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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
Neuroanatomy Atlas
 
Resource Report
Resource Website
Neuroanatomy Atlas (RRID:SCR_002402) Neuroanatomy Atlas atlas, data or information resource Annotated magnetic resonance brain images, both slices and surface views, normalized to Talairach space, along with annotations and a nice tutorial on image normalization. A viewer for MRI images (MRicro) is available and is described in a separate entry. Series of coronal, axial and sagittal brain slices along with some rendered volumes with major brain structures delineated. Slices are presented as static series with partial overlap of slices, so they are not suitable for 3d reconstruction. This neuroanatomy atlas shows regions on normalized MRI scans. Normalization is the process of warping a brain to match a standard size, orientation and shape of other brains. You can normalize MRI scans using programs like AIR, FLIRT or SPM. Once normalized, the overall shape of your MRI scan will approximately match those in this atlas. However, normalization preserves the unique sulcal features of each brain, so there will be some variation between your image and the images shown in this atlas. There is a great deal of individual variability even after normalization, so any atlas is only a rough guide to the shape and location of structures in an individuals brain. As I have noted before, secondary and tertiary sulci are not found in all individuals (Ono et al. 1990, Atlas of Cerebral Sulci). Another benefit of normalizing brains is it makes it easy to complete an accurate "scalp stripping" with brain extracting software (my MRIcro software implements Steve Smith's BET for this task). You can then create a useful volume rendering of the cortical surface. Typically, it is much easier to identify cortical sulci and gyri by looking at a rendered image of the brain's surface. This atlas shows you how to recognize these landmarks on a rendered MRI scan. magnetic resonance imaging, neuroanatomy, brain has parent organization: University of South Carolina; South Carolina; USA Free, Available for download, Freely available nif-0000-00121 SCR_002402 2026-09-05 06:31:17 0
Brainvox
 
Resource Report
Resource Website
1+ mentions
Brainvox (RRID:SCR_009448) data processing software, image analysis software, software application, software resource An interactive 3D rendering and neuroanatomical analysis package developed for analyzing focal brain lesions and functional brain imaging data (Damasio and Frank, 1991; Frank, Damasio and Grabowski, 1997). magnetic resonance, neuroanatomical analysis, software package, 3d, interactive, brain is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is related to: INCF Software Center
PMID:9038281 Available for download nlx_155592 SCR_009448 2026-09-05 06:30:45 1
Brain.io
 
Resource Report
Resource Website
Brain.io (RRID:SCR_014527) data or information resource, portal, project portal A startup research, development and innovation company based in The Grand Duchy of Luxembourg working on four major areas: Open Research, as Information Hub; Information Technology, as The Common Brain; Collective Awareness, as Manifesto; and Biophysics, as Human Extensibility. The Information Hub researches a methodology to conduct open research using a collaborative approach designed for multi-disciplinary interventions, multi-scope goal alignment, advanced analytics and a unified research experience for international cooperation. The Common Brain researches an open source intelligent architecture for future internet, one that is deeply sustainable over a highly distributed hybrid network, self-governed, heterogenous, and logical. Manifesto researches a methodology for a collaborative approach for policy making, open standardization, accreditation, verification and compliance. Human Extensibility researches the establishment of the scientific ground for a field of science concerned with the study of the physics and physiology of the human being, to provide techniques and genetic algorithms for human extensibility. brain, startup, research, information hub, common brain, manifesto, human extensibility, open research, information technology, collective awareness, biophysics SCR_014527 Brain.io The Path to Paradigm Shift 2026-09-05 06:30:49 0
BROCCOLI
 
Resource Report
Resource Website
10+ mentions
BROCCOLI (RRID:SCR_014093) data processing software, image analysis software, software application, software resource A software package written in OpenCL (Open Computing Language) that can be used for parallel analysis of fMRI data on a large variety of hardware configurations. If BROCCOLI is running on a GPU, it can perform non-linear spatial normalization to a 1 mm brain template in 4-6 s and run a second level permutation test with 10,000 permutations. software package, parallel analysis, fmri, non linear spatial normalization, brain is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) Free https://github.com/wanderine/BROCCOLI/ SCR_014093 2026-09-05 06:30:48 22
BIDS Validator
 
Resource Report
Resource Website
10+ mentions
BIDS Validator (RRID:SCR_017255) data processing software, software application, software resource Software validation tool that checks submitted folder structure for compliance to BIDS data standard. Validates Brain Imaging Data Structure. BIDS, NeuroImaging, Neuroscience, check, folder, structure, compliance, data, standard, brain, imaging is listed by: OMICtools Laura and John Arnold Foundation ;
NIBIB R01 EB020740
PMID:28278228 Free, Available for download, Freely available http://bids-standard.github.io/bids-validator/ SCR_017255 Brain Imaging Data Structure (BIDS) Validator 2026-09-05 06:30:53 26
brainlife.io
 
