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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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WebArrayDB Resource Report Resource Website 1+ mentions |
WebArrayDB (RRID:SCR_005577) | WebArrayDB | analysis service resource, data analysis service, data or information resource, data repository, database, production service resource, service resource, software resource, storage service resource | An open source integrated microarray database and analysis suite that features convenient uploading of data for storage in a MIAME (Minimal Information about a Microarray Experiment) compliant fashion. It allows data to be mined with a large variety of R-based tools, including data analysis across multiple platforms. Different methods for probe alignment, normalization and statistical analysis are included to account for systematic bias. Student's t-test, moderated t-tests, non-parametric tests and analysis of variance or covariance (ANOVA/ANCOVA) are among the choices of algorithms for differential analysis of data. Users also have the flexibility to define new factors and create new analysis models to fit complex experimental designs. All data can be queried or browsed through a web browser. The computations can be performed in parallel on symmetric multiprocessing (SMP) systems or Linux clusters. | is listed by: OMICtools | Prostate Cancer Foundation ; Mary Kay Ash Foundation ; NIH ; NIAI R01AI034829; NIAI R01AI052237; NCI R01CA68822; NCI U01CA114810 |
PMID:19602526 | Open source, Account required, The software package is available for the use on a public web server or can be downloaded | OMICS_00782 | SCR_005577 | 2026-09-02 05:39:42 | 8 | |||||||
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NYU Bioinformatics Group Resource Report Resource Website 1+ mentions |
NYU Bioinformatics Group (RRID:SCR_005697) | NYU Bioinformatics Lab | data or information resource, laboratory portal, organization portal, portal | NYU Bioinformatics group applies algorithmic, statistical, and mathematical techniques to solve problems of interest to biology, biotechnology and biomedicine. The group focuses on bioinformatics, computational biology and systems biology with many active projects in areas ranging from single molecules to entire populations: Analysis of Single-Molecule/Single-Cell Data, SPM-based Transcriptomic Profiling, Whole-Genome Haplotype Sequencing using SMASH (Single Molecule Approaches to Haplotype Sequencing), SUTTA (Scoring and Unfolding Trimmed Tree Assembler) assembly algorithm, Analysis of Spatio-Temporal Data, Model Checking and Model Building for Systems Biology, GOALIE-based Phenomenological Models and their Verification, Causality Analysis, Causal Models and their Verification, Analysis of EHR (Electronic Health Record Data) and Disease Models (e.g., Chronic Fatigue Syndrome, Congestive Heart Failure, Deep Vein Thrombosis, etc.), Models of Cancer, Applications to Pancreatic Cancer, Polymorphisms and Biomarkers, Strategies for Group Testing, Epidemiological and Bio-Warfare Models, Planning with Large Agent Networks against Catastrophes (PLAN C), Population Genomics, and Genome Wide Association Studies (GWAS). The group has received its funding from Air Force, Army, CCPR, DARPA, NIH, NIST, NSF, NYSTAR, etc. and various other governmental and commercial entities. Currently, the group is part of an NSF funded Expedition in Computing project (CMACS: Center for Modeling and Analysis of Complex Systems at CMU) and collaborates widely, both nationally and internationally. The group is highly multi-disciplinary, attracting researchers and students from mathematics, statistics, computer science, and biology who team up with physicians, physicists, and chemists as well as professionals in their own disciplines. This group is led by Prof. Bud Mishra, a professor of computer science and mathematics at NYU''s Courant Institute of Mathematical Sciences. |
has parent organization: New York University; New York; USA is parent organization of: GOALIE |
U.S. Air Force ; U.S. Army ; CCPR ; DARPA ; NIH ; NIST ; NSF ; NYSTAR |
nlx_149146 | http://bioinformatics.nyu.edu/wordpress/ | SCR_005697 | NYU Bioinformatics Lab - Courant Institute of Mathematical Sciences | 2026-09-02 05:39:43 | 1 | |||||||
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Childrens Hospital Oakland Research Institute Resource Report Resource Website 10+ mentions |
