Searching the RRID Resource Information Network
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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BAMS Neuroanatomical Ontology Resource Report Resource Website 1+ mentions |
BAMS Neuroanatomical Ontology (RRID:SCR_004616) | data or information resource, ontology, controlled vocabulary | Ontology designed for neuroscience. Includes complete set of concepts that describe parts of rat nervous system, growing set of concepts that describe neuron populations identified in different brain regions, and relationships between concepts. | has parent organization: Brain Architecture Management System | NIMH MH61223; NINDS NS16668; NINDS NS050792 |
PMID:18974794 | Restricted | nlx_61376 | http://brancusi.usc.edu/bkms/bams-ontology.html | SCR_004616 | BAMS Ontology | 2026-02-14 02:00:45 | 2 | ||||||
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TRACK TBI Network Resource Report Resource Website |
TRACK TBI Network (RRID:SCR_004723) | TRACK TBI Network | knowledge environment, data or information resource, narrative resource, standard specification | Network evaluating consensus-based common data elements (CDE) for traumatic brain injury (TBI) and psychological health (TBI-CDE, www.commondataelements.ninds.nih.gov/TBI.aspx) while extensively phenotyping a cohort of TBI patients across the injury spectrum from concussion to coma. Institutions that participate in the TBI Network will be able to track the outcomes of patients through a 3, 6 and 12-month followup program and compare outcomes with other participating institutions. For the three acute care centers, patients were enrolled that presented to the emergency department within 24 hours of head injury and required computed tomography (CT). For the rehabilitation center, referrals from acute hospitals were enrolled. Patients were consented to participate in components: clinical profile; blood draws for measurement of proteomic and genomic markers; 3T MRI within 2 weeks; three-month Glasgow Outcome Scale-Extended (GOS-E); and six-month TBI-CDE Core outcome assessments. A web-enabled database, imaging repository, and biospecimen bank was developed using the TBI-CDE recommendations. A total of 605 patients were enrolled. Of these subjects, 88% had a GCS 13-15, 5% had a GCS 9-12, and 7% had a GCS of 8 or less. Three-month GOS-E''s were obtained for 78% of the patients. Comprehensive 6-month outcome measures, including PTSD assessment, are ongoing until September 2011. Blood specimens were collected from 450 patients. Initial CTs for 605 patients and 235 patients with 3T MRI studies were transferred to an imaging repository. The TRACK TBI Network will provide qualified institutions access to a web-based version of key forms in tracking TBI outcomes for Quality Improvement and institutional benchmarking. | traumatic brain injury, concussion, coma, psychological health, common data element, head injury, mri, computed tomography, post-traumatic stress disorder, clinical, neuroimage, genomic, proteomic, outcome data, clinical data, marker, blood, glasgow outcome scale-extended, one mind tbi, one mind ptsd, image, image collection, benchmark, biomaterial supply resource, database, outcome | is listed by: One Mind Biospecimen Bank Listing | Traumatic brain injury | NINDS ; NIDRR ; Defense and Veterans Brain Injury Center ; Defense Centers of Excellence for Psychological Health and Traumatic Brain Injury |
Access to a web-based version of key forms is available to qualified institutions. | nlx_143882 | http://www.tracktbi.net/tracktbi/ | SCR_004723 | Traumatic Brain Injury Network, Transforming Research and Clinical Knowledge in Traumatic Brain Injury Network, TBI Network, Transforming Research and Clinical Knowledge in Traumatic Brain Injury: Multicenter Implementation of the TBI Common Data Elements | 2026-02-14 02:00:44 | 0 | ||||
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Protein Data Bank Markup Language Resource Report Resource Website 1+ mentions |
Protein Data Bank Markup Language (RRID:SCR_005085) | PDBML | data or information resource, interchange format, markup language, narrative resource, standard specification | Markup Language that provides a representation of PDB data in XML format. The description of this format is provided in XML schema of the PDB Exchange Data Dictionary. This schema is produced by direct translation of the mmCIF format PDB Exchange Data Dictionary Other data dictionaries used by the PDB have been electronically translated into XML/XSD schemas and these are also presented in the list below. * PDBML data files are provided in three forms: ** fully marked-up files, ** files without atom records ** files with a more space efficient encoding of atom records * Data files in PDBML format can be downloaded from the RCSB PDB website or by ftp. * Software tools for manipulating PDB data in XML format are available. | xml |
is related to: RCSB PDB Software Tools has parent organization: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) |
