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Resource Name Proper Citation Abbreviations Resource Type Description Keywords Resource Relationships Related Condition Funding Defining Citation Availability Website Status Alternate IDs Alternate URLs Old URLs Parent Organization Resource ID Synonyms Record Last Update Mentions Count
Integrated Brain Gene Expression
 
Resource Report
Resource Website
Integrated Brain Gene Expression (RRID:SCR_004197) data or information resource, database Virtual database indexing brain region gene expression data from mice from: Gene Expression Nervous System Atlas (GENSAT), Allen Mouse Brain Atlas, and Mouse Genome Institute (MGI). database, brain gene expression, molecular neuroanatomy resource, brain, gene expression, mouse, gene is used by: NIF Data Federation
is related to: Gene Expression Nervous System Atlas
is related to: Allen Mouse Brain Reference Atlas
is related to: Mouse Genome Informatics (MGI)
is related to: Allen Institute for Brain Science
has parent organization: Integrated
Restricted nlx_22354 https://legacy.neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-4 http://neuinfo.org/nif/nifgwt.html?query=nlx_22354, https://www.neuinfo.org/mynif/search.php?q=*&t=indexable&nif=nlx_22354-1, https://neuinfo.org/mynif/search.php?q=*&t=indexable&list=cover&nif=nlx_154697-4 SCR_004197 NIF Integrated Brain Gene Expression View, NIF Integrated Brain Gene Expression, Integrated BGE, Integrated Brain Gene Expression View, NIF Brain Gene Expression, Brain Gene Expression 2026-02-14 02:05:51 0
Neuroimage Analysis Center
 
Resource Report
Resource Website
1+ mentions
Neuroimage Analysis Center (RRID:SCR_008998) NAC biomedical technology research center, training resource Biomedical Technology Resource Center that develops image processing and analysis techniques for basic and clinical neurosciences. The NAC research approach emphasizes both specific core technologies and collaborative application projects. The core activity of the center is the development of algorithms and techniques for postprocessing of imaging data. New segmentation techniques aid identification of brain structures and disease. Registration methods are used for relating image data to specific patient anatomy or one set of images to another. Visualization tools allow the display of complex anatomical and quantitative information. High-performance computing hardware and associated software techniques further accelerate algorithms and methods. Digital anatomy atlases are developed for the support of both interactive and algorithmic computational tools. Although the emphasis of the NAC is on the dissemination of concepts and techniques, specific elements of the core software technologies have been made available to outside researchers or the community at large. The NAC's core technologies serve the following major collaborative projects: Alzheimer's disease and the aging brain, morphometric measures in schizophrenia and schizotypal disorder, quantitative analysis of multiple sclerosis, and interactive image-based planning and guidance in neurosurgery. One or more NAC researchers have been designated as responsible for each of the core technologies and the collaborative projects. brain, neuroimaging, image processing, image analysis, postprocessing, segmentation, registration, algorithm, technique, brain structure, visualization, neurosurgery has parent organization: Harvard Medical School; Massachusetts; USA Alzheimer's disease, Aging, Schizophrenia, Schizotypal disorder, Multiple Sclerosis, Neurosurgery NIBIB P41 EB015902;
NCRR P41 RR13218
nlx_152643 SCR_008998 Neuroimaging Analysis Center 2026-02-14 02:07:24 8
National Institutes of Health Stem Cell Tables
 
Resource Report
Resource Website
National Institutes of Health Stem Cell Tables (RRID:SCR_008359) NIH Stem Cells data or information resource, data set Data tables providing 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 or precursor cells or those that can proliferate without the demonstrated ability to generate cell types of other tissues. The tables list the tissue from which the cells were derived, the types of cells that developed, the conditions under which differentiation occurred, the methods by which the cells were characterized, and the primary references for the information. ectoderm, endoderm, adipocyte, astrocyte, bone marrow, brain, cardiac, chondrocyte, differentiation, germ layer, hematopoietic stem cell, human, liver, mesenchymal stem cell, mesoderm, mouse, muscle, neuron, neuronal, osteoblast, pancreas, plasticity, platelet, red blood cell, skeletal, skin, spinal cord, neural stem cell, tenocyte, tissue, white blood cell, stem cell, multipotent stem cell, pluripotent stem cell, embryonic stem cell, embryonic primordial germ cell, primordial germ cell, neural progenitor cell, mesenchymal progenitor cell has parent organization: National Institutes of Health NIH nif-0000-25459 http://stemcells.nih.gov/info/scireport/appendixD.asp SCR_008359 2026-02-14 02:07:58 0
Brain Segmentation Testing Protocol
 