Childrens Hospital Oakland Research Institute (RRID:SCR_005582) | CHORI | data or information resource, organization portal, portal, training resource | CHORI is the internationally renowned biomedical research institute of Children''s Hospital and Research Center at Oakland. With world-class scientists and research centers known both nationally and internationally in multiple fields, CHORI is 5th in the nation for National Institutes of Health pediatric research funding. Bridging basic science and clinical research in the treatment and prevention of human disease, CHORI is a leader in translational research, providing cures for blood diseases, developing new vaccines for infectious diseases, and discovering new treatment protocols for previously fatal or debilitating conditions. Striving to provide the highest standard of excellence and innovation, CHORI brings together a multidisciplinary collaborative of distinguished investigators in six different Centers of Research: The Center for Cancer Research, The Center for Genetics, The Center for Immunobiology & Vaccine Development, The Center for Nutrition & Metabolism, The Center for Prevention of Obesity, Cardiovascular Disease & Diabetes, and The Center for Sickle Cell Disease & Thalassemia. Within these major areas of focus, CHORI pushes the frontiers of science and of excellence beyond their borders. Among the leading biotech enterprises in the Bay Area, CHORI produced 25 patents in the last 5 years alone. In addition to providing world-class research, CHORI is also a teaching institute, offering unique educational opportunities to high school, college, doctoral and post-doctoral students. | pediatric, research, young human, cancer, genetics, immunobiology, vaccine, nutrition, metabolism, obesity, cardiovascular disease, diabetes, sickle cell disease, thalassemia |
is parent organization of: BacPac Resources Center is parent organization of: Knockout Mouse Project Repository |
NIH | nlx_146206 | SCR_005582 | Children''s Hospital Oakland Research Institute, Children''s Hospital Oakland Research Institute (CHORI) | 2026-09-02 05:39:44 | 13 | |||||||
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NA-MIC Kit Resource Report Resource Website |
NA-MIC Kit (RRID:SCR_005616) | NA-MIC Kit | software resource | A free open source software platform consisting of the 3D Slicer application software, a number of tools and toolkits such as VTK and ITK, and a software engineering methodology that enables multiplatform implementations. It also draws on other best practices from the community to support automatic testing for quality assurance. The NA-MIC kit uses a modular approach, where the individual components can be used by themselves or together. The NA-MIC kit is fully-compatible with local installation (behind institutional firewalls) and installation as an internet service. Significant effort has been invested to ensure compatibility with standard file formats and interoperability with a large number of external applications. Users of the NAMIC Kit will typically use a combination of its many modular components. * 3D Slicer is a general purpose application. Biomedical researchers will typically use this software tool to load, view, analyze, process and save image data. Slicer has been implemented to interoperate with many other tools, including XNAT, which is an open source image database. * Slicer modules, which are dynamically loaded by Slicer at run-time, can be used to extend Slicer''''s core functionality including defining graphical user interfaces. Modules are typically used by algorithms and application developers. * Application and algorithms developers may also use NA-MIC Kit toolkits and libraries. For example, the Insight Segmentation and Registration Toolkit ITK can be used to develop slicer modules for medical image analysis. The Visualization Toolkit can be used to process, visualize and graphically interact with data. KWWidgets is a 2D graphical user interface toolset that can be used to build applications. Teem is a library of general purpose command-line tools that are useful for processing data. Finally, those individuals wishing to create and manage complex software, the NAMIC-Kit software process is available as embodied in CMake, CTest, CPack, DART and the various documentation, bug tracking and communication tools. | platform, image analysis, visualization, segmentation, registration |
is related to: 3D Slicer is related to: Insight Segmentation and Registration Toolkit is related to: XNAT - The Extensible Neuroimaging Archive Toolkit has parent organization: National Alliance for Medical Image Computing |
