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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Emory ADRC Tissue and Biospecimen Banking Facility Resource Report Resource Website |
Emory ADRC Tissue and Biospecimen Banking Facility (RRID:SCR_000551) | biomaterial supply resource, material resource, tissue bank | The Alzheimer's Disease Research Center at Emery University maintains an active brain bank to facilitate the acquisition, storage, handling and distribution of well-characterized autopsy brain tissue and other materials to investigators. It contains frozen tissue and brain specimens, formalin fixed tissue, paraformaldehyde fixed tissue, and cryopreserved tissue. The ADRC also has access to tissues and samples related to other neurodegenerative diseases. It contains plasma samples, serum samples, lymphoblast cell lines, and cerebrospinal fluid. | brain bank, biomaterial supply resource, brain tissue, plasma, cerebral spinal fluid, serum, lymphoblast cell line, buffy coat isolate, buffy coat, frozen, paraffin block, paraformaldehyde-fixed, cryopreserved, alzheimer's disease, parkinson's disease, neurodegenerative disease, tauopathy, huntington's disease, normal control |
is listed by: One Mind Biospecimen Bank Listing is affiliated with: Emory Alzheimer's Disease Research Center is related to: Emory Neurology Database has parent organization: Emory University School of Medicine; Atlanta; Georgia; USA |
Alzheimer's disease, Parkinson's disease, Neurodegenerative disease, Tauopathy, Huntington's disease, Creutzfeldt-Jakob Syndrome, Dementia, Movement disorder, Sleep disorder, Stroke, Neuromuscular disease, Nervous system disease, Amyotrophic Lateral Sclerosis, Restless Leg Syndrome | NINDS P30 NS055077 | Public, Investigators must notify the ADRC of data use, Investigators must send a final copy of any accepted manuscript that used data or recruited research participations from the ADRC, Grant acknowledgement required, Institution acknowledgement required | nlx_144036 | SCR_000551 | Emory Tissue and Biospecimen Banking Facilities, Emory Tissue & Biospecimen Banking Facility, Emory ADRC Tissue & Biospecimen Banking Facility | 2026-08-29 11:29:14 | 0 | ||||||
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BraVa Resource Report Resource Website 1+ mentions |
BraVa (RRID:SCR_001407) | BraVa | data or information resource, database | A database of digital reconstructions of the human brain arterial arborizations from 61 healthy adult subjects along with extracted morphological measurements. The arterial arborizations include the six major trees stemming from the circle of Willis, namely: the left and right Anterior Cerebral Arteries (ACAs), Middle Cerebral Arteries (MCAs), and Posterior Cerebral Arteries (PCAs). | digital reconstruction, morphometric analysis, cerebrum, arterial vasculature, magnetic resonance angiography, adult human, morphology, artery, arborization, circle of willis, cerebral artery, male, female, magnetic resonance |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Bravissima has parent organization: George Mason University: Krasnow Institute for Advanced Study |
Healthy | NINDS NS39600; NIBIB EB001955; NINDS NS061770; NIMH P20 MH52176 |
PMID:23727319 | Free, Freely Available | nlx_152630 | http://www.nitrc.org/projects/breva | SCR_001407 | 2026-08-29 11:29:18 | 8 | ||||
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WTCHG Genome Scan Viewer Resource Report Resource Website 1+ mentions |
WTCHG Genome Scan Viewer (RRID:SCR_001635) | GSCANDB | data or information resource, database, service resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. Database / display tool of genome scans, with a web interface that lets the user view the data. It does not perform any analyses - these must be done by other software, and the results uploaded into it. The basic features of GSCANDB are: * Parallel viewing of scans for multiple phenotypes. * Parallel analyses of the same scan data. * Genome-wide views of genome scans * Chromosomal region views, with zooming * Gene and SNP Annotation is shown at high zoom levels * Haplotype block structure viewing * The positions of known Trait Loci can be overlayed