NSF ; NIGMS ; DOE ; NLM ; NCI ; NCRR ; NIBIB ; NINDS |
PMID:15509603 | nlx_144096 | SCR_005085 | PDBML: Protein Data Bank Markup Language | 2026-02-14 02:01:03 | 2 | ||||||
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fanDTasia Java Applet: DT-MRI Processing Resource Report Resource Website 1+ mentions |
fanDTasia Java Applet: DT-MRI Processing (RRID:SCR_009624) | fdt | image processing software, software resource, data processing software, software application | A Java applet tool for DT-MRI processing. It opens Diffusion-Weighted MRI datasets from user's computer and performs very efficient tensor field estimation using parallel threaded processing on user's browser. No installation is required. It runs on any operating system that supports Java (Windows, Mac, Linux,...). The estimated tensor field is guaranteed to be positive definite second order or higher order and is saved in user's local disc. MATLAB functions are also provided to open the tensor fields for your convenience in case you need to perform further processing. The fanDTasia Java applet provides also vector field visualization for 2nd and 4th-order tensors, as well as calculation of various anisotropic maps. Another useful feature is 3D fiber tracking (DTI-based) which is also shown using 3d graphics on the user's browser. | magnetic resonance, dti, diffusion-weighted mri |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of Florida; Florida; USA |
NIBIB EB007082; NINDS NS066340 |
Non-Commercial Software License Agreement, Https://www.nitrc.org/include/glossary.php#589, Non-commercial | nlx_155849 | http://www.nitrc.org/projects/fandtasia | SCR_009624 | FanDTasia | 2026-02-14 02:01:52 | 2 | |||||
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GTRACT Resource Report Resource Website 1+ mentions |
GTRACT (RRID:SCR_009651) | GTRACT | data processing software, software toolkit, software application, image processing software, software resource, image analysis software | A Diffusion Tensor fiber tracking software suite that includes streamline tracking tools. The fiber tracking includes a guided tracking tool that integrates apriori information into a streamlines algorithm. This suite of programs is built using the NA-MIC toolkit and uses the Slicer3 execution model framework to define the command line arguments. These tools can be fully integrated with Slicer3 using the module discovery capabilities of Slicer3. NOTE: All new development is being managed in a github repository. Please visit, https://github.com/BRAINSia/BRAINSTools | c++, dicom, macos, microsoft, modeling, morphology, magnetic resonance, nifti, posix/unix-like, quantification, tensor metric, tractography, windows, dti, diffusion tensor fiber tracking, fiber tracking, nrrd, algorithm, connectivity |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: 3D Slicer has parent organization: University of Iowa; Iowa; USA |
Aging | NARSAD ; NINDS R01NS050568-01A2S1; NINDS 5R01NS040068-04; NIMH 5R01MH063405-04; NIMH 5R01MH031593-23; NIMH 2R01MH040856-17A2; NIA 5K23AG020649-03; NIDCR 5R01DE014399-04 |
PMID:16631385 | BSD License | nlx_155992 | SCR_009651 | Guided Tensor Restore Anatomical Connectivity Tractography | 2026-02-14 02:01:42 | 2 | ||||
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ieeg.org Resource Report Resource Website 50+ mentions |
ieeg.org (RRID:SCR_010000) | data repository, storage service resource, data or information resource, service resource, database | Repository for EEG data. The International Epilepsy Electrophysiology Portal is a collaborative initiative funded by the National Institutes of Neurological Disease and Stroke. This initiative seeks to advance research towards the understanding of epilepsy by providing a platform for sharing data, tools and expertise between researchers. The portal includes a large database of scientific data and tools to analyze these datasets. | data sharing, FASEB list | Epilepsy | NINDS 1 U24 NS063930-01 | nlx_157297 | SCR_010000 | International Epilepsy Electrophysiology Portal, IEEG | 2026-02-14 02:01:53 | 51 | ||||||||
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Hippocampal Slice Wave Animations Resource Report Resource Website |
Hippocampal Slice Wave Animations (RRID:SCR_008372) | data visualization software, data processing software, animation software, portal, resource, data or information resource, software application, software resource, simulation software, topical portal | THIS RESOURCE IS NO LONGER IN SERVICE, documented on January 29, 2013. Supplemental data for the paper Changes in mitochondrial function resulting from synaptic activity in the rat hippocampal slice, by Vytautas P. Bindokas, Chong C. Lee, William F. Colmers, and Richard J. Miller that appears in the Journal of Neuroscience June 15, 1998. You can view digital movies of changes in fluorescence intensity by clicking on the title of interest. | animation, hippocampal, hippocampus, mitochondrial, movie, neuroscience, rat, slice, wave | MRC of Canada MT10520; NIDA DA02575; NIDA DA02121; NIMH MH40165; NIDDK DK42086; NIDDK DK44840; NINDS NS-33502; NIGMS 5T32GM07151-22; NICHD HD07009 |