NIH | BSD-style license | nlx_146255 | SCR_005616 | NA-MIC-Kit | 2026-09-02 05:39:42 | 0 | ||||||
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Caenorhabditis Genetics Center Resource Report Resource Website 1000+ mentions |
Caenorhabditis Genetics Center (RRID:SCR_007341) | CGC | biomaterial supply resource, cell repository, material resource, organism supplier | Center that acquires, maintains, and distributes genetic stocks and information about stocks of the small free-living nematode Caenorhabditis elegans for use by investigators initiating or continuing research on this genetic model organism. A searchable strain database, general information about C. elegans, and links to key Web sites of use to scientists, including WormBase, WormAtlas, and WormBook are available. | non-human animal, caenorhabditis elegans, chromosome, database, model, mutant, nematode, nomenclature, model organism, protein, transgenic, web accessible database, genetic stock, germplasm, genotype, FASEB list |
is used by: NIF Data Federation is listed by: One Mind Biospecimen Bank Listing is related to: C. elegans Gene Knockout Consortium is related to: Expression Patterns for C. elegans promoter GFP fusions has parent organization: University of Minnesota Twin Cities; Minnesota; USA |
NIH OD010440 | nif-0000-00240 | https://orip.nih.gov/comparative-medicine/programs/invertebrate-models, http://www.cbs.umn.edu/research/resources/cgc | http://biosci.umn.edu/CGC/, http://www.cgc.cbs.umn.edu | SCR_007341 | 2026-09-02 05:40:13 | 3907 | ||||||
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GEISHA - Gallus Expression in Situ Hybridization Analysis: A Chicken Embryo Gene Expression Database Resource Report Resource Website 1+ mentions |
GEISHA - Gallus Expression in Situ Hybridization Analysis: A Chicken Embryo Gene Expression Database (RRID:SCR_007440) | GEISHA | atlas, data or information resource, data repository, database, experimental protocol, narrative resource, service resource, storage service resource | Online repository for chicken in situ hybridization information. This site presents whole mount in situ hybridization images and corresponding probe and genomic information for genes expressed in chicken embryos in Hamburger Hamilton stages 1-25 (0.5-5 days). The GEISHA project began in 1998 to investigate using high throughput whole mount in situ hybridization to identify novel, differentially expressed genes in chicken embryos. An initial expression screen of approximately 900 genes demonstrated feasibility of the approach, and also highlighted the need for a centralized repository of in situ hybridization expression data. Objectives: The goals of the GEISHA project are to obtain whole mount in situ hybridization expression information for all differentially expressed genes in the chicken embryo between HH stages 1-25, to integrate expression data with the chicken genome browsers, and to offer this information through a user-friendly graphical user interface. In situ hybridization images are obtained from three sources: 1. In house high throughput in situ hybridization screening: cDNAs obtained from several embryonic cDNA libraries or from EST repositories are screened for expression using high throughput in situ hybridization approaches. 2. Literature curation: Agreements with journals permit posting of published in situ hybridization images and related information on the GEISHA site. 3. Unpublished in situ hybridization information from other laboratories: laboratories generally publish only a small fraction of their in situ hybridization data. High quality images for which probe identity can be verified are welcome additions to GEISHA. | expression data, expression pattern, gene, gene expression, genome, chicken, chicken embryo, genomic, in situ hybridization, mapping, microarray, microrna, model organism, oligo, probe, stage, image, molecular neuroanatomy resource, embryo, embryonic chicken | has parent organization: University of Arizona; Arizona; USA | NIH ; NICHD R01HD044767 |
nif-0000-01251, r3d100012509 | https://doi.org/10.17616/R3RB6B | SCR_007440 | Gallus Expression in Situ Hybridization Analysis, GEISHA - Gallus Expression in Situ Hybridization Analysis | 2026-09-02 05:40:15 | 2 | ||||||
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Gene3D Resource Report Resource Website 100+ mentions |
