statistical methods to address the problem of multiple comparisons. This toolbox may be very helpful to all the researchers working in the emerging field of brain connectivity analysis. clinical neuroinformatics, computational neuroscience, connectivity analysis, directed transfer analysis, eeg, meg, electrocorticography, granger causality, information theory, matlab, partial directed coherence, transfer entropy analysis, connectivity, brain is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: Polytechnic University of Madrid; Madrid; Spain
Ministry of Education of the Community of Madrid NEUROTEU-CM program S2010/BMD-2460;
Spanish Ministry of Economy and Competitiveness TEC2012-38453-CO4-01;
Spanish Ministry of Economy and Competitiveness TEC2012-38453-CO4-03
GNU General Public License nlx_155770 http://www.nitrc.org/projects/hermes SCR_009584 HERramientas de MEdida de la Sincronizacion 2026-07-28 09:42:22 136
7T Structural MRI scans ATAG
 
Resource Report
Resource Website
1+ mentions
7T Structural MRI scans ATAG (RRID:SCR_014084) data or information resource, data set, atlas Data sets from the atlasing of the basal ganglia (ATAG) consortium, which provides ultra-high resolution 7Tesla (T) magnetic resonance imaging (MRI) scans from young, middle-aged, and elderly participants. They include whole-brain and reduced field-of-view MP2RAGE and T2 scans with ultra-high resolution at a sub millimeter scale. The data can be used to develop new algorithms that help building new high-resolution atlases both in the basic and clinical neurosciences. They can also be used to inform the exact positioning of deep-brain electrodes relevant in patients with Parkinsons disease and neuropsychiatric diseases. 7t mri, data set, atlas, basal ganglia, structural mri scan, brain, human brain, probabilistic atlas is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: University of Amsterdam; Amsterdam; Netherlands
Available for download SCR_014084 2026-07-28 09:43:21 7
ICBM 152 Nonlinear atlases version 2009
 
Resource Report
Resource Website
100+ mentions
ICBM 152 Nonlinear atlases version 2009 (RRID:SCR_008796) data or information resource, atlas, reference atlas Unbiased standard magnetic resonance imaging template brain volume for normal population. These volumes were created using data from ICBM project. 6 different templates are available: * ICBM 2009a Nonlinear Symmetric - template which includes T1w,T2w,PDw modalities, also T2 relaxometry (T2 values calculated for each subject using single dual echo PD/T2 scan), and tissue probabilities maps. Also included lobe atlas used for ANIMAL+INSECT segmentation, brain mask, eye mask and face mask. Intensity inhomogeneity was performed using N3 version 1.10.1. * ICBM 2009a Nonlinear Asymmetric template - template which includes T1w,T2w,PDw modalities, and tissue probabilities maps. Intensity inhomogeneity was performed using N3 version 1.10.1. Also included brain mask, eye mask and face mask. * ICBM 2009b Nonlinear Symmetric - template which includes only T1w,T2w and PDw modalities. * ICBM 2009b Nonlinear Asymmetric - template which includes only T1w,T2w and PDw modalities. * ICBM 2009c Nonlinear Symmetric - template which includes T1w,T2w,PDw modalities, and tissue probabilities maps. Also included lobe atlas used for ANIMAL+INSECT segmentation, brain mask, eye mask and face mask. Intensity inhomogeneity was performed using N3 version 1.11. Sampling is different from 2009a template. * ICBM 2009c Nonlinear Asymmetric template - template which includes T1w,T2w,PDw modalities, and tissue probabilities maps. Intensity inhomogeneity was performed using N3 version 1.11 Also included brain mask, eye mask and face mask.Sampling is different from 2009a template. All templates are describing the same anatomy, but sampling is different. Also, different versions of N3 algorithm produces slightly different tissue probability maps. Tools for using these atlases can be found in the Software section. Viewing the multiple atlas volumes online requires Java browser support. You may also download the templates - see licensing information. magnetic resonance imaging, brain, human, normal is related to: MINC/Atlases
is related to: bic-mni-models
has parent organization: McConnell Brain Imaging Center
nlx_144297 SCR_008796 , BIC ICBM 152 Nonlinear atlases version 2009 2026-07-28 09:42:13 243
NIHPD Objective 1 atlases (4.5 - 18.5y)
 
