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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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studyforrest.org Resource Report Resource Website 10+ mentions |
studyforrest.org (RRID:SCR_003112) | studyforrest.org | service resource, data repository, storage service resource, image repository | An MRI data repository that holds a set of 7 Tesla images and behavioral metadata. Multi-faceted brain image archive with behavioral measurements. For each participant a number of different scans and auxiliary recordings have been obtained. In addition, several types of minimally preprocessed data are also provided. The full description of the data release is available in a dedicated publication. This project invites anyone to participate in a decentralized effort to explore the opportunities of open science in neuroimaging by documenting how much (scientific) value can be generated out of a single data release by publication of scientific findings derived from a dataset, algorithms and methods evaluated on this dataset, and/or extensions of this dataset by acquisition and integration of new data. | neuroimaging, open data, brain, brain scan, fmri, stimulus material, participant demographic, stimulus, demographic, experimental protocol, structure mri, mri, 7-tesla, data set, auditory system, language, perception |
uses: OpenNeuro uses: rsync uses: XNAT - The Extensible Neuroimaging Archive Toolkit is used by: NIF Data Federation is listed by: NITRC-IR is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Otto-von-Guericke University Magdeburg; Saxony-Anhalt; Germany |
BMBF 01GQ1112; BMBF 01GQ1411; NSF 1129855; DFG PO 548/15-1 |
Free, Available for download, Freely available | r3d100011071, nlx_156710 | http://www.nitrc.org/projects/studyforrest https://doi.org/10.17616/R3SW5S |
SCR_003112 | study forrest, studyforrest | 2026-02-16 09:45:55 | 34 | |||||
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flytrap Resource Report Resource Website 10+ mentions |
flytrap (RRID:SCR_003075) | Flytrap | data or information resource, database, video resource, image | Flytrap is an interactive database for displaying gene expression patterns, in particular P(GAL4) patterns, via an intuitive WWW based interface. This development consists of two components, the first being the HTML interface to the database and the second, a tool-kit for constructing and maintaining the database. The browser component of the project is entirely platform independent; based on javascript and HTML and therefore only requires a "standard" browser. This is to facilitate CD-ROM distribution and off-line browsing. Whether on-line or on CD, the basic browser structure does not reply on any server based scripts. Basic searching is now available. The search page uses javascript and will work off-line (i.e. from a CD-ROM copy). The construction tool-kit is UNIX based and requires an on-line web server. The tool-kit is used to compile the HTML browser interface from a simple database. The tool-kit part comprises a forms based HTML interface to the datasets allowing new information to b e added and updated very simply. We are also developing a java interface for the tool-kit that will enable us to edit and annotate images on-line. The basic browser interface is complete and a demonstration version can be accessed via the website. The first working version of the tool-kit is now on-line and is available for use. | brain, genetics, 3d model, expression pattern, anatomy, anatomical structure, cell, gene expression, brain function, neuroimaging, FASEB list | has parent organization: University of Edinburgh; Scotland; United Kingdom | BBSRC ; EPSRC |
PMID:14681446 | Free, Freely available | nif-0000-00051, r3d100011203 | https://doi.org/10.17616/R3VD0P | SCR_003075 | 2026-02-16 09:46:06 | 48 | |||||
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GenePaint Resource Report Resource Website 100+ mentions |
GenePaint (RRID:SCR_003015) | GenePaint.org | atlas, expression atlas, database, reference atlas, data or information resource | Digital atlas of gene expression patterns in developing and adult mouse. Several reference atlases are also available through this site. Expression patterns are determined by non-radioactive in situ hybridization on serial tissue sections. Sections are available from several developmental ages: E10.5, E14.5 (whole embryos), E15.5, P7 and P56 (brains only). To retrieve expression patterns, search by gene name, site of expression, GenBank accession number or sequence homology. For viewing expression patterns, GenePaint.org features virtual microscope tool that enables zooming into images down to cellular resolution. | gene expression, adult mouse, annotated, c57bl6, mouse, mouse embryo, mrna, non radioactive in situ hybridization, light microscopy, molecular neuroanatomy resource, in situ hybridization, embryonic, postnatal, adult, brain, head, annotation, rna probe, sequence, anatomical structure, FASEB list |