Resource Report
Resource Website
Brain Segmentation Testing Protocol (RRID:SCR_009445) Brain Segmentation Testing Protocol data or information resource, data set A free collection of MRI brain images for testing segmentation algorithms. It is available for download to assess the accuracy, reproducibility and sensitivity of MRI segmentation software. It includes data from infants and adults as well as patients with Alzheimer's disease. analyze, magnetic resonance, nifti, oasis, segmentation, software, test data, image collection, mri, segmentation software, infant, adult human, child, alzheimer's disease, brain imaging, data set, research, brain is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
has parent organization: King's College London; London; United Kingdom
PMID:21835253 Available for download nlx_155588 SCR_009445 2026-02-14 02:07:57 0
MGH Center for Morphometric Analysis
 
Resource Report
Resource Website
10+ mentions
MGH Center for Morphometric Analysis (RRID:SCR_000885) material resource, instrument supplier A center dedicated to developing and applying morphometric methods to biomedical imaging data such as high-resolution MRI. The lab uses automated and semi-automated software such that MRI brain images are segmented into anatomical regions of interest. Projects in both basic and applied brain research include research on strokes and tumors; medical image processing research includes shape analysis of anatomical brain regions and measurement and analysis of brain volumes. brain, neuroscience, imaging, mri, magnetic resonance imaging, morphometric, biomedical, software, automated, anatomy is listed by: Eagle I nlx_156387 http://harvard.eagle-i.net/i/0000012e-9721-d0fd-55da-381e80000000 SCR_000885 2026-02-14 02:07:26 15
Whole Brain Catalog Blog
 
Resource Report
Resource Website
Whole Brain Catalog Blog (RRID:SCR_000582) WBC Blog data or information resource, narrative resource, blog THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 6,2023. The blog of the Whole Brain Catalog. crowdsourcing, mouse, brain, cell, neuron, simulation, microscopy, neuroscience, electron microscopy, light microscopy has parent organization: Whole Brain Catalog THIS RESOURCE IS NO LONGER IN SERVICE nlx_144534 SCR_000582 2026-02-14 02:07:17 0
EEG time series Data Sets
 
Resource Report
Resource Website
1+ mentions
EEG time series Data Sets (RRID:SCR_001579) EEG time series data data or information resource, data set Five data sets containing quasi-stationary, artifact-free EEG signals both in normal subjects and epileptic patients were put in the web by Ralph Andrzejak from the Epilepsy center in Bonn, Germany. Each data set contains 100 single channel EEG segments of 23.6 sec duration. eeg, time series, brain, electrical activity, eyes closed, eyes open, intracranial, eeg recording, epileptic seizure is related to: Neural Cipher
has parent organization: Pompeu Fabra University; Barcelona; Spain
Epilepsy, Normal PMID:11736210 Free, Available for download, Freely available nlx_153816 http://epileptologie-bonn.de/cms/front_content.php?idcat=193&lang=3&changelang=3 SCR_001579 2026-02-14 02:07:46 1
Beijing: Short TR Study
 
