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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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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 | 2026-08-04 09:40:39 | 0 | ||||||||
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eMouseAtlas Resource Report Resource Website 50+ mentions |
eMouseAtlas (RRID:SCR_002981) | EMAP, EMA, EMAGE, MAP, EMAP, MAP2.0, | atlas, database, data or information resource | 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 ; NINDS ; NIBIB ; NIDA ; NIDCD ; NIA |
PMID:15043218 PMID:18077470 PMID:16381949 |
Free, Freely available | nif-0000-00038, nif-0000-00505, biotools:emap, biotools:ma, SCR_007281 | 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 | 2026-08-04 09:40:47 | 69 | |||
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Genes to Cognition Database Resource Report Resource Website |
Genes to Cognition Database (RRID:SCR_002735) | G2Cdb | database, data or information resource | Database of protein complexes, protocols, mouse lines, and other research products generated from the Genes to Cognition project, a project focused on understanding molecular complexes involved in synaptic transmission in the brain. | allele, gene list, mouse line, human disease, phenotyping, plasticity, behavior, proteonomics, brain, cognition, cognition disorder, learning, memory, neuroscience, experimental protocol, synapse proteomics, synapse | Wellcome Trust ; MRC ; BBSRC ; Gatsby Charitable Foundation ; Human Frontiers Science Programme ; European Union ; Framework Programme ; EPSRC ; NSF |
PMID:18984621 | Free, Freely available | nif-0000-02864 | http://www.genes2cognition.org/cgi-bin/SearchView | SCR_002735 | Genes-to-Cognition Database | 2026-08-04 09:40:43 | 0 | |||||
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BAMS Cells Resource Report Resource Website 10+ mentions |
BAMS Cells (RRID:SCR_003531) | BAMS Cells, BAMS Cell | database, data or information resource | 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 |
NIMH ; NINDS ; NIBIB |
THIS RESOURCE IS NO LONGER IN SERVICE. | nif-0000-90175 | http://brancusi.usc.edu/bkms/ | SCR_003531 | Brain Architecture Management System Cells | 2026-08-04 09:40:56 | 11 | |||||
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Drug Related Gene Database Resource Report Resource Website 1+ mentions |
Drug Related Gene Database (RRID:SCR_003330) | DRG | database, data or information resource | Gene expression data from published journal articles that test hypotheses relevant to neuroscience of addiction and addictive behavior. Data types include effects of particular drug, strain, or knock out on particular gene, in particular anatomical region. Focuses on gene expression data and exposes data from investigations using DNA microarrays, polymerase chain reaction, immunohistochemistry and in-situ hybridizations. Data are available for query through NIF interface.Data submissions are welcome. | drug of abuse, gene expression, brain region, brain, american recovery and reinvestment act, brain, dna microarray, microarray, addiction |
uses: PubMed is listed by: NIF Data Federation is related to: Integrated Manually Extracted Annotation has parent organization: Neuroscience Information Framework |
NIDA | Free, Freely available | nif-0000-37443 | https://confluence.crbs.ucsd.edu/login.action?os_destination=%2Fpages%2Fviewpage.action%3FspaceKey%3DNIF%26title%3DDRG&permissionViolation=true | SCR_003330 | DRG Database, Drug Dependent Gene Database | 2026-08-04 09:40:53 | 2 | |||||
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Brede Database Resource Report Resource Website |
Brede Database (RRID:SCR_003327) | Brede | database, data or information resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on August 4th, 2023. A database of human data from functional neuroimaging scientific articles containing Talairach coordinates that provides data for novel information retrieval techniques and automated meta-analyses. Each article in this database is identified by a unique number: A WOBIB. Some of the structure of the Brede database is similar to the structure of the BrainMap database (Research Imaging Center, San Antonio). The database is inspired by the hierarchical structure of BrainMap with scientific articles (bib structures) on the highest level containing one or more experiments (exp structure, corresponding to a contrast in general linear model analyses), these in turn comprising