Resource Report
Resource Website
10+ mentions
NIHPD Objective 1 atlases (4.5 - 18.5y) (RRID:SCR_008794) NIHPD Objective 1 atlases (4.518.5y) data or information resource, atlas, reference atlas An unbiased standard magnetic resonance imaging template brain volume for pediatric data from the 4.5 to 18.5y age range. These volumes were created using data from 324 children enrolled in the NIH-funded MRI study of normal brain development (Almli et al., 2007, Evans and Group 2006). Tools for using these atlases can be found in the Software section. To view the atlases online, click on the appropriate JIV2 link in the Download section. You can download templates constructed for different age ranges. For each age range you will get an average T1w, T2w, PDw maps normalized between 0 and 100 and tissue probability maps, with values between 0 and 1. Also each age range includes a binary brain mask. pediatric, human, mri, brain, child, young human has parent organization: McConnell Brain Imaging Center Normal brain development, Aging PMID:20656036 nlx_144295 SCR_008794 BIC NIHPD Objective 1 atlases (4.518.5y), McConnell Brain Imaging Center NIHPD Objective 1 atlases (4.518.5y) 2026-07-28 09:42:16 11
DPABI
 
Resource Report
Resource Website
1000+ mentions
DPABI (RRID:SCR_010501) DPABI software application, software toolkit, software resource, data processing software Software toolbox for data processing and analysis of brain imaging, evolved from DPARSF (Data Processing Assistant for Resting-State fMRI). neuroimaging, resting-state fmri, brain, analysis, fmri uses: DPARSF
has parent organization: RFMRI.ORG
GNU General Public License nlx_158469 SCR_010501 DPABI: a toolbox for Data Processing & Analysis of Brain Imaging, toolbox for Data Processing and Analysis of Brain Imaging 2026-07-28 09:42:47 1048
Allen Human Reference Atlas, 3D, 2020
 
Resource Report
Resource Website
1+ mentions
Allen Human Reference Atlas, 3D, 2020 (RRID:SCR_017764) data or information resource, atlas, reference atlas Parcellation of adult human brain in 3D, labeling every voxel with brain structure spanning 141 structures. These parcellations were drawn and adapted from prior 2D version of adult human brain atlas. Parcellation, adult, human, brain, 3D, atlas, data is used by: BICCN
has parent organization: Allen Institute
works with: Developing Human Brain Atlas version 2 (DHBAv2)
Allen Institute for Brain Science ;
NIMH U01 MH114812
Free, Available for download, Freely available SCR_017764 2026-07-28 09:44:37 3
Single Cell Portal
 
Resource Report
Resource Website
100+ mentions
Single Cell Portal (RRID:SCR_014816) SCP data or information resource, portal Portal specializes in visualizing and disseminating single cell data. Allows you to use natural language and faceted search to discover other scientists’ research and share your own findings. Each study includes information on cell types, singular or multiple gene expression, and spatial transcriptomics. Interactive visualizations allow to explore cell clusters and search for related genes. Single cell data visualization, disseminating single cell data, single cell data, brain, RNA, rna seq, multiple gene expression, spatial transcriptomics, open science is used by: BRAIN Initiative
is used by: BICCN
is related to: BICCN Anatomy and Morphology Project
is related to: Allen Institute for Brain Science
has parent organization: Broad Institute
has organization facet: Terra
Free, Available for download, Freely available https://portals.broadinstitute.org/single_cell?utf8=✓&search_terms=e+coli&order=&commit= SCR_014816 Single-Cell RNA-Seq Portal for Brain Research 2026-07-28 09:43:33 237
PsychENCODE Knowledge Portal
 