and queried. * Links to Ensembl, MGI, NCBI, UCSC and other genome data browsers. In GSCANDB, a genome scan has a wide definition, including not only the usual statistical genetic measures of association between genetic variation at a series of loci and variation in a phenotype, but any quantitative measure that varies along the genome. This includes for example competitive genome hybridization data and some kinds of gene expression measurements. | genome, gene, snp, trait, genotype, phenotype, visualization, region, chromosome, quantitative trait locus, hybridization, gene expression | has parent organization: University of Oxford; Oxford; United Kingdom | NIAAA U01AA014425; NCRR R24RR015116; NIGMS R01GM072863; NINDS R01NS049445; NIMH P20-MH 62009; NIAAA U24AA13513 |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_153902 | SCR_001635 | Wellcome Trust Centre for Human Genetics Genome Scan Viewer, Genome Scan Viewer, Genome Scan Database | 2026-08-29 11:29:19 | 3 | ||||||
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BAMS Cells Resource Report Resource Website 10+ mentions |
BAMS Cells (RRID:SCR_003531) | BAMS Cells, BAMS Cell | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 6, 2023.BAMS is an online resource for information about neural circuitry. The BAMS Cell view focuses on the major brain regions and which cells are contained therein. | neuroanatomy, cell, neuron, neural circuitry, brain |
is used by: NIF Data Federation has parent organization: Brain Architecture Management System |
NIBIB ; NIMH ; NINDS |
THIS RESOURCE IS NO LONGER IN SERVICE. | nif-0000-90175 | http://brancusi.usc.edu/bkms/ | SCR_003531 | Brain Architecture Management System Cells | 2026-08-29 11:29:21 | 11 | |||||
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eMouseAtlas Resource Report Resource Website 50+ mentions |
eMouseAtlas (RRID:SCR_002981) | EMAP, EMA, EMAGE, MAP, EMAP, MAP2.0, | atlas, data or information resource, database | Detailed multidimensional digital multimodal atlas of C57BL/6J mouse nervous system with data and informatics pipeline that can automatically register, annotate, and visualize large scale neuroanatomical and connectivity data produced in histology, neuronal tract tracing, MR imaging, and genetic labeling. MAP2.0 interoperates with commonly used publicly available databases to bring together brain architecture, gene expression, and imaging information into single, simple interface.Resource to visualise mouse development, identify anatomical structures, determine developmental stage, and investigate gene expression in mouse embryo. eMouseAtlas portal page allows access to EMA Anatomy Atlas of Mouse Development and EMAGE database of gene expression.EMAGE is freely available, curated database of gene expression patterns generated by in situ techniques in developing mouse embryo. EMA, e-Mouse Atlas, is 3-D anatomical atlas of mouse embryo development including histology and includes EMAP ontology of anatomical structure, provides information about shape, gross anatomy and detailed histological structure of mouse, and framework into which information about gene function can be mapped. | Mouse Atlas Project, molecular neuroanatomy resource, adult mouse, mouse, brain, c57bl/6j, magnetic resonance microscopy, diffusion-weighted image, blockface imaging, immunohistochemistry, in situ hybridization, neuroanatomy, mri, dti, brain architecture, gene expression, neuroimaging, ontology, connectivity, histology, neuronal tract tracing, genetic labeling, newborn mouse, experimental protocol, bio.tools, ontology, histology, mouse embryo, gene expression, gxd query interface, digital anatomical atlas, spatial region, domain, 2d, 3d, virtual embryo model, development atlas, standard anatomical nomenclature, developmental staging criteria, spatially mapped, anatomy nomenclature, molecular neuroanatomy resource, embryonic mouse, FASEB list |
is related to: GUDMAP Ontology is related to: EMAGE Gene Expression Database is related to: EMAGE Gene Expression Database is related to: HUDSEN is related to: Mouse Genome Informatics: The Mouse Gene Expression Information Resource Project has parent organization: University of Edinburgh; Scotland; United Kingdom has parent organization: Jackson Laboratory is parent organization of: Minimal Anatomical Terminology |