one or more locations (loc structures). The information on the bib level (author, title, ...) is setup automatically from PubMed while the rest of the information is entered manually in a Matlab graphical user interface. On the loc level this includes the 3D stereotactic coordinates in either Talairach or MNI space, the brain area (functional, anatomical or cytoarchitectonic area) and magnitude values such as Z-score and P-value. On the exp level information such as modality, scanner and behavioral domain are recorded with external components (such as face recognition or kinetic boundaries) organized in a directed graph and marked up with Medical Subject Headings (MeSH) where possible. The database is distributed as part of the Brede neuroinformatics toolbox (hendrix.imm.dtu.dk/software/brede/) which also provides the functions to manipulate and analyze the data. The Brede Toolbox is a program package primarily written in Matlab. As of 2006/11, 186 papers with 586 experiments. | neuroinformatics, functional neuroimaging, talairach, mni, brain, fmri, neuroimaging, matlab, pet, positron emission tomography, functional magnetic resonance imaging, multichannel electroencephalography, eeg, magnetoencephalography, near infrared spectroscopic imaging, single photon emission computed tomography, mri, coordinate, brain function, brain region, ontology |
is used by: NIF Data Federation is related to: Brede Wiki is related to: Brede Toolbox is related to: Brede Toolbox is related to: Brede Wiki is related to: brainmap.org is related to: Integrated Manually Extracted Annotation has parent organization: Technical University of Denmark; Lyngby; Denmark |
European Union ; Project MAPAWAMO QLG3-CT-2000-300161 |
PMID:19668704 PMID:23666785 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00064 | SCR_003327 | 2026-08-04 09:40:53 | 0 | ||||||
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Hungarian Neurological-Psychiatric Biobank Resource Report Resource Website |
Hungarian Neurological-Psychiatric Biobank (RRID:SCR_003715) | NEPSYBANK | biomaterial supply resource, material resource, tissue bank | The Hungarian Society of Clinical Neurgenetics established a nationwide collaboration for prospective collection of human biological materials and databases from patient with neurological and psychiatric diseases. The basic triangle of the NEPSYBANK is the sample, the information and the study management. The present participants of the NEPSYBANK are the Department of Neurology and Psychiatry of the four Medical Universities (in Budapest, Debrecen, Pecs, Szeged) and the National Institute of Psychiatry and Neurology in Budapest. The NEPSYBANK is a disease based biobank collecting both phenotypical and environmental data and biological materials such as DNA/RNA, whole blood, plasma, cerebral spinal fluid, muscle / nerve / skin biopsy, brain, and fibroblast. The target of the diseases is presently (Phase I): stroke syndromes, dementias, movement disorders, motoneuron diseases, epilepsy, multiple sclerosis, schizophrenia, alcohol addiction. In the near future (Phase II.) it is planned to enlarge the scale with headaches, disorders of the peripheral nerves, disorders of neuromuscular transmission, disorders of skeletal muscle, depression, anxiety. DNA/RNA is usually extracted from whole blood, but occasionally different tissues such as muscle, brain etc. can be used as well. The extracting procedures differ among the institutes, but in all cases the concentration and the quality of the DNA/RNA must be registered in the database. Participating institutional biobanks have committed themselves to follow common quality standards, which provide access to samples after prioritization on scientific grounds only. In every case the following data are registered. 1. General data: main bank categories, age, sex, ethnicity, body height, body weight, economic stats, education, type of place of living, marital status, birth complications, alcohol, drugs, smoking. 