has parent organization: Max Planck Institute for Biophysical Chemistry; Gottingen; Germany is parent organization of: GenePaint E15 Atlas is parent organization of: GenePaint P7 Atlas is parent organization of: GenePaint P56 Mouse Atlas is parent organization of: GenePaint Interactive Anatomy Atlas |
Burroughs Wellcome Fund ; European Union ; Max Planck Society ; Merck Genome Research Institute ; Romansky Endowment ; NINDS ; BMBF |
PMID:14681479 PMID:22936000 |
nif-0000-00009, SCR_017526 | SCR_003015 | Atlas of Gene Expression Patterns in Mouse Embryo | 2026-02-16 09:45:56 | 161 | ||||||
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FSL Resource Report Resource Website 1000+ mentions |
FSL (RRID:SCR_002823) | software resource, software toolkit, software library | Software library of image analysis and statistical tools for fMRI, MRI and DTI brain imaging data. Include registration, atlases, diffusion MRI tools for parameter reconstruction and probabilistic taractography, and viewer. Several brain atlases, integrated into FSLView and Featquery, allow viewing of structural and cytoarchitectonic standard space labels and probability maps for cortical and subcortical structures and white matter tracts. Includes Harvard-Oxford cortical and subcortical structural atlases, Julich histological atlas, JHU DTI-based white-matter atlases, Oxford thalamic connectivity atlas, Talairach atlas, MNI structural atlas, and Cerebellum atlas. | dti, brain, imaging, data, structural, mri, diffusion, function, preprocessing, analysis, statistical, tractography, atlas, neuroimaging, parameter, reconstruction, volumetric, segmentation, independent, component, temporal, transformation |
uses: Neuroimaging Data Model is used by: Spinal Cord Toolbox is used by: Functional Real-time Interactive Endogenous Neuromodulation and Decoding (FRIEND) is used by: XFSL: An FSL toolbox is used by: CMIND PY lists: SUSAN lists: FUGUE lists: Miscvis lists: BayCEST lists: ICA-PNM is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Debian is listed by: SoftCite is related to: Rodent Brain Extraction Tool is related to: Human Connectome Coordination Facility is related to: BASH4RfMRI is related to: DW-MRI registration in FSL is related to: FSL extensions is related to: Diffusion MRI of Traumatic Brain Injury is related to: Segmentation of Hippocampus Subfields is related to: masked ICA (mICA) Toolbox has parent organization: University of Oxford; Oxford; United Kingdom has plug in: Multivariate Exploratory Linear Optimized Decomposition into Independent Components has plug in: FMRI Expert Analysis Tool has plug in: FABBER has plug in: BASIL has plug in: VERBENA has plug in: Brain Extraction Tool has plug in: FMRIB's Automated Segmentation Tool has plug in: FMRIB’s Integrated Registration and Segmentation Tool has plug in: Harvard - Oxford Cortical Structural Atlas has plug in: FMRIB's Linear Image Registration Tool has plug in: FNIRT has plug in: FSLVBM has plug in: SIENA has plug in: SIENAX has plug in: Multimodal Image Segmentation Tool has plug in: Brain Intensity AbNormality Classification Algorithm has plug in: Multimodal Surface Matching has plug in: fsl_anat has plug in: FMRIB's Diffusion Toolbox has plug in: Tract Based Spatial Statistics has plug in: XTRACT has plug in: eddy has plug in: topup has plug in: eddyqc has plug in: randomise has plug in: PALM has plug in: fsl-cluster has plug in: FDR has plug in: DualRegression has plug in: FLOBS has plug in: FSLeyes has plug in: Fslutils has plug in: Atlasquery has plug in: MCFLIRT has plug in: POSSUM has plug in: FSL-MRS |
EPSRC ; MRC ; BBSRC ; GlaxoSmithKline ; Pfizer |
PMID:21979382 PMID:19059349 PMID:15501092 |
Free, Available for download, Freely available | nif-0000-00305, birnlex_2067, SCR_007368 | http://www.nitrc.org/projects/fsl http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/ https://sources.debian.org/src/fsl/ |
SCR_002823 | , FMRIB Software Library, fMRIB Software Library, Functional Magnetic Resonance Imaging of the Brain Software Library | 2026-02-16 09:46:01 | 4685 | |||||
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Brian Simulator Resource Report Resource Website 10+ mentions |
Brian Simulator (RRID:SCR_002998) | Brian | software application, software resource, simulation software | Software Python package for simulating spiking neural networks. Useful for neuroscientific modelling at systems level, and for teaching computational neuroscience. Intuitive and efficient neural simulator. | simulation, spiking, neuron, brain, communication, modelling, computational neuroscience, python, spiking neuron, neural network |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Ecole Normale Superieure; Paris; France |