Resource Report
Resource Website
1+ mentions
Beijing: Short TR Study (RRID:SCR_003502) Beijing Short TR data or information resource, data set Dataset of resting state fMRI scans obtained using two different TR's in healthy college-aged volunteers. Specifically, for each participant, data is being obtained with a short TR (0.4 seconds) and a long TR (2.0 seconds). In addition this dataset contains a 64-direction DTI scan for every participant. The following data are released for every participant: * 8-minute resting-state fMRI scan (TR = 2 seconds, # repetitions = 240) * 8-minute resting-state fMRI scans (TR = 0.4 seconds, # repetitions = 1200) * MPRAGE anatomical scan, defaced to protect patient confidentiality * 64-direction diffusion tensor imaging scan (2mm isotropic) * Demographic information nifti, fmri, resting-state fmri, image collection, early adult human, mprage, diffusion tensor imaging, neuroimaging, brain, demographic has parent organization: Beijing Normal University; Beijing; China
has parent organization: 1000 Functional Connectomes Project
Healthy National Natural Science Foundation of China 30770594;
National High Technology Program of China 2008AA02Z405
Creative Commons Attribution-NonCommercial License nlx_157642 SCR_003502 Beijing Normal University State Key Laboratory of Cognitive Neuroscience and Learning Short TR Sample, BNU Short TR Sample 2026-02-14 02:07:20 6
Quiron-Valencia Sample
 
Resource Report
Resource Website
Quiron-Valencia Sample (RRID:SCR_003538) CQV Sample data or information resource, data set Resting state datasets, including an anatomical as well as a resting state fMRI scan, collected from a community sample in Valencia, Spain. The first release includes data for 45 participants. Participants were instructed to keep their eyes open during the resting state scan, no visual stimulus was presented. The following data are released for every participant: * Scanner Type: Philips Achieva 3T-TX * One high-resolution T1-weighted mprage, defaced to protect patient confidentiality * At least one 6-minute resting state fMRI scan (R-fMRI), eyes open, no visual stimulus presented * Demographic Information demographic, resting state fmri, mprage, philips achieva 3t-tx, neuroimaging, brain, image collection, fmri has parent organization: 1000 Functional Connectomes Project Creative Commons Attribution-NonCommercial License nlx_157647 SCR_003538 2026-02-14 02:07:52 0
Linked Neuron Data
 
Resource Report
Resource Website
Linked Neuron Data (RRID:SCR_003658) LND data or information resource, data set Neuroscience data and knowledge from multiple scales and multiple data sources that has been extracted, linked, and organized to support comprehensive understanding of the brain. The core is the CAS Brain Knowledge base, a very large scale brain knowledge base based on automatic knowledge extraction and integration from various data and knowledge sources. The LND platform provides services for neuron data and knowledge extraction, representation, integration, visualization, semantic search and reasoning over the linked neuron data. Currently, LND extracts and integrates semantic data and knowledge from the following resources: PubMed, INCF-CUMBO, Allen Reference Atlas, NIF, NeuroLex, MeSH, DBPedia/Wikipedia, etc. neuron, brain, neuroscience, protein, gene, neurotransmitter is related to: Common Upper Mammalian Brain Ontology
is related to: Neuroscience Information Framework
is related to: PubMed
is related to: NeuroLex
is related to: MeSH
is related to: DBpedia
is related to: Allen Mouse Brain Reference Atlas
is related to: Allen Institute for Brain Science
has parent organization: Chinese Academy of Sciences; Beijing; China
nlx_157812 SCR_003658 Linked Neuron Data (LND) 2026-02-14 02:07:29 0
Network-based Prediction of Human Tissue-specific Metabolism
 
Resource Report
Resource Website
1+ mentions
Network-based Prediction of Human Tissue-specific Metabolism (RRID:SCR_007392) data or information resource, data set THIS RESOURCE IS NO LONGER IN SERVICE, documented August 23, 2016. Network visualizations in which the expression and predicted flux data are projected over the global human network. These network visualizations are accessible through the supplemental website using the publicly available Cytoscape software (Cline, Smoot et al. 2007). Since many high degree nodes exist in the network, special layouts are required to produce network visualizations that are readily interpretable. To this end we produced network visualizations in which hub nodes are repeated multiple times and hence layouts with a small number of edge crossings can be generated. Contains entries for brain compartments and brain pathways. molecular neuroanatomy resource, brain, pathway, tissue-specific metabolism, human, network-based prediction, cytoscape 2.5, tissue-specific metabolic behavior, network visualization, high degree nodes, hub nodes, currency metabolites, cellular-compartments, cellular compartment, metabolite, cytoplasm, extracellular, lysosome, mitochondrion, nucleus, endoplasmic, peroxisome, metabolic flux is related to: Cytoscape
has parent organization: Tel Aviv University; Ramat Aviv; Israel
THIS RESOURCE IS NO LONGER IN SERVICE nif-0000-00431 SCR_007392 Network-based Prediction of Human Tissue-specific Metabolism 2026-02-14 02:07:23 1
NYU Institute for Pediatric Neuroscience Sample
 