2. Sample properties (sample ID, type of sample, date of extraction, concentration, and level of purity). General patient data as blood pressure, heart rate, internal medical status, ECG, additional diseases. Disease specific question e.g. in schizophrenia the diagnosis after DSMIV and ICD 10, detailed diagnostic questions after both classification, detailed psychiatric and neurological status, laboratory findings, rating scales, data of neuroimaging, genetic tests, applied medication (with generic name, dose, duration), adverse drug effects and other treatments. The Biobank Information Management System (BIMS) is responsible for linkage of databases containing information on the individual sample donors. If you want to have samples from the NEPSYBANK an application must be submitted containing the following information: short research plan including aims and study design, ethic application with a positive decision, specific demands regarding the right of disposition, agreements with grant organizations which regulate immaterial property, information about financing (academic grants, support from industry). All participants have the right to withdraw their samples through a simple order. | neurology, psychiatry, genomic, gene, genetic, disease, phenotype, clinical data, environment, dna, rna, whole blood, plasma, cerebral spinal fluid, muscle, biopsy, nerve, skin, brain, fibroblast, tissue, blood, frozen, liquid nitrogen, neurological disease, psychiatric disease, stroke, dementia, movement disorder, motor neuron disease, epilepsy, multiple sclerosis, schizophrenia, alcohol, addiction, alcohol addiction, headache, peripheral nerve disorder, neuromuscular transmission disorder, skeletal muscle disorder, depressive disorder, anxiety | is listed by: One Mind Biospecimen Bank Listing | Neurological disease, Psychiatric disease, Stroke, Dementia, Movement disorder, Motor Neuron Disease, Epilepsy, Multiple Sclerosis, Schizophrenia, Alcohol addiction, Headache, Peripheral nerve disorder, Neuromuscular transmission disorder, Skeletal muscle disorder, Depressive Disorder, Anxiety | PMID:17448454 | Public: if you want to have samples from the NEPSYBANK an application must be submitted. | nlx_13478 | SCR_003715 | Hungarian Neurological - Psychiatric Biobank, Hungarian Neurological - Psychiatric Biobank - NEPSYBANK | 2026-08-04 09:40:58 | 0 | |||||
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NeuroBiobank Munich Resource Report Resource Website 10+ mentions |
NeuroBiobank Munich (RRID:SCR_005014) | NBM | biomaterial supply resource, material resource, tissue bank | A brain bank which collects brain tissue from patients who died from various neurological and psychiatric diseases. These tissues are available for biochemical, molecular biological, and other work groups with the aim of supporting research on the pathogenesis, diagnosis, and therapy of these diseases. Collected brains are clinically and neuropathologically well-characterized. The collection and distribution of brain tissue samples is an ongoing process. NeuroBiobank Munich offers help with the organization and implementation of autopsies as well as with the neuropathologic diagnostics. The thematic emphasis of the NeuroBiobank Munich is Parkinson's disease and demential degenerative disorders such as Alzheimer's disease or Creutzfeldt-Jakob disease. NeuroBiobank Munich coordinates the German national brain tissue bank (BrainNet) and the European brain tissue bank (BrainNet Europe). | brain, tissue, brain bank, neurological disease, mental disease, parkinson's disease, alzheimer's disease, creutzfeldt-jakob syndrome, post mortem, neurodegenerative disease, dementia |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Ludwig-Maximilians-University; Munich; Germany |
Parkinson's disease, Alzheimer's disease, Creutzfeldt-Jakob Syndrome, Neurodegenerative disease, Dementia | Public | nlx_144006 | SCR_005014 | ZNP Biobank | 2026-08-04 09:41:16 | 26 | ||||||
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Stanley Medical Research Institute Online Genomics Database Resource Report Resource Website 10+ mentions |
Stanley Medical Research Institute Online Genomics Database (RRID:SCR_004859) | Stanley Online Genomics Database | database, data or information resource | The Stanley Online Genomics Database uses samples from the Stanley Medical Research Institute (SMRI) Brain Bank. These samples were processed and run on gene expression arrays by a variety of researchers in collaboration with the SMRI. These researchers have performed analyses on their respective studies using a range of analytic approaches. All of the genomic data have been aggregated in this online database, and a consistent set of analyses have been applied to each study. Additionally, a comprehensive set of cross-study analyses have been performed. A thorough collection of gene expression summaries are provided, inclusive of patient demographics, disease subclasses, regulated biological pathways, and functional