European Union ; French National Research Agency ; CNRS ; Ecole Normale Superieure; Paris; France |
DOI:10.7554/eLife.47314 DOI:10.3389/neuro.01.026.2009 DOI:10.7554/eLife.47314 |
Free, Available for download, Freely available | nif-0000-30223 | http://www.nitrc.org/projects/brian | SCR_002998 | Brian 2, Brian spiking neural network simulator, Brian2 | 2026-02-16 09:46:05 | 26 | ||||
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Allen Developing Mouse Brain Atlas Resource Report Resource Website 100+ mentions |
Allen Developing Mouse Brain Atlas (RRID:SCR_002990) | atlas, expression atlas, database, reference atlas, data or information resource | Map of gene expression in developing mouse brain revealing gene expression patterns from embryonic through postnatal stages. Provides information about spatial and temporal regulation of gene expression with database. Feature include seven sagittal reference atlases created with a developmental ontology. These anatomic atlases may be viewed alongside in situ hybridization (ISH) data as well as by itself. | gene, expression, developing, mouse, brain, pattern, embryonic, postnatal, stage, data, database, reference, atlas, ontology, anatomy, ISH |
is related to: Allen Brain Atlas API is related to: Allen Human Brain Atlas: BrainSpan (Atlas of the Developing Brain) has parent organization: Allen Institute for Brain Science has parent organization: Allen Brain Atlas |
PMID:22832508 | Free, Public | nif-0000-00509 | SCR_002990 | Allen Brain Atlas Developing Mouse Brain | 2026-02-16 09:45:53 | 195 | |||||||
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XTRACT Resource Report Resource Website 1+ mentions |
XTRACT (RRID:SCR_024933) | software application, software resource | Software command line tool for automated tractography. Standardised protocols for automated tractography in human and macaque brain. | automated tractography, tractography, human, macaque, brain | is a plug in for: FSL | Medical Research Council PhD Studentship UK ; Marie Skłodowska-Curie Individual Fellowship Grant ; Biotechnology and Biological Sciences Research Council ; Netherlands Organization for Scientific Research NWO Netherlands ; Sir Henry Dale Wellcome Trust Fellowship UK ; MRC Career Development Fellowship UK ; Wellcome Trust Collaborative Award UK ; UK Engineering and Physical Sciences Research Council ; Wellcome Trust grant UK ; Human Connectome Project ; NIMH 1U54MH091657; McDonnell Center for Systems Neuroscience at Washington University ; NIH ; UK Biobank Resource ; Wellcome Trust |
PMID:32407993 | Free, Freely available | SCR_024933 | 2026-02-15 09:23:40 | 2 | ||||||||
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VERBENA Resource Report Resource Website |
VERBENA (RRID:SCR_024919) | software application, software resource | Software tool for quantification of perfusion and other haemodynamic parameters from Dynamic Susceptibility Contrast perfusion MRI of the brain. | Dynamic Susceptibility Contrast, quantification of perfusion, haemodynamic parameters, Dynamic Susceptibility Contrast perfusion MRI, brain | is a plug in for: FSL | Free, Freely available | SCR_024919 | VERBENA:Vascular Model Based Perfusion Quantification for DSC-MRI | 2026-02-15 09:22:50 | 0 | |||||||||
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Pediatric Brain Tumor Consortium Resource Report Resource Website 1+ mentions |
Pediatric Brain Tumor Consortium (RRID:SCR_000658) | PBTC | data or information resource, organization portal, consortium, portal | The PEDIATRIC BRAIN TUMOR CONSORTIUM (PBTC) is a multidisciplinary cooperative research organization devoted to the study of correlative tumor biology and new therapies for primary CNS tumors of childhood. PBTC's mission is to contribute rapidly and effectively to the understanding and cure of these tumors through the conduct of multi-center, multidisciplinary, innovative studies with designs and analyses based on uniformly high quality statistical science. While the primary mission of the PBTC is to identify through laboratory and clinical science superior treatment strategies for children with brain cancers, the PBTC investigators recognize their profound responsibility to meet the special needs of the children and families as they face this enormous challenge. Members are committed to working within their institutions and communities to improve support services and follow up care for these patients and their families. The PBTC's primary objective is to rapidly conduct novel phase I and II clinical evaluations of new therapeutic drugs, new biological therapies, treatment delivery technologies and radiation treatment strategies in children from infancy to 21 years of age with primary central nervous system (CNS) tumors. A second objective is to characterize reliable markers and predictors (direct or surrogate) of