PMID:9614233 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-25609 | SCR_008372 | GIF Animations | 2026-02-14 02:01:33 | 0 | |||||||
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HeadIT Resource Report Resource Website 1+ mentions |
HeadIT (RRID:SCR_005657) | HeadIT | data repository, storage service resource, data set, data or information resource, service resource | Platform for sharing, download, and re-analysis or meta-analysis of sophisticated, fully annotated, human electrophysiological data sets. It uses EEG Study Schema (ESS) files to provide task, data collection, and subject metadata, including Hierarchical Event Descriptor (HED) tag descriptions of all identified experimental events. Visospatial task data also available from, http://sccn.ucsd.edu/eeglab/data/headit.html: A 238-channel, single-subject EEG data set recorded at the Swartz Center, UCSD, by Arnaud Delorme, Julie Onton, and Scott Makeig is al. | electrophysiology, data sharing, eeg, visual-auditory cued attention shift paradigm, adult, early adult human, late adult human, memory task, modified sternberg working memory task, visual, auditory, auditory oddball, memory, task |
uses: HED Tags is related to: EEGLAB has parent organization: University of California at San Diego; California; USA |
Normal, Healthy, Others possible | NIMH R01-MH084819; NINDS R01-NS047293 |
Public, Must agree to Data Use Agreement and Terms of Use., Account required for collaboration and to upload data. | nlx_149081 | http://headit-beta.ucsd.edu/ http://sccn.ucsd.edu/eeglab/data/headit.html |
http://HeadIT.org | SCR_005657 | Human Electrophysiology Anatomic Data & Integrated Tools (HeadIT) Resource, Human Electrophysiology Anatomic Data & Integrated Tools Resource, Human Electrophysiology Anatomic Data & Integrated Tools, Human Electrophysiology Anatomic Data and Integrated Tools (HeadIT) Resource | 2026-02-14 02:01:08 | 5 | |||
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Federal Interagency Traumatic Brain Injury Research Informatics System Resource Report Resource Website 50+ mentions |
Federal Interagency Traumatic Brain Injury Research Informatics System (RRID:SCR_006856) | FITBIR | data repository, storage service resource, portal, data or information resource, service resource, narrative resource, topical portal, database, standard specification | Platform for Traumatic Brain Injury relevant data. System was developed to share data across entire TBI research field and to facilitate collaboration between laboratories and interconnectivity between informatics platforms. FITBIR implements interagency Common Data Elements for TBI research and provides tools and resources to extend data dictionary. Established submission strategy to ensure high quality and to provide maximum benefit to investigators. Qualified researchers can request access to data stored in FITBIR and/or data stored at federated repositories. | Traumatic, brain, injury, platform, common, data, element, medical, imaging, clinical, assessment, environment, behavior, brain, magnetic, resonance |
is recommended by: National Library of Medicine is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: NIH Data Sharing Repositories is related to: NIH Data Sharing Repositories has parent organization: Center for Information Technology |
Traumatic Brain Injury | NINDS ; U.S. Army Medical Research and Material Command ; Center for Information Technology |
Restricted | nlx_151755, r3d100012837 | https://doi.org/10.17616/R31NJMED | SCR_006856 | Federal Interagency Traumatic Brain Injury Research (FITBIR) Informatics System, FITBIR Informatics System | 2026-02-14 02:01:23 | 57 | ||||
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REGARDS - REasons for Geographic and Racial Differences in Stroke Resource Report Resource Website 100+ mentions |
REGARDS - REasons for Geographic and Racial Differences in Stroke (RRID:SCR_007228) | data or information resource, portal, topical portal | The REasons for Geographic and Racial Differences in Stroke (REGARDS) project, sponsored by the National Institutes of Health (NIH), is a national study focusing on learning more about the factors that increase a person''s risk of having a stroke. REGARDS is an observational study of risk factors for stroke in adults 45 years or older. 30,239 participants were recruited between January 2003 and October 2007. They completed a telephone interview followed by an in-home physical exam. Measurements included traditional risk factors such as blood pressure and cholesterol levels, and an echocardiogram of the heart. At six month intervals, participants are contacted by phone to ask about stroke symptoms, hospitalizations and general health status. The study is ongoing and will follow participants for many years. The purpose of the REGARDS project is to understand why people in some parts of the country develop more strokes than people in other parts of the country, and why blacks develop more strokes than whites. We hope to learn how to reduce the number of people having strokes. | has parent organization: National Institutes of Health | Department of Health and Human Services ; NINDS U01 NS041588 |