Resource Report
Resource Website
1+ mentions
brainlife.io (RRID:SCR_016513) data or information resource, portal Platform for publishing reproducible code and datasets and providing access to national supercomputers, private clouds, and institutional high-performance computer systems to promote open software and data sharing to advance understanding of the human brain. human, brain, life, data, application, technology, share, open, software, reproducible, code, dataset, has parent organization: Indiana University Bloomington; Indiana; USA
works with: brainlife
NSF BCS 1734853;
NSF IIS 1636893
DOI:10.1038/s41597-019-0073-y Public, Free, Freely available, Login required https://github.com/brain-life SCR_016513 2026-09-05 06:30:51 1
BraTS
 
Resource Report
Resource Website
1+ mentions
BraTS (RRID:SCR_016214) data or information resource, organization portal, portal Organization that provides a conference about the methods for the segmentation of brain tumors in magnetic resonance imaging (MRI) scans. Its conferences utilize multi-institutional pre-operative MRI scans and focus on the segmentation of intrinsically heterogeneous (in appearance, shape, and histology) brain tumors, namely gliomas. brain, neuroscience, tumor, cancer, segmentation, mri, neuroimaging, glioma, patient, conference, event SCR_016214 BraTS: Multimodal Brain Tumor Segmentation, Multimodal Brain Tumor Segmentation 2026-09-05 06:30:51 8
Mouse Connectome Project
 
Resource Report
Resource Website
Mouse Connectome Project (RRID:SCR_017313) MCP data or information resource, portal, project portal Project to create complete mesoscale connectivity atlas of the C57Black/6 mouse brain and to subsequently generate its global neural networks. mesoscale, connectivity, atlas, C57Black/6, mouse, brain, neural, network is used by: BICCN
has parent organization: University of Southern California; Los Angeles; USA
NIH Free, Freely available SCR_017313 The Mouse Connectome Project, Mouse Connectome Project 2026-09-05 06:30:53 0
Compilation of Genetics Resource Databases
 
Resource Report
Resource Website
50+ mentions
Compilation of Genetics Resource Databases (RRID:SCR_017501) data or information resource, portal Portal provides list of genetic resources such as Brain Atlases and genomes for various species provided by National Institute of Drug Abuse. Genetic, data, brain, atlas, information, National, Institute, Drug, Abuse, FASEB list Restricted SCR_017501 2026-09-05 06:30:53 61
HeuDiConv: a heuristic-centric DICOM converter
 
Resource Report
Resource Website
10+ mentions
HeuDiConv: a heuristic-centric DICOM converter (RRID:SCR_017427) HeuDiConv data processing software, software application, software resource Software tool as flexible DICOM converter for organizing brain imaging data into structured directory layouts. Flexible, DICOM, converter, organizing, brain, image, data, structured, directory, layout is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) http://www.nitrc.org/projects/heudiconv/ SCR_017427 heudiconv, heuristic-centric DICOM converter 2026-09-05 06:30:53 34
Mononucleotide Repeat Frameshift Portal
 
Resource Report
Resource Website
Mononucleotide Repeat Frameshift Portal (RRID:SCR_021125) MORF data or information resource, organization portal, portal Portal devoted to suite of MORF reporter mice labels of Cre positive neurons and glia distributed stochastically throughout brain and can be imaged with endogenous fluorescence (mNeonGreen in MORF1 and EGFP in TIGRE-MORF) or stained for multivalent immunoreporter (Spaghetti Monster fluorescent protein V5, or smFP-V5, in MORF3). MORF technology used to label and reconstruct thousands genetically defined cells per brain for large scale, unbiased classification and quantitative analyses of CNS cell types brainwide. Sparsely label genetically defined neuronal populations, reporter mouse lines, Cre-dependent sparse cell labeling methodology, MORF stochastic translational switch, integrating molecular, morphological properties, connectomic properties, unbiased classification, neuronal cell types, brain has parent organization: University of California at Los Angeles; California; USA PMID:32795398 Free, Freely available SCR_021125 MOnonucleotide Repeat Frameshift, MORF portal 2026-09-05 06:30:57 0
Using our Brains Tissue Donor Program
 
