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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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PsychENCODE Knowledge Portal Resource Report Resource Website 10+ mentions |
PsychENCODE Knowledge Portal (RRID:SCR_017500) | data or information resource, database, portal, project 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 | 2026-09-05 06:30:53 | 15 | |||||||||||
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Registration Software Mitra Lab Resource Report Resource Website |
Registration Software Mitra Lab (RRID:SCR_018353) | data processing software, software application, software resource | Software package to align brain slice images in atlas free manner. | Align, brain, brain slice, brain slice image, atlas free manner | Free, Available for download, Freely available | SCR_018353 | 2026-09-05 06:30:55 | 0 | |||||||||||
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MGH Center for Morphometric Analysis Resource Report Resource Website 10+ mentions |
MGH Center for Morphometric Analysis (RRID:SCR_000885) | instrument supplier, material resource | 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 | 2026-09-05 06:33:20 | 15 | |||||||||
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Whole Brain Catalog Blog Resource Report Resource Website |
Whole Brain Catalog Blog (RRID:SCR_000582) | WBC Blog | blog, data or information resource, narrative resource | 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 | 2026-09-05 06:33:19 | 0 | ||||||||
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fMRI Research Center at Columbia Resource Report Resource Website 10+ mentions |
fMRI Research Center at Columbia (RRID:SCR_002658) | PICS | access service resource, core facility, service resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented on 7/28/13. Core facility of Columbia Neuroscience with the goal of establishing a collaborative and multi-investigator neuroimaging environment that is focused on the investigation of the neurocircuitry of the brain that underlies cognition, perception and action, and also the development of clinical applications that enhance the goals of personalized medicine. Within this environment the specific current research interests of the Hirsch group include several related directions of investigation. The first is conscious and subconscious neural processes that mediate emotion and cognition in healthy individuals and in patients with psychiatric disorders. This direction also includes neurocircuitry that is characteristic of disorders of consciousness such as minimally conscious or vegetative states, self and visual awareness, and attention. Neurocircuitry of other complex cognitive processes such as decisions, inductive and deductive reasoning, language, truthfulness and top-down influences of expectation, reward, and regulation on early visual and mid-level perceptual and emotional systems. On-going projects targeted for clinical applications include benefits for neurosurgery such as the development of task batteries to map the cortical locations of essential functions such as language, motor, sensation, memory, emotion and sensory functions including visions, audition and the chemical senses. Computational innovations for labeling correspondence between brain structure and specific functional regions are under development to achieve the highest interpretive precision. Current projects include integration of EEG and fMRI techniques to localize seizuregenic cortex in relation to eloquent and functioning cortex for neurosurgical planning; integration of TMS and fMRI to discriminate essential and associative language-sensitive cortical areas; and integration of VEP, EEG and fMRI to inform assessments of visual disease secondary to stroke or neural degeneration. Projects intended to refine and enhance diagnosis of psychiatric disorders such as anxiety, depression, and eating disorders include development of specialized paradigms to target dysfunctional neurocircuitry such as emotional systems (amygdala and basal ganglia) and control and regulatory systems (cingulate and pre-frontal cortex). Comparison of before-treatment images with after-treatment images to inform models of both treatment and disease and investigation of the hypothesis that individual genetic and functional differences have predictive value for treatment options and outcome are currently underway. The lab has pioneered techniques for functional mapping of single patients, and operates an active clinical service for mapping individuals for neurosurgical planning, assessments of the neurocircuitry that underlie acquired or inherited disabilities and the mechanisms of neuroplasticity that restore lost functions are actively investigated using both groups and single subject studies. : | fmri, imaging, neuroscience, cognitive sciences, cognition, perception, action, clinical, personalized medicine, neuroimaging, neurocircuitry, brain, vep, eeg | has parent organization: Columbia University; New York; USA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00405 | SCR_002658 | Program for Imaging and Cognitive Sciences, Program for Imaging & Cognitive Sciences | 2026-09-05 06:33:23 | 41 | |||||||