brain tumors' responses to new therapies. The Consortium conducts research on brain tumor specimens in the laboratory to further understand the biology of pediatric brain tumors. A third objective is to develop and coordinate innovative neuro-imaging techniques. Through the PBTC's Neuro-Imaging Center, formed in May 2000, research to evaluate new treatment response criteria and neuro-imaging methods to understand regional brain effects is in progress. These imaging techniques can also advance understanding of significant neuro-toxicity in a developing child's central nervous system. The Neuro-Imaging Center is supported in part by private sources - grants from foundations and non-profit organizations - in addition to the NCI. As an NCI funded Consortium, the Pediatric Brain Tumor Consortium (PBTC) is required to make research data available to other investigators for use in research projects. An investigator who wishes to use individual patient data from one or more of the Consortium's completed and published studies must submit in writing a description of the research project, the PBTC studies from which data are requested, the specific data requested, and a list of investigators involved with the project and their affiliated research institutions. A copy of the requesting investigator's CV must also be provided. Participating Institutions: Children's Hospital of Philadelphia, Children's National Medical Center (Washington, DC), Children's Memorial Hospital (Chicago), Duke University, National Cancer Institute, St. Jude Children's Research Hospital, Texas Children's Cancer Center, University of California at San Francisco, and University of Pittsburgh. | human, child, pediatric, brain, tumor, cancer, brain cancer, central nervous system, imaging | NCI | grid.477819.4, nlx_143885 | https://ror.org/00hj21c17 | SCR_000658 | 2026-02-16 09:45:19 | 1 | ||||||||
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Autism Tissue Program Resource Report Resource Website 10+ mentions |
Autism Tissue Program (RRID:SCR_000651) | ATP | funding resource, database, topical portal, portal, data or information resource, disease-related portal | Autism research program that makes available post-mortem brain tissue to qualified scientists all over the world. Working directly with tissue banks, organ procurement agencies, medical examiners and the general public, this is the largest program dedicated to increasing and enhancing the availability of post-mortem brain tissue for basic research in autism. To date, the ATP has collected and stored more than 170 brains in their repositories at Harvard (US) and Oxford (UK). These brains are processed by formalin fixation and/or snap frozen to properly provide high quality tissue of all brain regions, in support of biological research in autism. The ATP is unique in that they diligently pursue all available clinical data (pre and post mortem) on tissue donors in order to create the most biologically relevant brain repository for autism research. These data, together with tissue resources from both banks and associated repositories, are presented to all interested researchers through their extensive web-based data portal (login required). The ATP is not a brain bank, but works directly with the Harvard Brain Tissue Resource Center in Boston (HBTRC), Massachusetts to serve as its tissue repository. This program augments brain bank functions by: * Creating the most biologically relevant brain tissue repository possible * Fully covering all costs associated with brain extraction and transfer to the repositories at Harvard (US and Canada) and Oxford (UK). * Providing scientific oversight of tissue distributions * Overseeing and managing all tissue grants * Clinically phenotyping and acquiring extensive medical data on all of their donors * Providing continuing family support and communication to all of their donors * Directly supporting researchers to facilitate autism research * Maintaining a robust web based data management and secure on-line global interface system * Developing and supporting ATP established scientific initiatives * Actively providing public outreach and education The ATP is not a clinical organ procurement agency, but rather they facilitate the wishes of donors and families to donate their tissue to autism research. Through the ATP's established international infrastructure, they work with any accredited tissue bank, organ procurement agency, or medical examiner that receives a family's request to donate their loved one's tissue to the program. Once contacted, the ATP will insure that the family's request to donate their loved one's tissue is faithfully met, covering all costs to the family and partnering agency as well as ensuring the tissues' proper and rapid transport to the ATP's repository at the Harvard Brain Tissue Resource Center (HBTRC) in Boston, Massachusetts. | autism, brain, tissue, clinical data, post-mortem, brain tissue, donate, brain donation, autism spectrum disorder, pervasive development disorder, formalin fixation, snap frozen, tissue section, stained slide, dna, skin fibroblast culture, control, clinical, clinical neuroinformatics, imaging genomics, magnetic resonance, optical imaging, FASEB list |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Autism Speaks has parent organization: Harvard Brain Tissue Resource Center |