classifications. Raw data is also available to download. The database is derived from two sets of brain samples, the Stanley Array collection and the Stanley Consortium collection. The Stanley Array collection contains 105 patients, and the Stanley Consortium collection contains 60 patients. Multiple genomic studies have been conducted using these brain samples. From these studies, twelve were selected for inclusion in the database on the basis of number of patients studied, genomic platform used, and data quality. The Consortium collection studies have fewer patients but more diversity in brain regions and array platforms, while the Array collection studies are more homogenous. There are tradeoffs, the Consortium results will be more variable, but findings may be more broadly representative. The collections contain brain samples from subjects in four main groups: Bipolar Schizophrenia, Depression, and Controls Brain regions used in the studies include: Broadman Area 6, Broadman Area 8/9, Broadman Area 10, Broadman Area 46, Cerebellum The 12 studies encompass a range of microarray platforms: Affymetrix HG-U95Av2, Affymetrix HG-U133A, Affymetrix HG-U133 2.0+, Codelink Human 20K, Agilent Human I, Custom cDNA Publications based on any of the clinical or genomic data should credit the Stanley Medical Research Institute, as well as any individual SMRI collaborators whose data is being used. Publications which make use of analytic results/methods in the database should additionally cite Dr. Michael Elashoff. Registration is required to access the data. | clinical, genomic, gene expression, microarray, bipolar disorder, schizophrenia, depressive disorder, control, brain, brodmann area 6, brodmann area 8, brodmann area 9, brodmann (1909) area 10, brodmann area 46, cerebellum, FASEB list | has parent organization: Stanley Medical Research Institute | PMID:16594998 | nlx_143935 | SCR_004859 | SMRI Online Genomics Database | 2026-08-04 09:41:14 | 31 | |||||||
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Compass of Pleasure Resource Report Resource Website |
Compass of Pleasure (RRID:SCR_004756) | Compass of Pleasure | blog, narrative resource, data or information resource | A blog written by David J. Linden, Ph.D., professor of Neuroscience at the Johns Hopkins University School of Medicine, focusing on the brain''s pleasure circuits. Topics covered include exercise, pleasure and the brain; and understanding the biology of runners high. The Compass of Pleasure: How Our Brains Make Fatty Foods, Orgasm, Exercise, Marijuana, Generosity, Vodka, Learning, and Gambling Feel So Good is also a book and available for purchase. David J. Linden, Ph.D., is a professor in the Department of Neuroscience at the Johns Hopkins University School of Medicine. His laboratory has worked for many years on the cellular substrates of memory storage in the brain and a few other topics. He has a longstanding interest in scientific communication and serves as the Chief Editor of the Journal of Neurophysiology. He has written two books for a general audience about the biological basis of mental function: The Compass of Pleasure (Viking Press, 2011) and The Accidental Mind (Harvard/Belknap, 2007). | brain, pleasure circuit, exercise, pleasure, book | nlx_75617 | SCR_004756 | The Compass of Pleasure: Vice virtue and the brain''s pleasure circuits, The Compass of Pleasure | 2026-08-04 09:41:12 | 0 | |||||||||
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Brain Bank for Autism Resource Report Resource Website 1+ mentions |
Brain Bank for Autism (RRID:SCR_004664) | Brain Bank for Autism | biomaterial supply resource, material resource, tissue bank | Encourages and facilitates brain tissue donation for use in the best scientific studies to better understand the biological basis of autism down to the cellular and molecular levels and through that understanding bring about the development of effective interventions for those affected by autism spectrum disorders. To ensure the best co-ordinated use of brain tissue, the UK Brain Bank for Autism works in collaboration with the Autism Tissue Program in the US and shares the same Tissue Advisory board. The Brain Bank for Autism & Related Developmental Research was established in 2009. It is an initiative to develop a similar program in the UK to the Autism Tissue Program, which has been developed in the US since 1998. Our Brain Bank is the first extension outside the US of the Autism Tissue Program and is integrated with it. The