Medical Research Council ; NIA ; NIBIB ; NIDA ; NIDCD ; NINDS |
PMID:15043218 PMID:18077470 PMID:16381949 |
Free, Freely available | nif-0000-00038, nif-0000-00505, biotools:emap, SCR_007281, biotools:ma | http://www.emouseatlas.org/emap/home.html, https://bio.tools/emap, https://bio.tools/ma | http://genex.hgu.mrc.ac.uk/, http://www.loni.ucla.edu/MAP/ | SCR_002981 | emouseatlas, e-mouse Atlas, EMAGE Gene Expression Database, EMA, Edinburgh Mouse Atlas of Gene Expression, e-Mouse Atlas, EMA Anatomy Atlas of Mouse Development | 2026-08-29 11:29:20 | 71 | |||
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Wellcome-CTC Mouse Strain SNP Genotype Set Resource Report Resource Website 1+ mentions |
Wellcome-CTC Mouse Strain SNP Genotype Set (RRID:SCR_003216) | Wellcome-CTC Mouse Strain SNP Genotype Set | data or information resource, data set | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 19,2025. Data set of genotypes available for 480 strains and 13370 successful SNP assays that are mapped to build34 of the mouse genome, including 107 SNPs that are mapped to random unanchored sequence 13374 SNPs are mapped onto Build 33 of the mouse genome. You can access the data relative to Build 33 or Build 34. | genome, genotype, snp, chromosome, haplotype, haplotype structure, recombinant inbred mouse strain | has parent organization: Wellcome Trust Centre for Human Genetics | Wellcome Trust ; NCRR R24RR015116; NIGMS R01GM072863; NIAAA U01AA014425; NINDS R01NS049445; NIMH P20-MH 62009; NIAAA U24AA13513 |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_156947 | SCR_003216 | 2026-08-29 11:31:53 | 3 | |||||||
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Neurophysiology Imaging Facility Resource Report Resource Website |
Neurophysiology Imaging Facility (RRID:SCR_004080) | NIF | access service resource, core facility, service resource | Neurophysiology imaging core facility that provides anatomical and functional MRI scanning for researchers in the National Institute of Mental Health (NIMH), the National Eye Institute (NEI), and the National Institute for Neurological Disorders and Stroke (NINDS). The shared intramural resource centers on a cutting-edge 4.7T vertical bore scanner dedicated to imaging of nonhuman primates. | mri, fmri, neuroimaging, neurophysiology, brain | has parent organization: National Institute of Mental Health | NIMH ; NINDS ; NEI |
nlx_158530 | SCR_004080 | Neurophysiology Imaging Facility (NIF) | 2026-08-29 11:31:57 | 0 | |||||||
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Duke University of North Carolina Brain Imaging and Analysis Center Core Facility Resource Report Resource Website 1+ mentions |
Duke University of North Carolina Brain Imaging and Analysis Center Core Facility (RRID:SCR_001712) | Duke-UNC BIAC, BIAC | access service resource, core facility, service resource | BIAC strives for excellence in its dual mission of research and service. BIAC faculty members are leaders in imaging methodology development, in analysis techniques, as well as in their application in cognitive and clinical neurosciences. In addition, BIAC offers imaging service to other imaging faculty members on campus and at the University of North Carolina in Chapel Hill. | Imaging methodology development, analysis techniques, cognitive neurosciences application, clinical neurosciences application, imaging service | has parent organization: Duke University; North Carolina; USA | National Institutes of Health ; Autism Speaks ; NINDS |
Restricted | nif-0000-10210 | SCR_001712 | Duke University of North Carolina Brain Imaging and Analysis Center, Brain Imaging and Analysis Center, Brain Imaging and Analysis Center (BIAC) | 2026-08-29 11:31:47 | 2 | ||||||
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Lab Streaming Layer Resource Report Resource Website 50+ mentions |