Gene3D (RRID:SCR_007672) | Gene3D | data access protocol, data or information resource, data repository, database, service resource, software resource, storage service resource, web service | A large database of CATH protein domain assignments for ENSEMBL genomes and Uniprot sequences. Gene3D is a resource of form studying proteins and the component domains. Gene3D takes CATH domains from Protein Databank (PDB) structures and assigns them to the millions of protein sequences with no PDB structures using Hidden Markov models. Assigning a CATH superfamily to a region of a protein sequence gives information on the gross 3D structure of that region of the protein. CATH superfamilies have a limited set of functions and so the domain assignment provides some functional insights. Furthermore most proteins have several different domains in a specific order, so looking for proteins with a similar domain organization provides further functional insights. Strict confidence cut-offs are used to ensure the reliability of the domain assignments. Gene3D imports functional information from sources such as UNIPROT, and KEGG. They also import experimental datasets on request to help researchers integrate there data with the corpus of the literature. The website allows users to view descriptions for both single proteins and genes and large protein sets, such as superfamilies or genomes. Subsets can then be selected for detailed investigation or associated functions and interactions can be used to expand explorations to new proteins. The Gene3D web services provide programmatic access to the CATH-Gene3D annotation resources and in-house software tools. These services include Gene3DScan for identifying structural domains within protein sequences, access to pre-calculated annotations for the major sequence databases, and linked functional annotation from UniProt, GO and KEGG., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | protein domain, protein, protein superfamily, hidden markov model, structural domain, genome, sequence, domain assignments, protein structure, bio.tools, FASEB list |
is listed by: bio.tools is listed by: Debian has parent organization: University College London; London; United Kingdom |
NIH ; Wellcome Trust ; European Union FP6 ENFIN LSHG-CT-2003-503265; European Union FP6 ENFIN LSHG-CT-2004-512092; European Union FP6 ENFIN LSHG-CT-2005-518254; DOE DE-AC02-065CH11357 |
PMID:19906693 PMID:18032434 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-02877, biotools:gene3d | https://bio.tools/gene3d | SCR_007672 | Gene3D - Structures assigned to Genomes | 2026-09-02 05:40:14 | 272 | ||||
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NeuroWiki Resource Report Resource Website |
NeuroWiki (RRID:SCR_004066) | NeuroWiki | curriculum material, data or information resource, narrative resource, software resource, source code, training material |
Curriculum materials for an Introduction to Neurobiology course for undergraduate and graduate students. The course focuses on the analysis of neurons and neural circuits for behavior using the fundamental principles of neuroscience. From the online course syllabus, the 24 units that make up the course may be directly accessed. Each unit contains a reading, links to at least one simulation, and a problem set. A list of all available simulations can be found here: https://neurowiki.case.edu/wiki/Simulations. * 25 simulations are written in JavaScript and will run in any browser. Source code: https://github.com/CWRUChielLab/JSNeuroSim * Pre-compiled executables (Windows, Mac, Linux) are available for 1 desktop simulation, the Nernst Potential Simulator. Source code: https://github.com/CWRUChielLab/Nernst Structure of the Course * Solving problems based on simulations of neuronal components, neurons, and simple circuits to understand how they work. * For advanced students, writing a neuroscience Wikipedia article, critical review, or grant, in stages. |
simulation, neuron, neural circuit, neurobiology, neuroscience | has parent organization: Case Western Reserve University; Ohio; USA | Case Western Reserve University; Ohio; USA ; Active Learning Fellowship ; NIH ; Graduate Assistance in Areas of National Need |
Text:, Creative Commons Attribution-NonCommercial-ShareAlike License, 4.0 International, Nernst Potential Simulator:, GNU General Public License, v3, JavaScript simulations:, GNU Affero General Public License, v3 | nlx_158502 | SCR_004066 | 2026-09-02 05:39:25 | 0 | |||||||
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PubMed Central Resource Report Resource Website 100+ mentions |