Autism, Autism spectrum disorder, Pervasive Development Disorder, Control | Autism Speaks | PMID:16933088 | Free, Freely available | nif-0000-10160 | http://www.brainbank.org/ http://www.autismtissueprogram.org/site/c.nlKUL7MQIsG/b.5183271/k.BD86/Home.htm |
SCR_000651 | 2026-02-16 09:45:18 | 28 | ||||
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THOR Center for Neuroinformatics Resource Report Resource Website 1+ mentions |
THOR Center for Neuroinformatics (RRID:SCR_001400) | THOR Center | software application, software resource, topical portal, portal, data or information resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022.Center hosting a number of related projects concerning neural networks, functional neuroimaging, multimedia signal processing, and biomedical signal processing. Neuroinformatics is a research field rooted in classical disciplines like signal processing, biology, physics, computer science and engineering. Neuroinformatics combines learning from the brain and learning about the brain. By studying information processing in the brain neuroinformatics invents new computing paradigms (e.g., artificial neural networks) with the objective of understanding the dynamics of the conscious mind. Artificial neural networks is an active neuroinformatics research field, which combines many approaches to adaptive signal processing in solving real world problems. They began using neural networks for general nonlinear adaptive signal processing. Since 1991 the CONNECT groups have participated in the development of neural computing as an advanced, non-linear statistical tool, which has been applied to forecasting within dynamical systems, pattern recognition, and medical image analysis, particularly functional neuroimages. While neural computing has largely been viewed as a black box approach, they have initiated research aimed at opening this black box, using hypertext, multimedia, and interactivity. Their key objective is to convert abstract models into intuitive knowledge through interactive visualization. | neuroinformatics, neural network, functional neuroimaging, multimedia, signal processing, biomedical, neuroscience, biomedical, brain |
has parent organization: Technical University of Denmark; Lyngby; Denmark is parent organization of: MRIWarp is parent organization of: Brede Toolbox is parent organization of: Lyngby |
Danish Research Council | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-08128 | SCR_001400 | Technology by Highly Oriented Research Center for Neuroinformatics | 2026-02-16 09:45:28 | 1 | ||||||
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Open Colleges Interactive Brain Resource Report Resource Website 1+ mentions |
Open Colleges Interactive Brain (RRID:SCR_001427) | Open Colleges Interactive Brain | training material, narrative resource, data or information resource, atlas | Interactive infographic of a brain exploring more than 100,000 chemical reactions, highlighted by areas and explanations of what that area is known to do. | brain, chemical reaction | has parent organization: Open Colleges | Restricted | nlx_155867 | SCR_001427 | 2026-02-16 09:45:29 | 1 | ||||||||
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Functional Image Processing software Computational Olio Resource Report Resource Website 1+ mentions |
Functional Image Processing software Computational Olio (RRID:SCR_001689) | FIASCO | software application, data processing software, image processing software, image analysis software, software resource | Collection of software designed to analyze fMRI data using a series of processing steps. The input is the raw data, and the outputs are statistical brain maps showing regions of neural activation. Corrections for different systematic variations in the k-space (raw) data obtained from an fMRI session (head motion, ghosting, etc) are performed first. The image is then reconstructed (using the Fast Fourier Transform) and statistical analyses run. The user has a great deal of flexibility in choosing which corrections and statistics are executed. FIASCO emphasizes correct statistical models, for example for group comparisons. | fmri, brain, neural activation, neuroimaging, function | has parent organization: Carnegie Mellon University; Pennsylvania; USA | PMID:22348882 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00298 | SCR_001689 | 2026-02-16 09:45:33 | 5 | |||||||