Lab Streaming Layer (RRID:SCR_017631) | LSL | software application, software resource | System for unified collection of measurement time series in research experiments that handles networking, time synchronization, near real time access as well as optionally centralized collection, viewing and disk recording of data. System for synchronizing streaming data for live analysis or recording. | Synchronizing, streaming, data, live, analysis, recording, collection, time, series, EEG | has parent organization: University of California at San Diego; California; USA | Army Research Laboratory ; NINDS R01 NS047293 |
Free, Freely available | SCR_017631 | Lab Streaming Layer | 2026-08-29 11:31:22 | 86 | |||||||
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MIRACL Resource Report Resource Website 1+ mentions |
MIRACL (RRID:SCR_020945) | software resource, software toolkit | Automated software resource that combines histologically cleared volumes with connectivity atlases and MRI, enabling analysis of histological features across multiple fiber tracts and networks, and their correlation with in vivo biomarkers.Multimodal image registration and connectivity analysis for integration of connectomic data from microscopy to MRI. Open source pipeline for automated registration of mice clarity data to Allen reference atlas, segmentation and feature extraction of mice clarity data in 3D, registration of mice multimodal imaging data to Allen reference atlas, tract or label specific connectivity analysis based on Allen connectivity atlas,comparison of diffusion tensort imaging/tractography, virus tracing using CLARITY and Allen connectivity atlas, statistical analysis of CLARITY and Imaging data, atlas generation and label manipulation. | Image registration, CLARITY, multimodal image registration, connectivity analysis, connectomic data integration, MRI data, connectivity atlases, histological features analysis, mice clarity data |
is related to: Allen Institute for Brain Science works with: Allen Mouse Brain Reference Atlas |
American Society for Neuroradiology ; Bernard and Ronni Lacroute ; Boerger Research Fund for Alzheimer Disease and Neurocognitive Disorders ; GE Healthcare ; HHMI ; Marc Paskin ; NIA R01 AG061120; NIMH R01 MH111444; NINDS R01 NS093057; NINDS R01 NS095985; Stanford Neurosciences Institute ; Stanford Radiology Angel Funds ; U.S. Army Research Laboratory and Defense Advanced Research Projects Agency ; William Randolph Hearst Foundation |
PMID:31796741 | Free, Available for download, Freely available | https://github.com/mgoubran/MIRACL/blob/master/docs/index.rst | SCR_020945 | Multi modal Image Registration And Connectivity anaLysis | 2026-08-29 11:31:17 | 1 | ||||||
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Annotation Comparison Explorer Resource Report Resource Website 1+ mentions |
Annotation Comparison Explorer (RRID:SCR_026496) | ACE | software resource, web application | Web application for comparing cell type assignments and other cell-based annotations (e.g., donor demographics, anatomic locations, batch variables, and quality control metrics). Used for connecting brain cell types across studies of health and Alzheimer's Disease. | comparing cell type assignments, cell-based annotations, connecting brain cell types, |
has parent organization: Allen Institute is organization facet of: BRAIN Initiative Cell Atlas Network |
NIA U19AG060909; NINDS U24NS133077 |
PMID:39990500 | Free, Freely available | github.com/AllenInstitute/ACE | SCR_026496 | Annotation Comparison Explorer (ACE) | 2026-08-29 11:34:32 | 1 | |||||
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Borzoi Resource Report Resource Website 1+ mentions |
Borzoi (RRID:SCR_026619) | software resource, software toolkit, source code | Software package to access the Borzoi models, which are convolutional neural networks trained to predict RNA-seq coverage at 32bp resolution given 524kb input sequences. | Borzoi models access, convolutional neural networks, predict RNA-seq coverage, | Common Fund of the Office of the Director ; NCI ; NHGRI ; NHLBI ; NIDA ; NIMH ; NINDS |
PMID:39779956 | Free, Available for download, Freely available | SCR_026619 | 2026-08-29 11:34:36 | 2 | |||||||||
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Salk Institute Gene Transfer Targeting and Therapeutics Viral Vector Core Facility Resource Report Resource Website 10+ mentions |