Brain Bank is based at Oxford University, where it forms part of the Thomas Willis Oxford Brain Collection. It operates in accordance with all UK legal and ethical requirements. The donation of post-mortem brain tissue for this research program is of fundamental importance to our understanding of the causes of autism and to help us develop more effective diagnostic measures and interventions. A separate brain bank for autism is necessary because we need to understand how, in autism, the brain develops over time and how the brain functions as a whole. However, our Brain Bank will promote close cooperation across all relevant brain banks in order to take the research forward. Our research focuses on: * people within the autism spectrum or their family members * people not affected by autism but who are affected by epilepsy * individuals without autism or epilepsy. | brain, tissue, autism, autism spectrum disorder, family member, epilepsy, normal control, post-mortem |
is listed by: One Mind Biospecimen Bank Listing has parent organization: University of Oxford; Oxford; United Kingdom |
Autism, Autism spectrum disorder, Family member, Epilepsy, Normal control | Autistica | nlx_66413 | SCR_004664 | Brain Bank for Autism & Related Developmental Research, UK Brain Bank for Autism, Brain Bank for Autism and Related Developmental Research | 2026-08-04 09:41:12 | 1 | ||||||
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Chronux Resource Report Resource Website 500+ mentions |
Chronux (RRID:SCR_005547) | Chronux | data processing software, software application, software resource, data analysis software | Open-source software package for the analysis of neural data. Chronux routines may be employed in the analysis of both point process and continuous data, ranging from preprocessing, exploratory and confirmatory analysis. The current release is implemented as a MATLAB library. Chronux offers several routines for computing spectra and coherences for both point and continuous processes. In addition, it also offers several general purpose routines that were found useful such as a routine for extracting specified segments from data, or binning spike time data with bins of a specified size. Since the data can be continuous valued, point process times, or point processes that are binned, methods that apply to all these data types are given in routines whose names end with ''''c'''' for continuous, ''''pb'''' for binned point processes, and ''''pt'''' for point process times. Thus, mtspectrumc computes the spectrum of continuous data, mtspectrumpb computes a spectrum for binned point processes, and mtspectrumpt compute spectra for data consisting of point process times. Hybrid routines are also available and similarly named - for instance coherencycpb computes the coherency between continuous and binned point process data. | fmri, brain mapping, brain, matlab |
is related to: Zebra Finch Song Learning Consortium has parent organization: Cold Spring Harbor Laboratory |
NIMH | Open-source. Please cite. | nif-0000-00082 | SCR_005547 | Chronux Analysis Software | 2026-08-04 09:41:23 | 535 | ||||||
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VA Biorepository Brain Bank Resource Report Resource Website 1+ mentions |
VA Biorepository Brain Bank (RRID:SCR_006546) | VABBB | biomaterial supply resource, brain bank, material resource, tissue bank | A human tissue bank that collects, processes, stores and gives out research specimens for future scientific studies. Presently, the VABBB is obtaining neurologic tissue specimens from Veterans who suffer from amyotrophic lateral sclerosis (ALS) and other illnesses that affect Veterans, along with relevant clinical data, essential for research. Currently, neither the cause nor prevention of ALS is known. Medical researchers are currently examining environmental, toxic, genetic, traumatic, medical, and occupational influences as possible contributors to the development and progression of ALS. Veterans have a higher risk of developing ALS compared with non-Veterans; however, the reasons for this higher risk are currently unknown. Any Veteran with ALS in the U.S. may enroll in the VABBB. | brain, spinal cord, veteran, brain tissue, spinal cord tissue, neurologic tissue, clinical |
is listed by: One Mind Biospecimen Bank Listing has parent organization: U.S. Department of Veterans Affairs |
Amyotrophic Lateral Sclerosis, Post-Traumatic Stress Disorder | ALS researchers are invited to apply for tissue and data | nlx_156782 | SCR_006546 | 2026-08-04 09:41:38 | 1 | |||||||