PubMed Central (RRID:SCR_004166) | PMC | data or information resource, database, service resource, storage service resource | Collection of full text archive of biomedical and life sciences journal literature at U.S. National Institutes of Health National Library of Medicine (NIH/NLM). With PubMed Central, NCBI is taking lead in preserving and maintaining open access to electronic literature. Value of PubMed Central, in addition to its role as an archive, lies in what can be done when data from diverse sources is stored in common format in single repository. All articles in PMC are free (sometimes on a delayed basis). Some journals go beyond free, to Open Access. | literature, biomedical, life, science, journal, repository, electronic, literature, gold standard |
uses: PubReader is used by: NIH Heal Project is listed by: OMICtools is related to: PubMed is related to: JISC Open Citations is related to: Biotea is related to: NIF Registry Automated Crawl Data is related to: NIF Literature is related to: Europe PubMed Central is related to: PubReader has parent organization: NCBI |
NIH | Free, Some open access - authors retain copyright, | nlx_18862, OMICS_01193 | SCR_004166 | 2026-09-02 05:39:24 | 253 | |||||||
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PDBe - Protein Data Bank in Europe Resource Report Resource Website 50+ mentions |
PDBe - Protein Data Bank in Europe (RRID:SCR_004312) | PDBe | data or information resource, data repository, database, service resource, storage service resource | The European resource for the collection, organization and dissemination of data on biological macromolecular structures. In collaboration with the other worldwide Protein Data Bank (wwPDB) partners - the Research Collaboratory for Structural Bioinformatics (RCSB) and BioMagResBank (BMRB) in the USA and the Protein Data Bank of Japan (PDBj) - they work to collate, maintain and provide access to the global repository of macromolecular structure data. The main objectives of the work at PDBe are: * to provide an integrated resource of high-quality macromolecular structures and related data and make it available to the biomedical community via intuitive user interfaces. * to maintain in-house expertise in all the major structure-determination techniques (X-ray, NMR and EM) in order to stay abreast of technical and methodological developments in these fields, and to work with the community on issues of mutual interest (such as data representation, harvesting, formats and standards, or validation of structural data). * to provide high-quality deposition and annotation facilities for structural data as one of the wwPDB deposition sites. Several sophisticated tools are also available for the structural analysis of macromolecules. | x-ray, nmr, cryo-em, hybrid method, dna, protein, rna, sugar, ligand, virus, compound, fold, enzyme, 3d spatial image, structure, macromolecule, protein-protein interaction, gold standard, bio.tools |
is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: re3data.org is listed by: bio.tools is listed by: Debian is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is related to: DNA DataBank of Japan (DDBJ) is related to: EMDataResource.org is related to: Worldwide Protein Data Bank (wwPDB) is related to: Biological Magnetic Resonance Data Bank (BMRB) is related to: DNA DataBank of Japan (DDBJ) is related to: Worldwide Protein Data Bank (wwPDB) is related to: PDBj - Protein Data Bank Japan is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) has parent organization: European Bioinformatics Institute is parent organization of: Electron Microscopy Data Bank at PDBe (MSD-EBI) works with: MOLEonline |
European Molecular Biology Laboratory; Heidelberg; Germany ; Wellcome Trust ; BBSRC ; NIH ; European Union ; MRC ; CCP4 |
PMID:21045060 PMID:21460450 PMID:19858099 |
r3d100012791, biotools:pdbe, nlx_32372 | https://bio.tools/pdbe, https://doi.org/10.17616/R3J226 | SCR_004312 | Protein DataBank Europe, Protein DataBank in Europe, PDBe, Protein Data Bank in Europe, Protein Data Bank Europe, Macromolecular Structure Database | 2026-09-02 05:39:26 | 55 | |||||
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NIH Division of Nutrition Research Coordination Resource Report Resource Website |