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Brain Dynamics Centre Resource Report Resource Website |
Brain Dynamics Centre (RRID:SCR_001685) | database, data or information resource, topical portal, portal | The Brain Dynamics Centre (BDC) is a network of centers and units. It achieves a unique exploration of the healthy brain and disorders of brain function. It translates these insights into new ways to tailor treatments to the individual. There approach is: "integrative neuroscience" - bringing together clinical observations, theory, and modern imaging technologies. And it's theoretical framework derives from linking physiology, psychology and evolution. Additionally, BDC also actively researches ADHD and conduct disorder, stress and trauma-related problems, depression and anxiety, anorexia nervosa, psychosis (including early onset) and conversion disorders. The research facilities DBC include assessment, rooms, two cognition-brain function laboratories, genotyping and an MRI Suite with 1.5 and 3T GE systems. BDC is the coordinating site for an international network - BRAINnet. It has over 180 members, and coordinates access to the first standardized database on the human brain for scientific purposes: Brain Resource International Database. | evolution, function, genetics, adhd, anorexia nervosa, anxiety, behavior, brain, brain disorder, brain imaging, clinical, cognition, conduct disorder, conservation disorder, database, depression, disorder, genotyping, healthy, human, keywords: brain, laboratory, mental illness, mri, neuroscience, onset, physiology, post traumatic stress disorder (ptsd), psychology, psychosis, research, stress, technology, trauma, treatment | Free, Freely Available | nif-0000-10177 | SCR_001685 | BDC | 2026-02-16 09:45:33 | 0 | |||||||||
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Duke University Medical Center: Duke Image Analysis Laboratory Resource Report Resource Website 10+ mentions |
Duke University Medical Center: Duke Image Analysis Laboratory (RRID:SCR_001716) | database, data or information resource, topical portal, portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23,2022. The Duke Image Analysis Laboratory (DIAL) is committed to providing comprehensive imaging support in research studies and clinical trials to various agencies. The capabilities of the lab include protocol development, site training and certification, and image archival and analysis for a variety of modalities including magnetic resonance imaging, magnetic resonance spectroscopy, computed tomography and nuclear medicine. DIAL uses the latest technologies to analyze Magnetic Resonance Imaging (MRI) data sets of the brain. Currently the lab is engaged in measurement of the hippocampus, amygdala, caudate, ventricular system, and other brain regional volumes. Each of these techniques have undergone a rigorous validation process. The measurements of brain structures provide a useful means of non-invasively testing for changes in the brain of the patient. Changes over time in the brain can be detected, and evaluated with respect to the treatment that the patient is receiving. Magnetic Resonance Spectroscopy (MRS) allows DIAL to obtain an accurate profile of the chemical content of the brain. This sensitive technique can detect small changes in the metabolic state of the brain; changes that vary in response to administration of therapeutic agents. The ability to detect these subtle shifts in brain chemistry allows DIAL to identify changes in the brain with more sensitivity than allowed by image analysis. In this respect, NMR spectroscopy can provide early detection of changes in the brain, and serves to compliment the data obtained from image analysis. Additionally, DIAL also contains SQUID (Scalable Query Utility and Image Database). It is an image management system developed to facilitate image management in research and clinical trials: SQUID offers secure, redundant image storage and organizational functions for sorting and searching digital images for a variety of modalities including MRI, MRS, CAT Scan, X-Ray and Nuclear Medicine. SQUID can access images directly from DUMC scanners. Data can also be loaded via DICOM CDs, THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | academic, amygdala, analysis, biotechnology, brain, cat scan, caudate, chemical, clinical, computed, development, digital, hippocampus, imaging, lab, laboratory, magnetic resonance imaging, magnetic resonance spectroscopy, medical, medicine, metabolic, mri, mrs, nmr, nuclear, nuclear medicine, pharmaceutical, research, spectroscopy, structure, technology, therapeutic, tomography, treatment, trial, ventricular, ventricular system, volume, x-ray, FASEB list | has parent organization: Duke University; North Carolina; USA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10213 | SCR_001716 | DMC DIAL | 2026-02-16 09:45:34 | 33 | ||||||||