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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 | 2026-09-05 06:33:22 | 1 | |||||
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Laboratory of Neuro Imaging Resource Report Resource Website 50+ mentions |
Laboratory of Neuro Imaging (RRID:SCR_001922) | LONI | biomedical technology resource center, training resource | Biomedical technology resource center specializing in novel approaches and tools for neuroimaging. It develops novel strategies to investigate brain structure and function in their full multidimensional complexity. There is a rapidly growing need for brain models comprehensive enough to represent brain structure and function as they change across time in large populations, in different disease states, across imaging modalities, across age and sex, and even across species. International networks of collaborators are provided with a diverse array of tools to create, analyze, visualize, and interact with models of the brain. A major focus of these collaborations is to develop four-dimensional brain models that track and analyze complex patterns of dynamically changing brain structure in development and disease, expanding investigations of brain structure-function relations to four dimensions. | anatomic, animal, brain, brain function, brain structure, cerebral metabolism, human, mapping, neurobiological, software, neuroimaging, fmri, mri, neuroimaging, software, brain mapping, computational software, magnetic resonance |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Wavelet Analysis of Image Registration is related to: Sub-Volume Thresholding Analysis is related to: jViewbox is related to: MultiPhase-SEG is related to: LONI Java Image I/O Plugins is related to: DualSurfaceMin is related to: Charged Fluid Model for Brain Image Segmentation is related to: MINC/Atlases has parent organization: University of Southern California Keck School of Medicine; California; USA is parent organization of: Center for Computational Biology at UCLA is parent organization of: LONI Visualization Tool is parent organization of: International Consortium for Brain Mapping is parent organization of: LONI Provenance Editor is parent organization of: TetraMetrix is parent organization of: Synchronized Histological Image Viewing Architecture is parent organization of: LONI ShapeViewer is parent organization of: LONI ShapeTools is parent organization of: FFT Library is parent organization of: Mouse BIRN Atlasing Toolkit is parent organization of: MGH-USC Human Connectome Project is parent organization of: Mouse Connectome Project is parent organization of: LONI Inspector is parent organization of: Parkinson's Progression Markers Initiative is parent organization of: BrainSolution is parent organization of: BrainGraph Editor is parent organization of: INVIZIAN is parent organization of: LONI Brain Parser is parent organization of: LONI De-identification Debablet is parent organization of: iTools is parent organization of: Pipeline Neuroimaging VirtualEnvironment is parent organization of: MultiTracer is parent organization of: International Consortium for Brain Mapping |
NCRR 5 P41 RR013642 | LONI Software License | nif-0000-10494 | http://www.nitrc.org/projects/loni | http://loni.ucla.edu/ | SCR_001922 | UCLA Laboratory of Neuro Imaging, Laboratory of Neuroimaging, UCLA LONI, USC Laboratory of Neuro Imaging | 2026-09-05 06:33:22 | 65 | ||||
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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 | 2026-09-05 06:33:24 | 6 | |||||
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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 | 2026-09-05 06:33:24 | 0 | ||||||||
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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) | 2026-09-05 06:33:24 | 0 | ||||||||
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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 | 2026-09-05 06:33:28 | 1 | ||||||||
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Brain Health Registry Resource Report Resource Website 10+ mentions |
Brain Health Registry (RRID:SCR_010230) | Brain Health Registry | patient registry, people resource | A website aimed at recruiting and assessing subjects for all types of neuroscience studies with the internet. The hope is to accelerate various types of observational studies and clinical trials, and also reduce costs. They are interested in having people, including healthy subjects of all ages, join the registry. Joining only takes a few minutes. The web-based project is designed to speed up cures for Alzheimer's, Parkinson's and other brain disorders. It uses online questionnaires and online neuropsychological tests (which are very much like online brain games). | questionnaire, brain test, brain, health, neuropsycholgoical test, game, clinical trial | has parent organization: University of California at San Francisco; California; USA | Alzheimer's disease, Parkinson's disease, Depressive Disorder, Traumatic brain injury, Brain disorder, Post-Traumatic Stress Disorder, Aging | Free, The community can contribute to this resource | nlx_156798 | SCR_010230 | 2026-09-05 06:32:53 | 14 | |||||||