NIH Division of Nutrition Research Coordination (RRID:SCR_001469) | DNRC | data or information resource, portal, topical portal, training resource | Coordinates nutritional sciences-related research and research training across the National Institutes of Health (NIH) and among Federal Agencies by providing mechanisms to communicate research, research training, policy, and education initiatives. The DNRC facilitates the exchange of information, coordinates workshops and seminars on critical issues, encourages national and international research collaborations, and serves as the NIH primary point of contact for the Department of Health and Human Services (DHHS) and other agencies, departments, and organizations in matters pertaining to nutritional sciences and physical activity. Through its dedicated efforts to promote scientific policy reviews, innovative research, interagency collaboration, and technical advancements, the DNRC strives to define the increasing roles of nutritional sciences and physical activity in health promotion and disease prevention and treatment. | nutrition, adult human, child, nutritional sciences, physical activity, health promotion, disease prevention, treatment |
is listed by: NIDDK Information Network (dkNET) has parent organization: National Institutes of Health is parent organization of: Human Nutrition Research Information Management |
NIH | Free, Freely Available | nlx_152699 | http://dnrc.nih.gov/ | SCR_001469 | Division of Nutrition Research Coordination | 2026-09-02 05:38:42 | 0 | |||||
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PathCase Pathways Database System Resource Report Resource Website |
PathCase Pathways Database System (RRID:SCR_001835) | analysis service resource, data analysis service, data analysis software, data or information resource, data processing software, data storage software, data visualization software, database, production service resource, service resource, software application, software resource | An integrated software system for storing, managing, analyzing, and querying biological pathways at different levels of genetic, molecular, biochemical and organismal detail. The system contains a pathways database and associated tools to store, compare, query, and visualize metabolic pathways. The aim is to develop an integrated database and the associated tools to support computational analysis and visualization of biochemical pathways. At the computational level, PathCase allows users to visualize pathways in multiple abstraction levels, and to pose predetermined and ad hoc queries using a graphical user interface. Pathways are represented as graphs, and implemented as a relational database. The available functional annotations include the identity of the substrate(s), product(s), cofactors, activators, inhibitors, enzymes or other processing molecules, GO-categories of enzymes (as well as GO hierarchy visualizations two-way-linked to PathCase enzymes), EC number information and the associated links, and synonyms and encoding genes of gene products. | pathway analysis software, pathway analysis, pathway, metabolic, systems function, behavior, visualize pathway, web interface, integrated | NSF DBI 0218061; NSF DBI 0743705; NSF DBI 0849956; NSF CRI 0551603; NIH GM088823 |
PMID:18728044 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-20885, SCR_002104, nif-0000-10398 | http://nashua.cwru.edu/pathways/ | SCR_001835 | PathCase - Metabolic Pathway Database System, PathCase | 2026-09-02 05:38:42 | 0 | ||||||
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Scripps Research Institute Resource Report Resource Website 1+ mentions |
Scripps Research Institute (RRID:SCR_001907) | TSRI | institution | Nonprofit American medical research facility that focuses on research and education in the biomedical sciences. Headquartered in San Diego, California with a sister facility in Jupiter, Florida, the institute has laboratories employing scientists, technicians, graduate students, and administrative and other staff, making it the largest private, non-profit biomedical research organization in the United States and among the largest in the world. | institution, American, medical, research, education, biomedical, private, organization |
uses: DIRECT2experts is related to: Clinical and Translational Science Awards Consortium is related to: The Pancreatic Beta-Cell Consortium is parent organization of: piCALL is parent organization of: GeneChip Operating Software is parent organization of: TSRI-Yates Lab is parent organization of: BioGPS: The Gene Portal Hub is parent organization of: METLIN is parent organization of: AutoDock Vina is parent organization of: ViReMa is parent organization of: Autopack is parent organization of: Integrative Neuroscience Initiative on Alcoholism is parent organization of: Joint Center for Structural Genomics is parent organization of: Functional Glycomics Research is parent organization of: VIPERdb is parent organization of: GOEx - Gene Ontology Explorer is parent organization of: VIPERdb is parent organization of: Zinc Finger Tools is parent organization of: XCMS is parent organization of: Chemoproteomic identification and therapeutic validation of proteins of metabolic significance is parent organization of: Leginon is parent organization of: outbreak.info is parent organization of: Scripps Research Institute Florida Cell Based High Throughput Screening Core Facility |