nif-0000-01878 | SCR_007228 | REGARDS, REasons for Geographic and Racial Differences in Stroke | 2026-02-14 02:01:23 | 119 | |||||||||
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Center for Inherited Disease Research Resource Report Resource Website 100+ mentions |
Center for Inherited Disease Research (RRID:SCR_007339) | CIDR | training service resource, analysis service resource, resource, material analysis service, production service resource, biomaterial analysis service, service resource, data computation service | Next generation sequencing and genotyping services provided to investigators working to discover genes that contribute to disease. On-site statistical geneticists provide insight into analysis issues as they relate to study design, data production and quality control. In addition, CIDR has a consulting agreement with the University of Washington Genetics Coordinating Center (GCC) to provide statistical and analytical support, most predominantly in the areas of GWAS data cleaning and methods development. Completed studies encompass over 175 phenotypes across 530 projects and 620,000 samples. The impact is evidenced by over 380 peer-reviewed papers published in 100 journals. Three pathways exist to access the CIDR genotyping facility: * NIH CIDR Program: The CIDR contract is funded by 14 NIH Institutes and provides genotyping and statistical genetic services to investigators approved for access through competitive peer review. An application is required for projects supported by the NIH CIDR Program. * The HTS Facility: The High Throughput Sequencing Facility, part of the Johns Hopkins Genetic Resources Core Facility, provides next generation sequencing services to internal JHU investigators and external scientists on a fee-for-service basis. * The JHU SNP Center: The SNP Center, part of the Johns Hopkins Genetic Resources Core Facility, provides genotyping to internal JHU investigators and external scientists on a fee-for-service basis. Data computation service is included to cover the statistical genetics services provided for investigators seeking to identify genes that contribute to human disease. Human Genotyping Services include SNP Genome Wide Association Studies, SNP Linkage Scans, Custom SNP Studies, Cancer Panel, MHC Panels, and Methylation Profiling. Mouse Genotyping Services include SNP Scans and Custom SNP Studies. | gene, genome, array, custom, dna, genome wide association study, genotyping, genotyping service, linkage scan, methylation profiling, hereditary disease, single gene disorder, snp, statistical genetics, whole genome, whole exome, exome sequencing, high throughput sequencing, single nucleotide polymorphism, sequencing, disease |
is listed by: NIDDK Information Network (dkNET) has parent organization: Johns Hopkins University; Maryland; USA |
Aging | NHGRI ; NCI ; NEI ; NIA ; NIAAA ; NIAMS ; NICHD ; NIDA ; NIDCD ; NIDCR ; NIDDK ; NIEHS ; NIMH ; NINDS ; NHGRI N01-HG-65403; US Department of Health and Human Services HHSN268200782096C; S Department of Health and Human Services HHSN268201100011I; S Department of Health and Human Services HHSN268201200008I; NHGRI U01HG004438; NHGRI U54HG006542 |
nif-0000-00223 | SCR_007339 | CIDR - Center for Inherited Disease Research | 2026-02-14 02:01:21 | 206 | ||||||
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NINDS/UCLA Repository for Parkinson's Disease Mouse Models Resource Report Resource Website |
NINDS/UCLA Repository for Parkinson's Disease Mouse Models (RRID:SCR_007319) | PDmice | biomaterial supply resource, organism supplier, material resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented on April 26, 2011. Information for depositors Investigators who are willing to share mice with the PD research community through this resource should send an email to PDMice_at_ninds.nih.gov describing the mouse. The submission will be reviewed by the PD Models Repository Oversight Committee and, if accepted, a copy of the MTA will be sent by return email. NINDS is most interested in distributing mice that have been characterized in a peer-reviewed publication, but other models will certainly be considered. The email should describe the following: The protocol for identification from tail DNA. The health report of the mice to be shipped (the report has to be less than 2 months old). Information about the strain and any special needs for care and breeding. Information about any publications involving the mice Certification that mice are not encumbered by continuing intellectual property or other rights to any research, data or discovery utilizing the animals. Information for consumers Investigators