Salk Institute Gene Transfer Targeting and Therapeutics Viral Vector Core Facility (RRID:SCR_014847) | GT3 | access service resource, core facility, service resource | Core facility that provides consultation on the use of viral vector technologies as well as custom design and production services for multiple vector types. The GT3 facilitates the use of these research tools by Salk researchers and others across diverse fields of study such as systems neuroscience, stem cell biology, metabolism, ageing, cancer biology and gene therapy. The GT3 core is a designated Cancer Center Council (C3) core facility. Cancer Center members from participating C3 institutes have preferential rates. | core facility, gene, vector, viral vector, manipulation, gene therapy, cancer, stem cell |
is listed by: ABRF CoreMarketplace has parent organization: Salk Institute for Biological Studies |
NINDS R24 Core Grant ; NEI ; Salk Institute GT3 Core Facility ; NCI CCSG P30 014195; NINDS R24NS092943 |
Restricted | ABRF_1642 | https://coremarketplace.org/?FacilityID=1642&citation=1 | SCR_014847 | , Salk Institute Gene Transfer Targeting and Therapeutics Viral Vector Core (GT3), Salk Institute Gene Transfer Targeting and Therapeutics Core | 2026-08-29 11:32:49 | 10 | |||||
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E-Scope Resource Report Resource Website 1+ mentions |
E-Scope (RRID:SCR_025396) | instrument resource, software resource, source code | Miniaturized calcium imaging microscope with integrated dense electrode technology for synchronous acquisition of neural activity across distant regions of the brain. Device based off open-sourced UCLA Miniscope to synchronously measure single cell activity at or near spike-time resolution across distant brain regions in freely behaving mice. Used to perform calcium imaging, with dense electrode electrophysiological recording, allowing simultaneous recordings from two remote brain regions in freely behaving mouse. | OpenBehavior, miniatured microscope, calcium imaging microscope, microscope, synchronous acquisition, freely behaving mice, neural activity, brain distant regions, synchronously measure single cell activity, |
is listed by: OpenBehavior is related to: UCLA Miniscope project |
NICHD P50HD103577; NINDS 1R61NS119708; NINDS R01NS090930; NINDS U01NS122124; NSF NeuroNex Award |
PMID:37066345 | Free, Available for download, Freely available | http://miniscope.org/index.php/Main_Page, https://edspace.american.edu/openbehavior/?s=E-Scope | SCR_025396 | 2026-08-29 11:33:58 | 3 | |||||||
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University of North Carolina at Chapel Hill School of Medicine Neuroscience Microscopy Core Facility Resource Report Resource Website 50+ mentions |
University of North Carolina at Chapel Hill School of Medicine Neuroscience Microscopy Core Facility (RRID:SCR_019060) | NMC | access service resource, core facility, service resource | Microscopy Core for high resolution imaging and aims to make this technology accessible to neuroscientists and other scientific researchers.Provides advanced systems for cellular and molecular imaging of in vitro and in vivo samples, implements new imaging technologies, particularly related to real time and tissue clearing based imaging of neurodevelopment and neural functions, offers training, consultation, data analysis, image processing, and centralized technical expertise. | USEDit, microscopy, high resolution imaging, neuroscience microscopy, cellular imaging, molecular imaging, in vitro imaging, in vivo imaging, neurodevelopment, neural function, data analysis, image processing, ABRF, ABRF |
is listed by: ABRF CoreMarketplace has parent organization: University of North Carolina at Chapel Hill School of Medicine; North Carolina; USA |
NICHD U54 HD079124; NINDS P30 NS045892 |
Open | ABRF_1052 | https://coremarketplace.org/?FacilityID=1052 | SCR_019060 | UNC Neuroscience Microscopy Core, University of North Carolina at Chapel Hill UNC Neuroscience Microscopy Core, UNC School of Medicine Neuroscience Microscopy Core Facility | 2026-08-29 11:33:21 | 70 | |||||
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Diffusion-Model Resource Report Resource Website 1+ mentions |