Resource Report
Resource Website
1+ mentions
Using our Brains Tissue Donor Program (RRID:SCR_000705) UoB biomaterial supply resource, material resource An Australian brain bank which aims to collect, store, characterize and provide tissue to national and international researchers studying disorders of the brain such as alcohol-related brain damage and mental illness, like schizophrenia. The program encourages those who are medically healthy to donate. brain, tissue, donate, bank, disorder, alcohol, damage, mental, illness, schizophrenia, neuroscience, health, disease, community has parent organization: University of Sydney; Sydney; Australia nif-0000-30212 SCR_000705 2026-09-05 06:32:22 1
Colorado Assessment Tests - Tower of London
 
Resource Report
Resource Website
Colorado Assessment Tests - Tower of London (RRID:SCR_003507) CAT Tower of London assessment test provider, material resource CATs Tower of London test is a free, computer-based software test originally developed by Shallice (1982) to investigate problem solving in subjects with damage to the frontal lobes. The CATs Tower of London Test comes with one preprogrammed test along with extensive normative data for that test. You can also create a test using your design. Briefly, subjects are required to move colored beads from a window on the left (working area) until they achieve the arrangement in the window on the right (goal position). Subjects are instructed to try to achieve the goal arrangement in as few moves as possible. The software contains a Tower of London test. The test contains trials with 3 beads and 3 pegs, 4 beads and 4 pegs, and 5 beads and 5 pegs. You can use the Setup screen to create a test using your design. A test can contain 3, 4, and 5 bead problems with varying number of moves required for the optimal solution. In Shallice's initial investigation using the Tower of London, patients with damage to the left anterior frontal lobe demonstrated impaired planning (i.e., greater number of moves required for solution). Patients with damage to the right anterior, and left or right posterior areas of the frontal lobes were not impaired. Thus, results from this initial study provided support for the view that the left anterior frontal lobe area is involved in the planning required for solving the Tower of London test. Recent studies using neuroimaging techniques support this notion. Studies using regional cerebral blood flow (rCBF) imaging indicate an involvement of the left frontal lobes in the planning required for successfully completing the Tower of London puzzle. Studies of patients with damage to the frontal lobes indicate less cortical specificity, but are consistent with the view that the frontal lobes are involved in the planning required for solving this puzzle. frontal lobe, assessment, brain, human, left anterior frontal lobe, left frontal lobe, left mesial frontal lobe, problem solving has parent organization: University of Colorado; Colorado Springs; USA nif-0000-00208 http://www.catstests.com/Product03.htm SCR_003507 Tower of London 2026-09-05 06:32:29 0
Pleiades Promoter Project: Genomic Resources Advancing Therapies for Brain Disorders
 
Resource Report
Resource Website
1+ mentions
Pleiades Promoter Project: Genomic Resources Advancing Therapies for Brain Disorders (RRID:SCR_003282) Pleiades Promoter Project biomaterial supply resource, material resource Project to generate human DNA promoters of less than 4 kb (MiniPromoters) to drive gene expression in defined brain regions of therapeutic interest for diseases such as Alzheimer, Parkinson, Huntington, Amyotrophic Lateral Sclerosis, Multiple Sclerosis, Spinocerebellar Ataxia, Depression, Autism, and Cancer. Project develops and shares tools like human MiniPromoters that drive region- and cell-specific gene expression in the mouse brain, expression constructs, mouse embryonic stem cell lines, and knock-in mice all of which carry brain-specific MiniPromoters. Project is daughter of Genome Canada Project, Atlas of Gene Expression in Mouse Development, within which mouse brain gene expression data have already been gathered. Project team has collaborated with International BioPharma Solutions Ltd., management and communications consulting company specializing in product development and commercialization advice. Project will explore challenging interface between science and journalism with focus on genomics and gene therapy. Human, DNA, promoter, gene, expression, brain, disorder, therapy is listed by: One Mind Biospecimen Bank Listing
is related to: CanEuCre
is related to: JAX Cre Repository
is related to: Recombinase (cre) Activity
has parent organization: University of British Columbia; British Columbia; Canada
Alzheimer, Parkinson, Huntington, Amyotrophic Lateral Sclerosis, Multiple Sclerosis, Spinocerebellar Ataxia, Depression, Autism, Cancer Child and Family Research Institute ;
Genome British Columbia ;
Genome Canada ;
UBC Institute of Mental Health
Free, Freely available nif-0000-01868 https://plone.bcgsc.ca/project/pleiades-promoter-project http://www.pleiades.org/ SCR_003282 2026-09-05 06:32:29 4
Brown University Rhode Island Biobank Core Facility
 