Resource Report
Resource Website
10+ mentions
PsychENCODE Knowledge Portal (RRID:SCR_017500) project portal, data or information resource, database, portal Portal of PsychENCODE Consortium to study role of rare genetic variants involved in several psychiatric disorders. Database of regulatory elements, epigenetic modifications, RNA and protein in brain. Rare, genetic, variant, psychiatric, disorder, regulatory, element, epigenetic, modification, RNA, protein, brain Restricted SCR_017500 2026-07-28 09:44:30 12
Discover Magazine
 
Resource Report
Resource Website
10+ mentions
Discover Magazine (RRID:SCR_008787) Discover blog, data or information resource, narrative resource Popular science magazine which includes news and blogs on topics including Health & Medicine, Mind & Brain, Technology, Space, Human origins, Living World, Environment, and Physics & Math. NIF Indexes include: The Brain: DISCOVER blogger, columnist, and contributing editor Carl Zimmer''s monthly column will make your brain happy. Discover Interview: The magazine''s signature in-depth discussion with the leading lights of the world of science Vital Signs: A medical mystery, as written by the doctor involved. health, medicine, mind, brain, technology, magazine is used by: NIF Data Federation
is used by: Integrated Blogs
is parent organization of: Neuroskeptic
is parent organization of: The Loom
nlx_144214 SCR_008787 2026-07-28 09:42:23 15
HIV Brain Sequence Database
 
Resource Report
Resource Website
1+ mentions
HIV Brain Sequence Database (RRID:SCR_008819) HIVBrainSeqDB data or information resource, database The HIV Brain Sequence Database (HIVBrainSeqDB) is a public database of HIV envelope sequences, directly sequenced from brain and other tissues from the same patients. For inclusion in the database, sequences must: (i) be deposited in Genbank; (ii) include some portion of the HIV env region; (iii) be clonal, amplified directly from tissue; and (iv) be sampled from the brain, or sampled from a patient for which the database already contains brain sequence. Sequences are annotated with clinical data including viral load, CD4 count, antiretroviral status, neurocognitive impairment, and neuropathological diagnosis, all curated from the original publication. Tissue source is coded using an anatomical ontology, the Foundational Model of Anatomy, to capture the maximum level of detail available, while maintaining ontological relationships between tissues and their subparts. 44 tissue types are represented within the database, grouped into 4 categories: (i) brain, brainstem, and spinal cord; (ii) meninges, choroid plexus, and CSF; (iii) blood and lymphoid; and (iv) other (bone marrow, colon, lung, liver, etc). Currently, the database contains 2517 envelope sequences from 90 patients, obtained from 22 published studies. 1272 sequences are from brain; the remaining 1245 are from blood, lymph node, spleen, bone marrow, colon, lung and other non-brain tissues. The database interface utilizes a faceted interface, allowing real-time combination of multiple search parameters to assemble a meta-dataset, which can be downloaded for further analysis. This online resource will greatly facilitate analysis of the genetic aspects of HIV macrophage tropism, HIV compartmentalization and evolution within the brain and other tissue reservoirs, and the relationship of these findings to HIV-associated neurological disorders and other clinical consequences of HIV infection. human immunodeficiency virus, hiv, brain, sequence, hiv envelope sequence, brain sequence, clone, tissue, brainstem, spinal cord, meninges, choroid plexus, csf, blood, lymphoid, bone marrow, colon, lung, liver, aids is related to: FMA
has parent organization: Harvard University; Cambridge; United States
Human immunodeficiency virus ARRA ;
NIMH 3ROI MH83588-12S1;
NIMH MH83588
PMID:21156070 nlx_149217 SCR_008819 The HIV Brain Sequence Database 2026-07-28 09:42:16 1
Molecular Brain: Transcription Profiles of Mouse and Human Brains
 