NIH | THIS RESOURCE IS NO LONGER IN SERVICE | grid.214007.0, ISNI: 122199231, Wikidata: Q793867, nif-0000-10475 | https://ror.org/02dxx6824 | SCR_001907 | The Scripps Research Institute, Scripps Research | 2026-09-02 05:38:50 | 1 | |||||
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NIH VideoCasting Resource Report Resource Website 1+ mentions |
NIH VideoCasting (RRID:SCR_001885) | VideoCast | data or information resource, narrative resource, podcast, video resource | VideoCasting of special NIH events, seminars, conferences, meetings and lectures available to viewers on the NIH network and the Internet from the VideoCast web site. VideoCasting is the method of electronically streaming digitally encoded video and audio data from a server to a client. VideoCast is often referred to as streaming video. Streaming files are not downloaded, but rather are broadcast in a manner similar to television broadcasts. The videos are processed by a compression program into a streaming format and delivered in a staggered fashion to minimize impact upon the network and maximize the experience of the content for the viewer. When users request a streaming file they will receive an initial burst of data after a short delay (file latency). While content is being viewed, the streaming server machine and software continues to stream data in such a manner that the viewer experiences no break in the content. CIT can broadcast your seminar, conference or meeting live to a world-wide audience over the Internet as a real-time streaming video. The event can be recorded and made available for viewers to watch at their convenience as an on-demand video or a downloadable podcast. CIT can also broadcast NIH-only or HHS-only content. | event, seminar, conference, meeting, lecture, multimedia |
is used by: NIF Data Federation is used by: Integrated Videos has parent organization: National Institutes of Health |
NIH | Public, The community can contribute to this resource | nif-0000-10454 | SCR_001885 | NIH VideoCasts, NIH VideoCasting and Podcasting, NIH VideoCasting Podcasting, NIH VideoCast, NIH Videos | 2026-09-02 05:38:49 | 2 | ||||||
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PROVEAN Resource Report Resource Website 1000+ mentions |
PROVEAN (RRID:SCR_002182) | PROVEAN | analysis service resource, data analysis service, production service resource, service resource, software resource | A software tool which predicts whether an amino acid substitution or indel has an impact on the biological function of a protein. | amino acid substitution, indel, function, protein, amino acid, substitution, protein variant, genome variant, next-generation sequencing, insertion, deletion |
is listed by: OMICtools has parent organization: J. Craig Venter Institute |
NIH ; NHGRI 5R01HG004701-04 |
PMID:23056405 | Free, Available for download, Freely available | OMICS_01849 | SCR_002182 | Protein Variation Effect Analyzer | 2026-09-02 05:38:53 | 2380 | |||||
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Visible Mouse Project Resource Report Resource Website 1+ mentions |
Visible Mouse Project (RRID:SCR_002393) | Visible Mouse Project | data or information resource, image collection, narrative resource, training material, video resource | Educational resource to introduce users to the anatomy, physiology, histology, and pathology of the laboratory mouse, with an emphasis on the Genetically Engineered Mouse (GEM). It provides access to histological images, scanned at high resolution and browsable through Zoomify, movie loops and animations derived from MRI, correlated MRI and histology. It has CNS data but is focused on the whole body, e.g., physiological data is available for the heart in the form of wave patterns, histology, CNS, pathology, magnetic resonance imaging, neoplasms; animation, virtual histology, mouse, correlated imaging, necropsy, whole mouse. It may be useful to neuroscientists by relating brain anatomy to the rest of the body. There is a movie illustrating necropsy of the mouse. A link to a compendium of histological slices of brain neoplasms is provided under the Image Archive link. There is a CNS link under construction for anatomical system, which presumably will include detailed CT imaging. This site still appears to be under construction. | necropsy, histology, pathology, physiology, pathology, knock out mouse, mri, heart, wave pattern, central nervous system, neoplasm, animation, virtual histology, anatomy, anatomic system, imaging |