Resource Report
Resource Website
NYU Institute for Pediatric Neuroscience Sample (RRID:SCR_010458) NYU IPN Sample, NYUIQ data or information resource, data set Datasets including a collection of scans from 49 psychiatrically evaluated neurotypical adults, ranging in age from 6 to 55 years old, with age, gender and intelligence quotient (IQ) information provided. Future releases will include more comprehensive phenotypic information, and child and adolescent datasets, as well as individuals from clinical populations. The following data are released for every participant: * At least one 6-minute resting state fMRI scan (R-fMRI) * * One high-resolution T1-weighted mprage, defaced to protect patient confidentiality * Two 64-direction diffusion tensor imaging scans * Demographic information (age, gender) and IQ-measures (Verbal, Performance, and Composite; Weschler Abbreviated Scale of Intelligence - WASI) * Most participants have 2 R-fMRI scans, collected less than 1 hour apart in the same scanning session. Rest_1 is always collected first. adult human, young human, intelligence quotient, child, adolescent, clinical, resting state fmri, t1-weighted, mprage, diffusion tensor imaging, fsiq, viq, piq, neuroimaging, brain, image collection has parent organization: 1000 Functional Connectomes Project
has parent organization: New York University; New York; USA
Neurotypical, Aging Autism Speaks ;
Stavros Niarchos Foundation ;
Leon Levy Foundation ;
Phyllis Green and Randolph Cwen ;
NIMH R01MH083246
Creative Commons Attribution-NonCommercial License nlx_157644 SCR_010458 NYU Phyllis Green and Randolph Cwen Institute for Pediatric Neuroscience Sample 2026-02-14 02:08:15 0
Virginia Tech Carilion Research Institute Sample
 
Resource Report
Resource Website
Virginia Tech Carilion Research Institute Sample (RRID:SCR_010459) VTCRI Sample data or information resource, data set Dataset including a T1 weighted anatomical image as well as two 10-minute resting state scans acquired during the same session from 25 psychiatrically screened healthy adults (community sample) ranging in age from 18 to 65 years old, with age, sex, education level, and ethnicity provided. Some subjects also returned several weeks after the first scan for a second scanning session. The number of days between scan sessions, for subjects that had two sessions, is indicated in the demographics spreadsheet. The study scanning protocol included: # 13 sec localizer # 4 minute 38 second T1 weighted anatomical # Subject given instructions for resting state scan #1 # 10 minute 4 second resting state scan #1 # Subject given instructions for resting state scan #2 # 10 minute 4 second resting state scan #2 Scanning was performed on one of three different 3T Siemens TIM TRIOs at the Human Neuroimaging Lab at Baylor College of Medicine in Houston, Texas. All scans were acquired using the standard Siemen''s TIM 12-channel head matrix. The resting state scans were acquired with a custom sequence that is a slight modification to the standard Siemen''s EPI sequence that supports real-time fMRI. Images were acquired slightly oblique to minimize dephasing in the orbito-frontal cortex. Detailed scanning parameters are included in separate .pdf files. resting state fmri, t1-weighted, mprage, adult human, early adult human, late adult human, middle adult human, image collection, neuroimaging, brain, demographic, fmri, aging has parent organization: 1000 Functional Connectomes Project
has parent organization: Virginia Polytechnic Institute and State University; Virginia; USA
Healthy Creative Commons Attribution-NonCommercial License nlx_157645 SCR_010459 Virginia Tech CRI Sample 2026-02-14 02:07:42 0
BrainColor: Collaborative Open Labeling Online Resource
 