Resource Report
Resource Website
1+ mentions
Molecular Brain: Transcription Profiles of Mouse and Human Brains (RRID:SCR_008689) data or information resource, database MolecularBrain is an attempt to collect, collates, analyze and present the microarray derived gene expression data from various brain regions side by side. Transcription Profile of any gene in Mouse (online) and Human Brain (not yet) can be accessed as a histogram along with links to access various aspects of that gene. The expression levels were calculated from microarray data deposited at GEO (Gene expression omnibus). The molecular brain database could be searched using the built in search tool with the terms Entrez GeneID, gene symbol, synonym or description. Gene information along with their expression values can be also accessed from the alphabetical list of gene symbols on the footer. The protocol and GEO sample information is available. molecular, molecule, brain, transcription, mouse, human, gene, microarray, data, expression, database, tool, expression, molecular neuroanatomy resource has parent organization: National Institutes of Health nif-0000-37035 SCR_008689 Molecular Brain 2026-07-28 09:42:11 3
Functional Neurogenesis
 
Resource Report
Resource Website
1+ mentions
Functional Neurogenesis (RRID:SCR_008830) Functional Neurogenesis blog, data or information resource, narrative resource A blog focusing on the function of adult neurogenesis in the dentate gyrus of the hippocampus, including discussion of scientific research papers, methods and protocols, and other trends or observations about the field. adult, neurogenesis, dentate gyrus, hippocampus, brain, neuron, anxiety, depressive disorder, memory, plasticity nlx_144587 SCR_008830 Functional Neurogenesis - New neurons in the adult brain. How they work and what they are good for. 2026-07-28 09:42:14 2
Pediatric Imaging Neurocognition and Genetics
 
Resource Report
Resource Website
50+ mentions
Pediatric Imaging Neurocognition and Genetics (RRID:SCR_008953) PING data or information resource, database A large multi-site pediatric MRI and genetics data resource to facilitate studies of the genomic landscape of the developing human brain. It includes information about the developing mental and emotional functions of the children to understand the genetic basis of individual differences in brain structure and connectivity, cognition, and personality. Investigators on the project are studying 1400 children between the ages of 3 and 20 years so that links between genetic variation and developing patterns of brain connectivity can be examined. Investigators interested in the effects of a particular gene will be able to search the database for any brain areas or connections between areas that differ as a function of variation in a particular gene, and also to determine if the genes appear to affect the course of brain development at some point during childhood. A data exploration tool has been created for mapping and analyzing MRI data sets collected for PING and related developmental studies. Approved investigators will be able to view raw image sets and derived 3D brain maps of MRI and DTI data, conduct hypothesis testing, and graph brain area measures as they change across the time course of development. PING Cores * Coordinating Core: Functions include project management, screening of participants and maintaining the database * Neuroimaging Core: applying a standardized high-resolution structural MRI protocol involving 3-D T1-weighted scans, a T2-weighted volume, and a set of diffusion-weighted scans with multiple b values and diffusion directions, scans to estimate MRI relaxation rates, and gradient echo EPI scans for resting state fMRI. Importantly, adaptive motion compensation, using ����??PROMO����??, a novel real-time motion correction algorithm will be used. Specific PING protocols for each scanner manufacturer: ** PING MRI Protocol - GE ** PING MRI Protocol - Philips ** PING MRI Protocol - Siemens * Assessment Core: Cognitive assessments for the PING project are conducted using the NIH Toolbox for Cognition. * Genomics Core: functions as a central repository for receipt of saliva samples collected for each study participant. Once received, samples are catalogued, maintained, and DNA is extracted using state-of-the-field laboratory techniques. Ultimately, genome-wide genotyping is performed on the extracted DNA using the Illumina Human660W-Quad BeadChip. PING involves 10 sites throughout the country including UCSD, University of Hawaii, Scripps Genomics, UCLA, UC Davis, Kennedy Krieger Institute/Johns Hopkins, Sacker Institute/Cornell University, University of Massachusetts, Massachusetts General Hospital/Harvard, and Yale. Families who may want to participate in the study, or others who want to know more about it, may email questions to ping (at) ucsd.edu. pediatric, neuroimaging, genetics, child, early adult human, adolescent, genetic variant, magnetic resonance imaging, brain, gene, brain structure, connectivity, function, brain development, cognition, experimental protocol, saliva, dna, diffusion tensor imaging, image, genotype, dicom, imaging genomics, magnetic resonance, nifti, FASEB list is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: NIH Toolbox - Assessment of Neurological and Behavioral Function
has parent organization: University of California at San Diego; California; USA
has parent organization: Multimodal Imaging Laboratory
NIDA ;
ARRA ;
NICHD
Data Use Agreement required. nlx_151904 http://www.nitrc.org/projects/ping http://ping.chd.ucsd.edu/ SCR_008953 PING Study, Pediatric Imaging Neurocognition and Genetics (PING) 2026-07-28 09:42:25 76
Allen Mouse Brain Connectivity Atlas
 