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Human Brain Connectivity Database Resource Report Resource Website |
Human Brain Connectivity Database (RRID:SCR_001594) | Human Brain Connectivity Database | data set, data or information resource, bibliography | Preliminary database of neuroanatomical connectivity reports specifically for the human brain, which have been manually curated. It includes details (based on manual literature curation) of tract tracing or related connectivity studies conducted in human brain tissue. This database and user interface will be expanded and improved in the near future. | neuroanatomy, brain, tract tracing, connectivity | has parent organization: Brain Architecture Project | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_153841 | SCR_001594 | 2026-02-16 09:45:32 | 0 | ||||||||
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Waxholm Space Resource Report Resource Website 10+ mentions |
Waxholm Space (RRID:SCR_001592) | WHS, WSA, WSS | waxholm atlas, atlas, narrative resource, standard specification, data or information resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 1st, 2023. Coordinate based reference space for the mapping and registration of neuroanatomical data. Users can download image volumes representing the canonical Waxholm Space (WHS) adult C57BL/6J mouse brain, which include T1-, T2*-, and T2-Weighted MR volumes (generated at the Duke Center for In-Vivo Microscopy), Nissl-stained optical histology (acquired at Drexel University), and a volume of labels. All volumes are represented at 21.5μ isotropic resolution. Datasets are provided as gzipped NIFTI files. | mouse WHS atlas, neuroanatomy, mapping, atlas, digital, brain, reference, registration, neuroanatomical, data, mri |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Waxholm Space is related to: Duke University; North Carolina; USA is related to: PMOD Software is related to: ITK-SNAP has parent organization: International Neuroinformatics Coordinating Facility has parent organization: University of Oslo; Oslo; Norway works with: MeshView works with: VisuAlign |
PMID:20600960 PMID:21304938 |
THIS RESOURCE IS NO LONGER IN SERVICE | SCR_009594, nlx_153838, nlx_155839 | http://software.incf.org/software/waxholm-space/home, http://www.nitrc.org/projects/incf_waxholm-sp | SCR_001592 | Waxholm Space Atlas, Waxholm Space, Waxholm Standard Space, Mouse WHS atlas | 2026-02-16 09:45:31 | 16 | |||||
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Neurologychannel Resource Report Resource Website 1+ mentions |
Neurologychannel (RRID:SCR_001597) | data or information resource, topical portal, portal | A topical portal which provides information about conditions that affect the nervous system (brain, spinal cord, nerves, and muscles), such as stroke (brain attack), Alzheimer's disease, and back pain. It is a physician developed and monitored source of neurology information for consumers. Additionally, it contains comprehensive condition and treatment information, as well as interactive tools. | alzheimer's disease, back pain, brain, developed, disease, information, monitored, muscle, nerve, nervous system, neurology, physician, spinal cord, stroke | Alzheimer's Disease | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10380 | SCR_001597 | neurologychannel | 2026-02-16 09:45:31 | 1 | ||||||||
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George Mason University: Krasnow Institute for Advanced Study Resource Report Resource Website |
George Mason University: Krasnow Institute for Advanced Study (RRID:SCR_001741) | postdoctoral program resource, training resource, organization portal, portal, data or information resource | The Krasnow Institute seeks to expand understanding of mind, brain, and intelligence by conducting research at the intersection of the separate fields of cognitive psychology, neurobiology, and the computer-driven study of artificial intelligence and complex adaptive systems. These separate disciplines increasingly overlap and promise progressively deeper insight into human thought processes. The Institute also examines how new insights from cognitive science research can be applied for human benefit in the areas of mental health, neurological disease, education, and computer design. It is this informed access to mind and brain that is the core of the mission of The Krasnow Institute. While their goals and tools are scientific, they also are fully cognizant of the applications of the results for the benefit of mankind, in areas like mental health, neurological diseases, and computer design. In asking the major questions they realized the necessity of being flexible, innovative, and trans-disciplinary. Therefore, they became dedicated to bringing together scholars from a wide variety