Resource Report
Resource Website
1+ mentions
BrainColor: Collaborative Open Labeling Online Resource (RRID:SCR_006377) BrainCOLOR knowledge environment, data or information resource This resource was created to host descriptions of protocols, definitions and rules for the reliable identification and localization of human brain anatomy and discussions of best practices in brain labeling. Project for manual anatomical labeling of human brain MRI data, and the visual presentation of labeled brain images. atlas, curation, map, mapping, mri, image, brain, label, neurolabel, neuroanatomy is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: Neuromorphometrics
has parent organization: Columbia University; New York; USA
NIMH R43 MH084358;
NIMH MH084029
Free, Available for download, Freely available nif-0000-07727 https://www.binarybottle.com/braincolor/
https://github.com/binarybottle/braincolor
http://www.braincolor.org/ SCR_006377 Neurolabels, Collaborative Open Labeling Online Resource, Neuroanatomical Labeling Methods 2026-02-14 02:05:26 3
Bipolar Disorder Neuroimaging Database
 
Resource Report
Resource Website
1+ mentions
Bipolar Disorder Neuroimaging Database (RRID:SCR_007025) BiND data or information resource, database Database of 141 studies which have investigated brain structure (using MRI and CT scans) in patients with bipolar disorder compared to a control group. Ninety-eight studies and 47 brain structures are included in the meta-analysis. The database and meta-analysis are contained in an Excel spreadsheet file which may be freely downloaded from this website. magnetic resonance imaging assay, cat imaging assay, mri, brain, neuroimaging, normal control, image has parent organization: King's College London; London; United Kingdom Bipolar Disorder King's College London; England; United Kingdom ;
National Institute for Health Research NIHR Biomedical Research Centre for Mental Health ;
South London and Maudsley NHS Foundation ;
MRC
PMID:18762588 nlx_149352 SCR_007025 Bipolar Disorder Neuroimaging Database (BiND) 2026-02-14 02:06:02 3
CoCoMac
 
Resource Report
Resource Website
50+ mentions
CoCoMac (RRID:SCR_007277) CoCoMac data or information resource, database Online access (html or xml) to structural connectivity ("wiring") data on the Macaque brain. The database has become by far the largest of its kind, with data extracted from more than four hundred published tracing studies. The main database, contains data from tracing studies on anatomical connectivity in the macaque cerebral cortex. Also available are a variety of tools including a graphical simulation workbench, map displays and the CoCoMac-Paxinos-3D viewer. Submissions are welcome. To overcome the problem of divergent brain maps ORT (Objective Relational Transformation) was developed, an algorithmic method to convert data in a coordinate- independent way based on logical relations between areas in different brain maps. CoCoMac data is used to analyze the organization of the cerebral cortex, and to establish its structure- function relationships. This includes multi-variate statistics and computer simulation of models that take into account the real anatomy of the primate cerebral cortex. This site * Provides full, scriptable open access to the data in CoCoMac (you must adhere to the citation policy) * Powers the graphical interface to CoCoMac provided by the Scalable Brain Atlas * Sports an extensive search/browse wizard, which automatically constructs complex search queries and lets you further explore the database from the results page. * Allows you to get your hands dirty, by using the custom SQL query service. * Displays connectivity data in tabular form, through the axonal projections service. CoCoMac 2 was initiated at the Donders Institute for Brain, Cognition and Behaviour, and is currently supported by the German neuroinformatics node and the Computational and Systems Neuroscience group at the Juelich research institute. brain, macaque, non-human primate, connectivity, microcircuitry, prefrontal cortex, neural network, structure, function, neuroanatomy, brain circuitry, axonal projection, data repository, visualization, atlas application, computational neuroscience, magnetic resonance, ontology, php, tractography, web environment, software, FASEB list is used by: NIF Data Federation
is used by: Integrated Nervous System Connectivity
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: Scalable Brain Atlas
has parent organization: German Neuroinformatics Node (G-Node)
is parent organization of: CoCoMac-Paxinos3D viewer
DFG ;
Heinrich-Heine University of Dusseldorf; Dusseldorf; Germany ;
Wellcome Trust
PMID:23293600
PMID:11545697
PMID:15319511
PMID:15971361
PMID:10703043
Open Access nif-0000-00022 http://www.nitrc.org/projects/cocomac
http://134.95.56.239/home.asp
http://cocomac.org/, http://cocomac.g-node.org/drupal/ SCR_007277 CoCoMac Brain Connectivity Database, Collations of Connectivity Data on the Macaque Brain, CoCoMac (Collations of Connectivity Data on the Macaque Brain) 2026-02-14 02:06:36 57
Open Access Series of Imaging Studies
 