Resource Report
Resource Website
100+ mentions
Allen Mouse Brain Connectivity Atlas (RRID:SCR_008848) ABA Mouse Connectivity data or information resource, spatially referenced dataset, atlas Map of neural connections in mouse brain, built on an array of transgenic mice genetically engineered to target specific cell types. In addition to the connectivity data, information about the transgenic mouse lines and genetic tracers is available. Consists of high resolution 2-D projectivity image data that can be viewed side-by-side with the associated reference atlas and other reference datasets. Enables 3-D visualization and spatial/ontological search of connectivity models through a combination of manual and informatics analyses. brain, connectivity, atlas, neural, projection, mutant, mouse, strain, image, histology, neuroimaging, data is used by: NIF Data Federation
is related to: Allen Mouse Brain Common Coordinate Framework
has parent organization: Allen Institute for Brain Science
has parent organization: Allen Brain Atlas
Allen Institute for Brain Science Free for academic use, Non-commercial, Acknowledgement required, Commercial use requires permission nlx_146253 http://connectivity.brain-map.org/static/brainexplorer SCR_008848 Allen Brain Atlas Connectivity Study, Allen Brain Mouse Connectivity, Allen Mouse Connectivity Atlas, Allen Brain Atlas Mouse Connectivity 2026-07-28 09:42:17 186
Manually Labeled MRI Brain Scan Database
 
Resource Report
Resource Website
1+ mentions
Manually Labeled MRI Brain Scan Database (RRID:SCR_009604) data or information resource, database Collection of neuroanatomically labeled MRI brain scans, created by neuroanatomical experts. Regions of interest include the sub-cortical structures (thalamus, caudate, putamen, hippocampus, etc), along with ventricles, brain stem, cerebellum, and gray and white matter and sub-divided cortex into parcellation units that are defined by gyral and sulcal landmarks. collection, neuroanatomical, MRI, brain, scan, data, thalamus, caudate, putamen, hippocampus, ventricle, cerebellum, cortex is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: Neuromorphometrics
works with: MRI Neuroanatomy Labeling Services
works with: MRI Neuroanatomy Labeling Services
NIMH R43 MH60507;
NIMH R44 MH60507;
NIMH R43 MH084358
Commercially available nlx_155805 http://www.nitrc.org/projects/manuallabels SCR_009604 2026-07-28 09:42:28 1
Multiple Sclerosis Research Australia Brain Bank
 