Resource Report
Resource Website
Brown University Rhode Island Biobank Core Facility (RRID:SCR_004289) RIBB biomaterial supply resource, material resource Cryogenic facility for human tissue and fluid samples under management of Brown University Division of Biology and Medicine and supports biomedical research on Brown campus and across affiliated hospitals of Warren Alpert Medical School. Cryogenic, facility, human, tissue, fluid, sample, brain, cerebral, spinal, fluid, blood, neuromuscular, urine, saliva, tumor, sample, skeletal muscle, ABRF is listed by: One Mind Biospecimen Bank Listing
is listed by: ABRF CoreMarketplace
is related to: USEDit
has parent organization: Brown University; Rhode Island; USA
Alzheimer's disease Restricted nlx_30512, ABRF_167 SCR_004289 Rhode Island Biobank, RI BioBank, Brown University Rhode Island Biobank Cryogenic Core Facility 2026-09-05 06:32:32 0
Banyan Biomarkers
 
Resource Report
Resource Website
1+ mentions
Banyan Biomarkers (RRID:SCR_004515) Banyan Biomarkers assessment test provider, material resource Banyan Biomarkers was founded in 2002 by Ron Hayes, PhD , Kevin Wang, PhD, and Nancy Denslow, PhD to create the first Point of Care (POC) Blood Test to diagnose traumatic brain injury (TBI) and to diagnose neurological diseases. Initially inspired by research conducted at the University of Florida and The Evelyn F. and William McKnight Brain Institute, Banyan Biomarkers has made significant progress in developing and clinically validating novel enzyme linked immunosorbent assays (ELISAs) for traumatic brain injury (TBI). Banyan scientists have created an extensive pipeline of potential biomarkers and the company has a robust intellectual property portfolio. Jackson Streeter, Banyan''s CEO, has extensive experience in development of medical devices for acute brain injury. Currently no blood test exists for use by physicians to detect the presence and severity of brain trauma. Banyan Biomarkers'' research has identified unique and proprietary biomarkers present in the patient''s blood following injury to the brain. The detection and quantification of these biomarkers may provide early indications of brain trauma essential for earlier intervention and management. Banyan Biomarkers, Inc. offers preclinical and clinical sample analyses with a proven panel of neurological, psychiatric, neurodegenerative disease, and organ toxicity biomarker assays. The company provides analytical services to a wide range of customers including pharmaceutical companies, biotechnology companies and investigators at academic research institutes. traumatic brain injury, blood test, human, brain, stroke, liver injury, biomarker, immunoassay, neurodegenerative disease, neurological disorder, mental disease, neuroinflammation, microglial activation, apoptosis, necrosis, hepatoxicity, in vitro, diagnostic test, enzyme linked immunosorbent assay, one mind tbi nlx_143797 SCR_004515 2026-09-05 06:32:33 1
SBIA
 
Resource Report
Resource Website
1+ mentions
SBIA (RRID:SCR_013628) SBIA access service resource, service resource THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 2, 2023. A section of the Penn department of radiology, it is devoted to the development of computer-based image analysis methods and their application to clinical research studies. Image analysis methodologies include image registration, segmentation, population-based statistical analysis, biophysical modeling of anatomical deformations, and high-dimensional pattern classification. Clinical research studies spans a variety of clinical areas and organs, and they include brain diseases such as Alzheimer's disease and schizophrenia, evaluation of treatment effects in large clinical trials, diagnosis of cardiac diseases, and diagnosis prostate, breast and brain cancer. SBIA also performs small animal imaging research aiming to understand brain development in mouse models. It has multiple resources which can be accessed by researcher. effect, alzheimer's, analysis, anatomical, biomedical, biophysical, brain, cancer, breast cancer, cardiac, classification, clinical, computer, deformation, dimensional, disease, method, model, mouse, organ, pattern, prostate, registration, schizophrenia, segmentation, statistical analysis, study, treatment, image has parent organization: University of Pennsylvania; Philadelphia; USA THIS RESOURCE IS NO LONGER IN SERVICE. nif-0000-33052 SCR_013628 The Section for Biomedical Image Analysis, Section for Biomedical Image Analysis 2026-09-05 06:30:21 4
Brain Atlas of the Mozambique Tilapia Oreochromis mossambicus
 