desiring to study the mice available through the repository should send a request via email to PDMice_at_ninds.nih.gov. Requests will be reviewed by the PD Models Repository Oversight Committee and priority will be determined on a first come, first served basis; two breeding pairs will typically be shipped to any single requester. As detailed in the MTA, mice are not available for commercial research, including but not limited to drug screening. Neither the creator nor UCLA have a role in the governance of the Repository, and specifically, cannot impose conditions upon availability or distribution. It is anticipated that until the Repository is in a mode of steady state production, requests will be collected and mice distributed as supply allows. The email requesting mice should include: A brief description of the protocol Either a copy of the IACUC approval letter or numberNINDS/UCLA Repository for Parkinson's Disease Mouse Models: One of the most immediate and important benefits of discoveries regarding the genetic or environmental causes of Parkinson's disease (PD) is the subsequent development of animal models wherein therapeutic and/or preventative interventions may be studied. The widespread availability of such models is critically important to making progress against a disorder that affects more than 500,000 Americans at any given time. The National Institute of Neurological Disorders and Stroke (NINDS) fully recognizes the burden placed on investigators by the financial and logistical realities of distributing high demand research resources. Some investigators have deposited their mice with national distribution facilities but many mouse models are not available through such resources. Developing means to facilitate greater sharing of mouse models of PD is one of the goals developed by the PD research community at the July 2002 summit meeting convened by the NIH Director. Accordingly, as part of the effort to accelerate PD research, NINDS and the University of California at Los Angeles (UCLA) created a resource that will distribute transgenic mouse models of human PD that are not yet available through national commercial resources. Investigators who are willing to share mice with the PD research community can simply arrange with NINDS to have the mice deposited at UCLA and investigators desiring to study the mice may arrange with NINDS to obtain two breeding pairs. The process will use Material Transfer Agreements created specifically for this arrangement. | fbv x 129/sv, fvb/n, 129s4 mix, 129s6/svev, -/-a53t/pac tg alpha, alpha synuclein knockout, bl6, dj-1 knockout, mt human alpha synuclein (a53t), parkin 129s4, synuclein, mouse model |
is listed by: One Mind Biospecimen Bank Listing has parent organization: University of California at Los Angeles; California; USA |
Parkinson's disease | NINDS | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00187 | SCR_007319 | 2026-02-14 02:01:24 | 0 | ||||||
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Brain Architecture Management System Resource Report Resource Website 1+ mentions |
Brain Architecture Management System (RRID:SCR_007251) | BAMS | ontology, data repository, storage service resource, data or information resource, service resource, controlled vocabulary, database | Knowledge management system designed to handle neurobiological information at different levels of organization of vertebrate nervous system. Database and repository for information about neural circuitry, storing and analyzing data concerned with nomenclature, taxonomy, axonal connections, and neuronal cell types. Handles data and metadata collated from original literature, or inserted by scientists that is associated to four levels of organization of vertebrate nervous system. Data about expressed molecules, neuron types and classes, brain regions, and networks of brain regions. | neurobiology, vertebrate, nervous, system, database, repository, neural, circuitry, analysis, data, nomenclature, taxonomy, axonal, connection, cell, |
is used by: NIF Data Federation is used by: Integrated Nervous System Connectivity is related to: Integrated Manually Extracted Annotation has parent organization: University of Southern California; Los Angeles; USA is parent organization of: BAMS Nested Regions is parent organization of: BAMS Connectivity is parent organization of: BAMS Cells is parent organization of: BAMS Neuroanatomical Ontology |
NIBIB ; Human Brain Project ; NIMH MH61223; NINDS NS16686; NINDS NS50792 |
Restricted | nif-0000-00018 | http://brancusi.usc.edu/bkms/ | SCR_007251 | Brain Architecture Management System, The Brain Architecture Management System | 2026-02-14 02:01:20 | 6 | |||||
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JAX Neuroscience Mutagenesis Facility Resource Report Resource Website 1+ mentions |