Resource Report
Resource Website
Multiple Sclerosis Research Australia Brain Bank (RRID:SCR_010747) MS Research Australia Brain Bank tissue bank, biomaterial supply resource, material resource Biomaterial supply resource which provides high quality and well-chracaterized brain tissue samples for MS research. Registered MS brain donors and their families are kept up to date on the latest progress in MS research. biomaterial supply resource, brain, brain tissue, brain bank, MS, multiple sclerosis is listed by: Multiple Sclerosis Discovery Forum Multiple Sclerosis Trish MS Research Foundation ;
University of Sydney ;
Collier Charitable Fund ;
NSW Government Office for Science and Medical Research ;
MS Research Australia
Free, Freely available SCR_013840, nlx_99028 SCR_010747 2026-07-28 09:42:58 0
Cerebellar Development Transcriptome Database
 
Resource Report
Resource Website
1+ mentions
Cerebellar Development Transcriptome Database (RRID:SCR_013096) CDT-DB data or information resource, database, atlas Transcriptomic information (spatiotemporal gene expression profile data) on the postnatal cerebellar development of mice (C57B/6J & ICR). It is a tool for mining cerebellar genes and gene expression, and provides a portal to relevant bioinformatics links. The mouse cerebellar circuit develops through a series of cellular and morphological events, including neuronal proliferation and migration, axonogenesis, dendritogenesis, and synaptogenesis, all within three weeks after birth, and each event is controlled by a specific gene group whose expression profile must be encoded in the genome. To elucidate the genetic basis of cerebellar circuit development, CDT-DB analyzes spatiotemporal gene expression by using in situ hybridization (ISH) for cellular resolution and by using fluorescence differential display and microarrays (GeneChip) for developmental time series resolution. The CDT-DB not only provides a cross-search function for large amounts of experimental data (ISH brain images, GeneChip graph, RT-PCR gel images), but also includes a portal function by which all registered genes have been provided with hyperlinks to websites of many relevant bioinformatics regarding gene ontology, genome, proteins, pathways, cell functions, and publications. Thus, the CDT-DB is a useful tool for mining potentially important genes based on characteristic expression profiles in particular cell types or during a particular time window in developing mouse brains. gene expression, fluorescence, function, gene, gene chip, genome, bioinformatics, brain, cell, cerebellum, development, in situ hybridization, fluroescence differential display, cerebellar development, microarray, mining, mouse, mrna, ontology, pathway, protein, rt-pcr, molecular neuroanatomy resource, transcriptiome, spatiotemporal, cdna microarray, genechip, postnatal, histochemistry, image, postnatal development is related to: Gene Ontology
is related to: RIKEN integrated database of mammals
has parent organization: RIKEN Brain Science Institute
Brain development, Brain disorder INCF Japan Node ;
Japan Society for the Promotion of Science ;
Japanese Ministry of Education Culture Sports Science and Technology MEXT ;
Japan Science and Technology Agency
PMID:18603407 To be used for research and educational purposes only. Any reproduction or use for commercial purposes is prohibited without the prior express written permission of the RIKEN. nif-0000-00008 SCR_013096 2026-07-28 09:43:13 1
499 fROI atlas
 
Resource Report
Resource Website
50+ mentions
499 fROI atlas (RRID:SCR_014756) data or information resource, atlas THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 29,2023. Atlas of functional ROIs (fROIs) containing 499 regions, with extensive gray matter coverage. Atlases are available for download directly from the website. roi, dmn, fmri, atlas, functional roi, gray matter, grey matter, brain is related to: 90 fROI atlas PMID:26068849 THIS RESOURCE IS NO LONGER IN SERVICE. SCR_014756 Willard atlas 2026-07-28 09:43:55 71
MicrocircuitDB
 
Resource Report
Resource Website
MicrocircuitDB (RRID:SCR_014577) data or information resource, database A database for storing and efficiently retrieving realistic computational models of brain microcircuits and networks. The focus is on microcircuits that are based on experimentally demonstrated properties of neurons and their connectivity. database, microcircuit, micro circuit, brain, neuron, connectivity works with: ModelDB
works with: NeuronDB
Researchers may contribute to this resource SCR_014577 2026-07-28 09:43:28 0

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