Resource Report
Resource Website
Brain Atlas of the Mozambique Tilapia Oreochromis mossambicus (RRID:SCR_003501) Tilapia Brain Atlas atlas, data or information resource, data repository, image repository, service resource, storage service resource Digital three-dimensional MRI atlas of the Mozambique tilapia brain, supported by Nissl staining. Images were viewed and analyzed in all orientations (transverse, sagittal, and horizontal) and manually labelled to reveal structures in the olfactory bulb, telencephalon, diencephalon, optic tectum, and cerebellum. The MRI atlas data (16-bit int) and delineation data (8-bit int) are provided in Raw data (file_name.raw), Amira format (file_name.am) and in Analyze format (file_name.img and file_name.hdr). mri, brain, head, computed tomography, cichlid fish, nissl stain, transverse, sagittal, horizontal, olfactory bulb, telencephalon, diencephalon, optic tectum, cerebellum, fish model, histology, 3d, nuclei, delineation, sequence atlas, resolution atlas, dimensions atlas, skull has parent organization: Instituto Superior de Psicologia Aplicada; Lisbon; Portugal PMID:22984463 Account required nlx_157637 SCR_003501 Mozambique Tilapia Brain Atlas 2026-09-05 06:25:04 0
MGH-USC Human Connectome Project
 
Resource Report
Resource Website
100+ mentions
MGH-USC Human Connectome Project (RRID:SCR_003490) MGH/UCLA HCP data or information resource, instrument manufacture, material service resource, portal, production service resource, service resource A multi-center project comprising two distinct consortia (Mass. Gen. Hosp. and USC; and Wash. U. and the U. of Minn.) seeking to map white matter fiber pathways in the human brain using leading edge neuroimaging methods, genomics, architectonics, mathematical approaches, informatics, and interactive visualization. The mapping of the complete structural and functional neural connections in vivo within and across individuals provides unparalleled compilation of neural data, an interface to graphically navigate this data and the opportunity to achieve conclusions about the living human brain. The HCP is being developed to employ advanced neuroimaging methods, and to construct an extensive informatics infrastructure to link these data and connectivity models to detailed phenomic and genomic data, building upon existing multidisciplinary and collaborative efforts currently underway. Working with other HCP partners based at Washington University in St. Louis they will provide rich data, essential imaging protocols, and sophisticated connectivity analysis tools for the neuroscience community. This project is working to achieve the following: 1) develop sophisticated tools to process high-angular diffusion (HARDI) and diffusion spectrum imaging (DSI) from normal individuals to provide the foundation for the detailed mapping of the human connectome; 2) optimize advanced high-field imaging technologies and neurocognitive tests to map the human connectome; 3) collect connectomic, behavioral, and genotype data using optimized methods in a representative sample of normal subjects; 4) design and deploy a robust, web-based informatics infrastructure, 5) develop and disseminate data acquisition and analysis, educational, and training outreach materials. human, structural, functional, neural, white matter, fiber, brain, in vivo, genomic, neuroimaging, visualization, neuroanatomy, genotype, connectivity, connectivity model, neural pathway, phenomic, connectomics, quantification, scanner, eeg, meg, shape analysis, spatial transformation, diffusion spectrum, q-ball, tensor metric, fiber tracking, connectome, behavior, scanner, web resource, diffusion spectrum, q-ball, tensor metric, quantification, shape analysis, spatial transformation, fiber tracking, FASEB list is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC)
is listed by: Biositemaps
has parent organization: Laboratory of Neuro Imaging
has parent organization: Harvard Medical School; Massachusetts; USA
has parent organization: NIH Human Connectome Project
is parent organization of: USC Multimodal Connectivity Database
Normal NIH ;
NIH Blueprint for Neuroscience Research
Open unspecified license, (BSD/MIT-Style), LONI Software License, Public Domain nif-0000-35789 http://www.nitrc.org/projects/hcp_mgh-ucla SCR_003490 Harvard/MGH-UCLA Human Connectome Project, Harvard/MGH-UCLA Consortium: Human Connectome Project, HCP Harvard/MGH-UCLA, MGH/UCLA Consortium: Human Connectome Project 2026-09-05 06:25:04 186
brainfacts.org
 
Resource Report
Resource Website
1+ mentions
brainfacts.org (RRID:SCR_003514) blog, data or information resource, narrative resource, portal, topical portal, training material A web portal that aggregates information and educational materials about the brain and brain diseases. Resources such as videos, key brain concepts, and hands-on activities may be used and shared with the public. brain, nervous system, neuroscience, research, educator, k-12, video, autism, parkinson's disease, public material is related to: SfN Brain Briefings
has parent organization: Society for Neuroscience
Parkinson's disease, Autism Kavli Foundation ;
Gatsby Charitable Foundation
Public nlx_144565 SCR_003514 brain facts, brainfacts, BrainFacts.org 2026-09-05 06:25:05 9

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