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CRCNS Resource Report Resource Website 100+ mentions |
CRCNS (RRID:SCR_005608) | CRCNS | funding resource, storage service resource, collaborative tool, data repository, service resource, data or information resource | Website for brain experimental data and other resources such as stimuli and analysis tools. Provides marketplace and discussion forum for sharing tools and data in neuroscience. Data repository and collaborative tool that supports integration of theoretical and experimental neuroscience through collaborative research projects. CRCNS offers funding for new class of proposals focused on data sharing and other resources. | collaborative research, data sharing, computational model, brain, computational neuroscience, data set, FASEB list |
is used by: NIF Data Federation is used by: DataLad is used by: Integrated Datasets is recommended by: National Library of Medicine is listed by: DataCite is related to: Integrated Manually Extracted Annotation has parent organization: University of California at Berkeley; Berkeley; USA has parent organization: University of California; California; USA |
NIH ; NSF IIS-0749049; NSF 0636838 |
PMID:18259695 | Free, Freely available | nif-0000-00255, r3d100011269 | https://api.datacite.org/dois?prefix=10.6080, https://doi.org/10.17616/R31S7P | SCR_005608 | CRCNS Data sharing, Collaborative Research in Computational Neuroscience - Data sharing, Collaborative Research in Computational Neuroscience, CRCNS - Data sharing | 2026-08-04 09:41:23 | 119 | ||||
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V3D Resource Report Resource Website 1+ mentions |
V3D (RRID:SCR_008646) | V3D | segmentation software, data processing software, d visualization software, software resource, software application, image analysis software, data visualization software | V3D is a handy, fast, and versatile 3D/4D/5D Image Visualization & Analysis System for Bioimages & Surface Objects. It also provides many unique functions, is Open Source, supports a very simple and powerful plugin interface and thus can be extended & enhanced easily. V3D-Neuron is a powerful 3D neuron reconstruction, visualization, and editing software built on top of V3D. Both V3D and V3D-Neuron have recently been published in Nature Biotechnology (April, 2010), and Highlighted in Nature Methods (May, 2010), and Science News (April, 2010), etc. V3D is a cross-platform (Mac, Linux, and Windows) tool for visualizing large-scale (gigabytes, and 64-bit data) 3D image stacks and various surface data. It is also a container of powerful modules for 3D image analysis (cell segmentation, neuron tracing, brain registration, annotation, quantitative measurement and statistics, etc) and data management. This makes V3D suitable for various bioimage informatics applications, and a nice platform to develop new 3D image analysis algorithms for high-throughput processing. In short, V3D streamlines the workflow of visualization-assisted analysis. In the latest V3D development, it can render 5D (spatial-temporal) data directly in 3D volume-rendering mode; it supports convenient and interactive local and global 3D views at different scales. It even has a Matlab file IO toolbox. A user can now write his/her own plugins to take advantage of the V3D platform very easily. | 3d, annotation, bioimage, brain, cell, development, informatics, neuron, registration, segmentation, software, tracing, visual, visualization, image |
is listed by: SoftCite has parent organization: Janelia Research |
Howard Hughes Medical Institute | PMID:20231818 | nif-0000-32975 | SCR_008646 | V3D: A Swiss army knife for bioimage visualization & analysis | 2026-08-04 09:42:12 | 3 | ||||||
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NIMH Brain Tissue Collection Resource Report Resource Website 1+ mentions |
NIMH Brain Tissue Collection (RRID:SCR_008726) | NIMH Brain Bank | biomaterial supply resource, brain bank, material resource, tissue bank | A collection of brain tissue from individuals suffering from schizophrenia, bipolar disorder, depression, anxiety disorders, and substance abuse, as well as healthy individuals. The research mission of the NIMH Brain Bank is to better understand the underlying biological mechanisms and pathways that contribute to schizophrenia and other neuropsychiatric disorders, as well as to study normal human brain development. | schizophrenia, bipolar disorder, depressive disorder, anxiety disorder, substance abuse, healthy, neurological disorder, mental disease, suicide, tourette's syndrome, dementia, brain development, brain, brain tissue, tissue, post-mortem, normal control, ClinicalTrials.gov Identifier: NCT00001260 |