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Maritime Brain Tissue Bank Resource Report Resource Website |
Maritime Brain Tissue Bank (RRID:SCR_013838) | MBTB | biomaterial supply resource, material resource | A biomaterial supply resource which supplies brain tissue for researchers studying dementia and other neurodegenerative diseases. The Maritime Brain Tissue Bank archives tissues related to Alzheimer's Disease, mixed dementias, Lewy Body Disease, and Huntington's Disease, among others. | biomaterial supply resource, brain, brain tissue, dementia, neurodegenerative disease |
is listed by: Multiple Sclerosis Discovery Forum is related to: Multiple Sclerosis Discovery Forum |
Alzheimer's Disease, Mixed Dementias, Vascular Dementia, Lewy Body Disease, Progressive Supranuclear Palsy, Parkinson's Disease, Frontotemporal Dementia, Huntington's Disease, Multiple System Atrophy | Alzheimer Society of Nova Scotia ; Dalhousie University ; Capital District Health Authority |
Available to the research community, The community can contribute to this resource | SCR_013838 | 2026-09-05 06:32:56 | 0 | |||||||
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Netherlands Brain Bank Resource Report Resource Website 100+ mentions |
Netherlands Brain Bank (RRID:SCR_013841) | NBB | biomaterial supply resource, material resource | A biomaterial supply resource which collects, stores, and disseminates diseased and healthy brain tissue. The Netherlands Brain Bank currently contains more than 3600 samples, and each sample includes a neuropathological report and donor medical history. The samples can additionally be matched with ante-mortem parameters and post-mortem parameters upon request. Sample types include cortex, spinal cord, cerebrospinal fluid, plasma, and DNA, among others. Database mining is available with a financial contribution. | biomaterial supply resource, brain, brain tissue, brain bank, diseased tissue, healthy tissue, FASEB list |
is listed by: Multiple Sclerosis Discovery Forum is related to: Multiple Sclerosis Discovery Forum |
Stichting MS Research ; Vrienden Loterij ; Stichting Parkinson Fonds ; Hersenstichting Nederland Breinbekend Werk ; Zabawas ; private donations |
Free, Available to the research community, The community can contribute to this resource, Some services require a contribution | SCR_013841 | 2026-09-05 06:32:56 | 186 | ||||||||
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Newcastle Brain Tissue Resource Resource Report Resource Website |
Newcastle Brain Tissue Resource (RRID:SCR_013843) | biomaterial supply resource, material resource | A biomaterial supply resource which archives and disseminates brain tissue for the study of normal brain aging and brain disorders. Researchers must create an account in order to browse the database of available tissue. Samples are distributed to researchers in such a way that the identity and personal information of donors is protected. | biomaterial resource, brain, brain tissue, brain bank, brain aging, brain disorder |
is listed by: Multiple Sclerosis Discovery Forum is related to: Multiple Sclerosis Discovery Forum has parent organization: Newcastle University; Newcastle upon Tyne; United Kingdom |
Medical Research Council ; NHS |
Available to the research community | SCR_013843 | 2026-09-05 06:32:57 | 0 | |||||||||
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Mosaic Resource Report Resource Website 1+ mentions |
Mosaic (RRID:SCR_017408) | software resource, software toolkit | Mosaic software features apps designed to help you derive deeper insights from videos of large scale circuit dynamics by Inscopix Inc. | Derive, deeper, insight, video, large, scale, circuit, dynamic, brain, Inscopix Inc. | PMID:26914316 | Restricted | SCR_017408 | 2026-09-05 06:33:02 | 9 | ||||||||||
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Autopatcher Resource Report Resource Website 1+ mentions |
Autopatcher (RRID:SCR_017464) | software application, software resource | Software tool for neuronal recording in intact brain. | Neuronal, recording, intact, brain, BRAIN Initiative | is recommended by: BRAIN Initiative | NIMH MH106027 | PMID:29297466 | Free, Available for download, Freely available | SCR_017464 | 2026-09-05 06:33:03 | 2 | ||||||||
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LESYMAP Resource Report Resource Website 10+ mentions |
LESYMAP (RRID:SCR_017967) | software resource, software toolkit | Software R package to conduct lesion-to-symptom mapping from human MRI data.Takes lesion maps and cognitive performance scores from patients with stroke, and maps brain areas responsible for cognitive deficit. | Conduct, lesion, symptom, mapping, human, MRI, data, cognitive, performance, score, patient, brain, area, deficit | Free, Available for download, Freely available | https://dorianps.github.io/LESYMAP/ | SCR_017967 | Lesion to Symptom Mapping | 2026-09-05 06:33:03 | 14 | |||||||||
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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 | 2026-09-05 06:33:29 | 8 | ||||||
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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 | 2026-09-05 06:33:28 | 0 |
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