JAX Neuroscience Mutagenesis Facility (RRID:SCR_007437) | NMU | biomaterial supply resource, organism supplier, material resource | Produce new neurological mouse models that could serve as experimental models for the exploration of basic neurobiological mechanisms and diseases. The impetus for the program resulted from the recognition that: * The value of genomic data would remain limited unless more information about the functionality of its individual components became available. * The task of linking genes to specific behavior would best be accomplished by employing a combination of different approaches. In an effort to complement already existing programs, the Neuroscience Mutagenesis Facility decided to use: a random, genome-wide approach to mutagenesis, i.e.N-ethyl-N-nitrosourea (ENU) as the mutagen; a three-generation back-cross breeding scheme to focus on the detection of recessive mutations; behavioral screens selective for the detection of phenotypes deemed useful for the program goals. The resulting mutant mouse lines have been available to the scientific community for the last five years and over 700 NMF mice have been sent to interested investigators for research; these mutant mouse lines will remain available as frozen embryos (which can be re-derived on request) and can be ordered through the JAX customer service at 1-800-422-6423 (or 207-288-5845). The results of the work of the Neuroscience Mutagenesis Facility and that of two other neurogenesis centers, i.e. The Neurogenomics Project at Northwestern University, and the Neuromutagenesis Project of the Tennessee Mouse Genome Consortium, can also be seen at Neuromice.org, a common web site of these three research centers; in addition, information about all mutants produced by these groups has been recorded in MGI. | mouse model, mutant mouse line, mutant mouse, phenodeviant, phenodeviant mouse, heritability, phenotyping, genetic mapping |
is listed by: One Mind Biospecimen Bank Listing is related to: neuromice is related to: Mouse Genome Informatics (MGI) has parent organization: Jackson Laboratory is parent organization of: JAX Neuroscience Mutagenesis Facility Protocols is parent organization of: neuromice |
Neurobiological disease, Neurological disorder, Sensory disorder, Behavioral disorder, Aging | NIDA ; NIMH ; NINDS ; NEI ; NIA ; NIAAA ; NIDCD |
Public, Available to the scientific community | nif-0000-00784 | http://nmf.jax.org/ | SCR_007437 | JAX Neuromutagenesis Facility, JAX - Neuroscience Mutagenesis Facilty, Neuromutagenesis Facility, Neuroscience Mutagenesis Facility of the Jackson Laboratory | 2026-02-14 02:01:31 | 1 | ||||
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VISTA Enhancer Browser Resource Report Resource Website 100+ mentions |
VISTA Enhancer Browser (RRID:SCR_007973) | VISTA Enhancer Browser | data repository, storage service resource, data or information resource, service resource, database | Resource for experimentally validated human and mouse noncoding fragments with gene enhancer activity as assessed in transgenic mice. Most of these noncoding elements were selected for testing based on their extreme conservation in other vertebrates or epigenomic evidence (ChIP-Seq) of putative enhancer marks. Central public database of experimentally validated human and mouse noncoding fragments with gene enhancer activity as assessed in transgenic mice. Users can retrieve elements near single genes of interest, search for enhancers that target reporter gene expression to particular tissue, or download entire collections of enhancers with defined tissue specificity or conservation depth. | human, noncoding fragment, mutant mouse strain, molecular neuroanatomy resource, image, telencephalon, development, genome, enhancer, dna fragment, embryo, embryonic mouse, brain, neural tube, eye, ear, heart, tail, limb, nose, cranial nerve, trigeminal, dorsal root ganglia, face, branchial arch, gene expression, annotation, vector, transgenic embryo, lacz reporter vector, lacz, biomaterial supply resource, in vivo, image collection, transcriptional enhancer, chip-seq, bio.tools, FASEB list |
is listed by: Debian is listed by: bio.tools is related to: NIF Data Federation is related to: One Mind Biospecimen Bank Listing is related to: OMICtools has parent organization: Lawrence Berkeley National Laboratory |
American Heart Association ; NIDCR ; NHLBI HL066681; NHGRI HG003988; DOE contract DE-AC02-05CH11231; NINDS NS062859; DOE DE020060 |
PMID:17130149 | Free, Freely available | nif-0000-03637, OMICS_01568, biotools:vista_enhancer_browser | https://bio.tools/vista_enhancer_browser | SCR_007973 | 2026-02-14 02:01:36 | 233 | |||||
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NINDS Common Data Elements Resource Report Resource Website 10+ mentions |