is listed by: One Mind Biospecimen Bank Listing has parent organization: NIMH Intramural Research Program Clinical Brain Disorders Branch |
Schizophrenia, Bipolar Disorder, Depressiive Disorder, Anxiety Disorder, Drug Abuse, Healthy, Neurological disorder, Mental disease, Suicide, Tourette's Syndrome, Dementia, Normal control, Aging | NIMH | Samples available to investigators approved by an NIMH Oversight Committee, Molecular and genetic data available to the scientific community | nlx_143684 | http://cbdb.nimh.nih.gov/neuropath.htm | SCR_008726 | 2026-08-04 09:42:13 | 1 | |||||
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UT Southwestern ADC Brain Tissue Donation Program Resource Report Resource Website |
UT Southwestern ADC Brain Tissue Donation Program (RRID:SCR_008837) | UTSW Brain Tissue Donation Program, UTSW ADC Brain Tissue Donation Program | biomaterial supply resource, brain bank, material resource, tissue bank | Brain tissue donation program at the UT Southwestern Memory Clinic that aims to utilize these contributions for research on Alzheimer's. Diagnosis of Alzheimer's disease or other dementias are made through autopsy, the results of which are available to family members. | brain tissue, tissue, brain, alzheimer's disease, late adult human, mild cognitive impairment, dementia, frontotemporal dementia, autopsy, research |
is listed by: One Mind Biospecimen Bank Listing has parent organization: University of Texas Southwestern Medical Center - Alzheimer's Disease Center |
Alzheimer's disease, Mild Cognitive Impairment, Aging, Dementia, Frontotemporal Dementia | Private | nlx_144639 | SCR_008837 | 2026-08-04 09:42:14 | 0 | |||||||
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QModeling Resource Report Resource Website 1+ mentions |
QModeling (RRID:SCR_016358) | data processing software, data analysis software, software resource, software application, image analysis software, software toolkit | Software toolbox for Statistical Parametric Mapping (SPM) to fit reference-region kinetic models (SRTM, SRTM2, Patlak Reference and Logan Reference Plot) are currently available in QModeling to dynamic PET studies. Used for the analysis of brain imaging data sequences. | statistical, parametric, mapping, reference, region, kinetic, model, dynamic, analysis, brain, data, imaging, sequence |
is related to: University of Malaga; Andalusia; Spain is related to: MATLAB |
DOI:10.1007/s12021-018-9384-y | Free, Available for download, Available after registration | SCR_016358 | 2026-08-04 09:43:53 | 1 | |||||||||
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Brain Imaging Analysis Kit Resource Report Resource Website 10+ mentions |
Brain Imaging Analysis Kit (RRID:SCR_014824) | BrainIAK | data processing software, software resource, software application, image analysis software, software toolkit | Open source software package of Python modules for neuroscience, primarily focused on functional Magnetic Resonance Imaging (fMRI) analysis. Used for analyzing neuroimaging data. | brain, python, module, imaging, fmri, data, analysis, neuroimaging |
is related to: Intel has parent organization: Princeton University; New Jersey; USA |
Free, Available for download, Freely available | https://github.com/brainiak/brainiak | SCR_014824 | BrainIAK, Brain Imaging Analysis Kit, Brain Imaging Analysis Kit (BrainIAK) | 2026-08-04 09:43:32 | 26 | |||||||
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Braineac Resource Report Resource Website 10+ mentions |
Braineac (RRID:SCR_015888) | web application, software resource, database, data or information resource | Database for the UK Brain Expression Consortium (UKBEC) dataset that comprises of brains from individuals free of neurodegenerative disorders. The aim of Braineac is to release to the scientific community a valid instrument to investigate the genes and SNPs associated with neurological disorders. | neurodegenerative, brain, disorder, mrna, dna, eqtl, snp, gene, visualization, expression | has parent organization: UK Brain Expression Consortium | Normal | PMID:25174004 | Public, Free, Available for download | SCR_015888 | 2026-08-04 09:43:45 | 49 |
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