Resource Report
Resource Website
100+ mentions
Open Access Series of Imaging Studies (RRID:SCR_007385) OASIS data or information resource, database Project aimed at making neuroimaging data sets of brain freely available to scientific community. By compiling and freely distributing neuroimaging data sets, future discoveries in basic and clinical neuroscience are facilitated. early, stage, alzheimer, disease, mri, fmri, image, brain, dicom, magnetic, resonance, collection, data, FASEB list is used by: NIF Data Federation
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: Automatic Registration Toolbox
is related to: 2012 MICCAI Multi-Atlas Labeling Challenge Data
has parent organization: Howard Hughes Medical Institute
has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA
has parent organization: Biomedical Informatics Research Network
is parent organization of: Cover Pages
Alzheimer's disease, Dementia, Normal, Nondemented, Aging NIA P50 AG05681;
NIA P01 AG03991;
NIA R01 AG021910;
NIMH P50 MH071616;
NCRR U24 RR021382;
NIMH R01 MH56584
Free, Acknowledgement required r3d100012182, nif-0000-00387 http://www.nitrc.org/projects/oasis
https://doi.org/10.17616/R3RS8K
SCR_007385 The Open Access Series of Imaging Studies, Open Access Series of Imaging Studies, OASIS 2026-02-14 02:06:36 299
BrainTechSci.
 
Resource Report
Resource Website
BrainTechSci. (RRID:SCR_000113) data or information resource, narrative resource, blog Blog about brain technology and science news that covers topics such as high-resolution brain imaging, brain maps API and whole-brain atlases. brain, science, blog, technology, writing, education Free nlx_51508 SCR_000113 BrainTechSci 2026-02-14 02:05:59 0
BAMS Connectivity
 
Resource Report
Resource Website
1+ mentions
BAMS Connectivity (RRID:SCR_000561) data or information resource, database THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 9,2022. Database of information about brain region circuitry, it collates data from the literature on tract tracing studies and provides tools for analysis and visualization of connectivity between brain regions., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. brain, neural circuitry, connectivity, brain region, neuroanatomy, neuronal tract tracing, connectome is used by: NIF Data Federation
is related to: Integrated Manually Extracted Annotation
has parent organization: Brain Architecture Management System
THIS RESOURCE IS NO LONGER IN SERVICE nlx_144138 http://brancusi.usc.edu/bkms/, http://brancusi.usc.edu/ SCR_000561 Brain Architecture Management System Connectivity Data 2026-02-14 02:05:32 1
ScienceBlogs: Brain and Behavior
 
Resource Report
Resource Website
ScienceBlogs: Brain and Behavior (RRID:SCR_005159) Sb Brain and Behavior, Sb Brain & Behavior data or information resource, narrative resource, blog ScienceBlogs posts about Brain & Behavior. brain, behavior is used by: NIF Data Federation
is used by: Integrated Blogs
has parent organization: ScienceBlogs
nlx_144204 SCR_005159 ScienceBlogs: Brain Behavior, ScienceBlogs - Brain and Behavior, ScienceBlogs: Brain & Behavior 2026-02-14 02:05:55 0

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