of specialties and providing a milieu where they can be both productive and interactive. This institute will provide these researchers with the tools required to move ahead and create an environment of optimal scientific integrity coupling innovation with risk taking. The Krasnow institute is especially attuned to the deep insights from evolutionary biology, which is at the root of understanding all organismic functions including cognition; computer studies of complex systems, which present a revolution in our ability to deal with the world of interactive agents; and a long history of cognitive psychology, which provides a huge data base of human abilities and responses. It also continues to develop its long-term research program based on the contributions of George Mason University faculty holding joint appointments at Krasnow and other GMU academic departments. Additionally, the Krasnow Institute Department of Molecular Neuroscience, together with the College of Science (COS) and the College of Humanities and Social Sciences (CHSS), oversees the campus-wide Neuroscience Council in developing the Neuroscience PhD curriculum. Research groups in the Krasnow institute include: - Adaptive Systems Laboratory - Center for Neural Dynamics - Center for Social Complexity - Center for the Study of Neuroeconomics o Neuroeconomics Laboratory - Comparative Vertebrate Neurobiology Research Group - Center for Neuroinformatics, Neural Structures, and Neuroplasticity (CN3) o Computational and Experimental Neuroplasticity (CENlab) o Computational Neuroanatomy Group o Physiological and Behavioral Neuroscience in Juveniles (PBNJ) Lab - Receptor Complexes and Signaling Lab - Krasnow Investigations of Developmental Learning and Behavior (KIDLAB) - Neuro Imaging Core of the Krasnow Institute | dynamics, education, emotion, evolutionary, function, adaptive, artificial, behavior, behavioral, biology, biomedical, brain, cognition, cognitive, cognitive science, complex, computational, computer, design, disease, happiness, homo sapiens, human, imaging, intelligence, learning, mental health, mind, nature, neural, neuroanatomy, neurobiology, neuroeconomics, neuroinformatics, neurological, neuroplasticity, organismic, physiological, psychology, receptor, research, signaling, social, structure, system, theological, thought, vertebrate |
has parent organization: George Mason University; Virginia; USA is parent organization of: BraVa is parent organization of: Computational Neuroanatomy Group |
Free, Freely Available | nif-0000-10239 | SCR_001741 | GMU Kransnow | 2026-02-16 09:45:36 | 0 | ||||||||
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PhenoGen Informatics Resource Report Resource Website 10+ mentions |
PhenoGen Informatics (RRID:SCR_001613) | PhenoGen | application programming interface, data set, data analysis service, analysis service resource, data access protocol, data repository, software resource, storage service resource, source code, production service resource, service resource, data or information resource | Website for analyzing microarray data. Software toolbox for storing, analyzing and integrating microarray data and related genotype and phenotype data. The site is particularly suited for combining QTL and microarray data to search for candidate genes contributing to complex traits. In addition, the site allows, if desired by the investigators, sharing of the data. Investigators can conduct in-silico microarray experiments using their own and/or shared data. There are five major sections of the site: Genome/Transcriptome Data Browser, Microarray Analysis Tools, Gene List Analysis Tools, QTL Tools, and Downloads. The genome/transcriptome data browser combines a genome browser with all the microarray, RNA-Seq, and Genomic Sequencing data. This provides an effective platform to view all of this data side by side. Source code is available on GitHub. | genome, transcription, microarray, gene, quantitative trait loci, analysis, complex trait, genotype, phenotype, high-throughput, rna-seq, snp, genomic marker, region, data sharing, normalize, statistics, gene list, pathway, expression value, expression, correlation, exon, annotation, promoter, homolog, brain, heart, liver, adipose, candidate gene, genetics, transcriptome, eqtl, genome browser, inbred panel |
is related to: MONARCH Initiative has parent organization: University of Colorado Denver; Colorado; USA |
NIAAA R24 AA013162; NIAAA R01 AA13162; NIAAA U01 AA013524 |
PMID:17760997 | Free, Freely available | rid_000093, nlx_153879, r3d100011596 | https://github.com/TabakoffLab/PhenogenCloud https://doi.org/10.17616/R3WS7F |
http://phenogen.ucdenver.edu, http://phenogen.uchsc.edu | SCR_001613 | PhenoGen Informatics - The site for quantitative genetics of the transcriptome. | 2026-02-16 09:45:32 | 22 |
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