NINDS Common Data Elements (RRID:SCR_006577) | NINDS CDEs | data or information resource, narrative resource, database, standard specification | The purpose of the NINDS Common Data Elements (CDEs) Project is to standardize the collection of investigational data in order to facilitate comparison of results across studies and more effectively aggregate information into significant metadata results. The goal of the National Institute of Neurological Disorders and Stroke (NINDS) CDE Project specifically is to develop data standards for clinical research within the neurological community. Central to this Project is the creation of common definitions and data sets so that information (data) is consistently captured and recorded across studies. To harmonize data collected from clinical studies, the NINDS Office of Clinical Research is spearheading the effort to develop CDEs in neuroscience. This Web site outlines these data standards and provides accompanying tools to help investigators and research teams collect and record standardized clinical data. The Institute still encourages creativity and uniqueness by allowing investigators to independently identify and add their own critical variables. The CDEs have been identified through review of the documentation of numerous studies funded by NINDS, review of the literature and regulatory requirements, and review of other Institute''s common data efforts. Other data standards such as those of the Clinical Data Interchange Standards Consortium (CDISC), the Clinical Data Acquisition Standards Harmonization (CDASH) Initiative, ClinicalTrials.gov, the NINDS Genetics Repository, and the NIH Roadmap efforts have also been followed to ensure that the NINDS CDEs are comprehensive and as compatible as possible with those standards. CDEs now available: * General (CDEs that cross diseases) Updated Feb. 2011! * Congenital Muscular Dystrophy * Epilepsy (Updated Sept 2011) * Friedreich''s Ataxia * Parkinson''s Disease * Spinal Cord Injury * Stroke * Traumatic Brain Injury CDEs in development: * Amyotrophic Lateral Sclerosis (Public review Sept 15 through Nov 15) * Frontotemporal Dementia * Headache * Huntington''s Disease * Multiple Sclerosis * Neuromuscular Diseases ** Adult and pediatric working groups are being finalized and these groups will focus on: Duchenne Muscular Dystrophy, Facioscapulohumeral Muscular Dystrophy, Myasthenia Gravis, Myotonic Dystrophy, and Spinal Muscular Atrophy The following tools are available through this portal: * CDE Catalog - includes the universe of all CDEs. Users are able to search the full universe to isolate a subset of the CDEs (e.g., all stroke-specific CDEs, all pediatric epilepsy CDEs, etc.) and download details about those CDEs. * CRF Library - (a.k.a., Library of Case Report Form Modules and Guidelines) contains all the CRF Modules that have been created through the NINDS CDE Project as well as various guideline documents. Users are able to search the library to find CRF Modules and Guidelines of interest. * Form Builder - enables users to start the process of assembling a CRF or form by allowing them to choose the CDEs they would like to include on the form. This tool is intended to assist data managers and database developers to create data dictionaries for their study forms. | common data element, neuroscience, clinical, human, adult, pediatric, disease, disorder, data standard | has parent organization: National Institute of Neurological Disorders and Stroke | NINDS contract N01-NS-7-2372 | PMID:20583225 | nif-0000-10000 | SCR_006577 | National Institute of Neurological Disorders and Stroke CDEs, NINDS NINDS Common Data Elements: Harmonizing information. Streamlining research. | 2026-02-14 02:01:20 | 27 | ||||||
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Ligand Expo Resource Report Resource Website |
Ligand Expo (RRID:SCR_006636) | data or information resource, database, resource | An integrated data resource for finding chemical and structural information about small molecules bound to proteins and nucleic acids within the structure entries of the Protein Data Bank. Tools are provided to search the PDB dictionary for chemical components, to identify structure entries containing particular small molecules, and to download the 3D structures of the small molecule components in the PDB entry. A sketch tool is also provided for building new chemical definitions from reported PDB chemical components. | element, fingerprint, formula, amino acid, aromatic ring, atom, bound, carbon, chemical, component, depot, ligand, molecular, molecule, nitrogen, nucleic acid, nucleotide, pharmaceutical, protein, small molecule, structure, macromolecule, model |
uses: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) uses: Worldwide Protein Data Bank (wwPDB) has parent organization: Rutgers University; New Jersey; USA has parent organization: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) |
NSF ; NIGMS ; DOE ; NLM ; NCI ; NCRR ; NIBIB ; NINDS ; NIDDK |
PMID:15059838 | nif-0000-21237, OMICS_02751 | http://ligand-depot.rutgers.edu/ | SCR_006636 | Ligand Depot | 2026-02-14 02:01:13 | 0 | ||||||
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Parkinson’s Disease Biomarkers Program Data Management Resource (PDBP DMR) Resource Report Resource Website 10+ mentions |