Diffusion-Model (RRID:SCR_027942) | software resource, source code | Software code for simulating diffusion in brain extracellular space images. | simulating diffusion, brain, extracellular space, images | NINDS R01NS130759; NSF ; Spanish Government |
PMID:41279667 | Free, Available for download, Freely available | SCR_027942 | , Diffusion Flux, DifFlux, Diffusion Flux Model | 2026-08-29 11:35:39 | 1 | ||||||||
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AqNWB Resource Report Resource Website |
AqNWB (RRID:SCR_028050) | application programming interface, data access protocol, data or information resource, license, narrative resource, open-source license, software resource, source code | Software C++ API for acquiring neurophysiological data directly into the NWB (Neurodata Without Borders) format. Our goal is to provide a lightweight API to integrate with existing acquisition systems. | NWB, data acquisition, C++, |
is listed by: Neurodata Without Borders works with: Neurodata Without Borders |
NINDS R03NS145401 | Free, Available for download, Freely available | https://nwb.org/aqnwb/ | SCR_028050 | 2026-08-29 11:35:20 | 0 | ||||||||
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FMRIB’s Integrated Registration and Segmentation Tool Resource Report Resource Website 1+ mentions |
FMRIB’s Integrated Registration and Segmentation Tool (RRID:SCR_024921) | FIRST | data analysis software, data processing software, image analysis software, registration software, segmentation software, software application, software resource | Software model based segmentation and registration tool. Used for segmentation of sub-cortical structures. Introduces basic segmentation and vertex analysis for detecting group differences. | Functional Magnetic Resonance Imaging of the Brain, segmentation, registration, volumetric segmentation, performing vertex analysis, |
is related to: Multimodal Image Segmentation Tool is a plug in for: FSL |
NCRR P41 RR14075; NCRR R01 RR16594; NIDA R01 DA017905; NIMH K01 MH01798; NIMH K08 MH01573; NINDS R01 NS052585 |
PMID:21352927 | Free, Freely available | SCR_024921 | , Functional Magnetic Resonance Imaging of the Brain's Integrated Registration and Segmentation Tool | 2026-08-29 11:33:49 | 7 | ||||||
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Keypoint MoSeq Resource Report Resource Website 10+ mentions |
Keypoint MoSeq (RRID:SCR_025032) | software resource, source code | Software application as machine learning-based platform for identifying behavioral modules from keypoint data without human supervision. Package provides tools for fitting MoSeq model to keypoint tracking data. Used to infer pose dynamics with keypoint data in addition to behavioral syllables. | OpenBehavior, infer pose dynamics, keypoint data, identifying behavioral modules, keypoint tracking data, parsing behavior, linking point tracking to pose dynamics, | has parent organization: Harvard University; Cambridge; United States | Alfred P. Sloan Foundation ; NIA RF1AG073625; NINDS F31NS113385; NINDS F31NS122155; NINDS R01NS114020; NINDS U19NS113201; NINDS U24NS109520; Salk Collaboration Grant ; Simons Collaboration on Plasticity and the Aging Brain ; Simons Collaboration on the Global Brain ; Simons Foundation Autism Research Initiative |
DOI:10.1101/2023.03.16.532307 | Free, Available for download, Freely available | SCR_025032 | 2026-08-29 11:33:53 | 12 | ||||||||
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dreamlet Resource Report Resource Website 1+ mentions |
dreamlet (RRID:SCR_028168) | software resource, software toolkit, source code | Software R package enables differential expression analysis on multi-sample single cell datasets using linear (mixed) models with precision weights. | Perform differential expression analysis, multi-sample single cell datasets, linear mixed models, precision weights, | NIA P30AG066514; NIA R01AG050986; NIA R01AG065582; NIA R01AG067025; NIMH R01MH109677; NIMH R01MH125246; NIMH RF1MH128970; NIMH U01MH116442; NINDS U01NS125580 |
PMID:36993704 | Free, Available for download, Freely available | SCR_028168 | 2026-08-29 11:35:42 | 1 |
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