Parkinson’s Disease Biomarkers Program Data Management Resource (PDBP DMR) (RRID:SCR_002517) | PDBP | material storage repository, biospecimen repository, storage service resource, service resource | Common data management resource and web portal to promote discovery of Parkinson's Disease diagnostic and progression biomarker candidates for early detection and measurement of disease progression. PDBP will serve as multi-faceted platform for integrating existing biomarker efforts, standardizing data collection and management across these efforts, accelerating discovery of new biomarkers, and fostering and expanding collaborative opportunities for all stakeholders. | parkinson's, clinical neuroinformatics, magnetic resonance, diagnostic, progression, biomarker, clinical |
is recommended by: National Library of Medicine is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: NINDS Repository is related to: MIPAV: Medical Image Processing and Visualization has parent organization: National Institute of Neurological Disorders and Stroke |
Parkinson's disease | nlm ; NINDS |
PMID:25976927 | Restricted | nlx_155919 | http://www.nitrc.org/projects/pdbp | http://pdbp.ninds.nih.gov/index.jsp | SCR_002517 | Parkinson's Disease Biomarkers Program, PDBP: Parkinsons Disease Biomarkers Program, Parkinson’s Disease Biomarkers Program Data Management Resource, PDBP DMR | 2026-02-14 02:00:17 | 24 | ||
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La Jolla Interdisciplinary Neurosciences Center Resource Report Resource Website |
La Jolla Interdisciplinary Neurosciences Center (RRID:SCR_002772) | La Jolla Neuroscience Center Cores | analysis service resource, material analysis service, biomaterial analysis service, production service resource, service resource, material service resource, access service resource | Our NINDS Center Core Grant supports centralized resources and facilities shared by investigators with existing NINDS-funded research projects. Our Center is composed of three research cores, each of which will enrich the effectiveness of ongoing research, and promote new research directions. The three Core facilities support Electrophysiology, Neuropathology / Histology, and High-Throughput/High-Content Chemical and Genomic Library screening. By making these important Core Services available to the local Neuroscience community, the La Jolla Neurosciences Program hopes to promote the study of how the nervous system works and develop treatments for nervous system diseases. The cores and their services are available to La Jolla neuroscientists. Core services are available to NINDS-supported neuroscience projects from local investigators as well as young neuroscientists prior to obtaining their first NIH-funded grant. * Electrophysiology: SBMRI Electrophysiology ** The Electrophysiology Core consists of the Sanford-Burnham Electrophysiology Facility. This facility can perform patch-clamp intracellular and extracellular field recordings on a range of material including cultured cells and brain slices. The Sanford-Burnham facility emphasizes electrophysiological analysis of cultured cells and the detailed electrical properties of channels, receptors and recombinant proteins expressed in Xenopus oocytes or mammalian cells. * Neuropathology: UCSD Neuropathology ** The Neuropathology laboratory applies immunocytochemistry, neurochemistry, molecular genetics, transgenic models of disease, and imaging by scanning laser confocal microscopy to analysis of neurological disease in animal models. * Chemical Library Screening: SBIMR Assay Development, SBIMR Chemical Library Screening, SBIMR Cheminformatics, SBIMR High-content Screening ** The Chemical Library Screening core offers high-throughput screening (HTS) of biochemical and cell-based array using traditional HTS readouts and automated microscopy for high-content screening (HCS)> These facilities also offer array development and screening, as well as cheminformatics and medicinal chemistry., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 15,2026. | neuroscience, nervous system, electrophysiology, neuropathology, histology, high-throughput screening, high-content screening, chemical, genomic, chemical library screening, cheminformatics, medicinal chemistry |
has parent organization: University of California at San Diego; California; USA has parent organization: Sanford Burnham Prebys Medical Discovery Institute |
Nervous system disease | NINDS ; NIH Blueprint for Neuroscience Research |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-00436 | SCR_002772 | La Jolla Interdisciplinary Neuroscience Center Core (Burnham-Salk-Scripps-UCSD) | 2026-02-14 02:00:26 | 0 | |||||
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GenePaint Resource Report Resource Website 100+ mentions |
GenePaint (RRID:SCR_003015) | GenePaint.org | reference atlas, expression atlas, data or information resource, atlas, database | 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 | 2026-02-14 02:00:28 | 161 |
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