has parent organization: University of California at Davis; California; USA is parent organization of: Visible Mouse Anatomy |
NIH ; MMRRC |
For educational non-profit use, Permission is required to link to any material on the site | nif-0000-00119 | SCR_002393 | The Visible Mouse Project | 2026-09-02 05:38:58 | 2 | ||||||
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ClinicalTrials.gov Resource Report Resource Website 10000+ mentions |
ClinicalTrials.gov (RRID:SCR_002309) | ClinicalTrials.gov | catalog, clinical trial, data or information resource, data repository, database, service resource, storage service resource | Registry and results database of federally and privately supported clinical trials conducted in United States and around world. Provides information about purpose of trial, who may participate, locations, and phone numbers for more details. This information should be used in conjunction with advice from health care professionals.Offers information for locating federally and privately supported clinical trials for wide range of diseases and conditions. Research study in human volunteers to answer specific health questions. Interventional trials determine whether experimental treatments or new ways of using known therapies are safe and effective under controlled environments. Observational trials address health issues in large groups of people or populations in natural settings. ClinicalTrials.gov contains trials sponsored by National Institutes of Health, other federal agencies, and private industry. Studies listed in database are conducted in all 50 States and in 178 countries. | clinical trial, intervention, treatment, therapy, observation, drug, adverse event, result, outcome, data set, FASEB list |
is used by: NIF Data Federation is used by: Patients to Trials Consortium is used by: Corengi is used by: Biomarkers of Anti-TNF Treatment Efficacy in Rheumatoid Arthritis - Unresponsive Populations is used by: Limited Access Datasets From NIMH Clinical Trials is used by: Integrated Clinical Trials is used by: Integrated Datasets is used by: NIDDK Information Network (dkNET) is recommended by: National Library of Medicine is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases lists: Epidemiology of Diabetes Interventions and Complications lists: Behavior Enhances Drug Reduction of Incontinence lists: Diabetes Prevention Program lists: Diabetes Prevention Program Outcomes Study lists: Folic Acid for Vascular Outcome Reduction in Transplantation lists: Family Investigation of Nephropathy of Diabetes lists: Frequent Hemodialysis Network Daily Trial lists: HALT PKD lists: HEALTHY study lists: RiVuR lists: Study of Nutrition in Acute Pancreatitis lists: TINSAL-T2D lists: Treatment Options for type 2 Diabetes in Adolescents and Youth lists: TOMUS lists: TRIGR lists: CATIE - Alzheimers Disease lists: CATIE - Clinical Antipsychotic Trials in Intervention Effectiveness lists: Gastroparesis Clinical Research Consortium lists: Diabetes Control and Complications Trial lists: Efficacy and Mechanisms of Glutamine Dipeptide in the Surgical Intensive Care Unit lists: Evaluating Predictors and Interventions in Sphincter of Oddi Dysfunction lists: Frequent Hemodialysis Network Nocturnal Trial lists: Minimally Invasive Surgical Therapies Treatment Consortium for Benign Prostatic Hyperplasia lists: Focal Segmental Glomerulosclerosis in Children and Young Adults Interventional Study lists: Complementary and Alternative Medicine for Urological Symptoms lists: Program to Reduce Incontinence by Diet and Exercise lists: TEDDY lists: Diabetes Prevention Type 1 lists: HALT-C Trial lists: Viral Resistance to Antiviral Therapy of Chronic Hepatitis C lists: Medical Therapy of Prostatic Symptoms is listed by: OMICtools is related to: NIMH Clinical Trials is related to: cthist is related to: Clinical Trials Viewer has parent organization: National Library of Medicine is parent organization of: LinkedCT is parent organization of: Functional Dyspepsia Treatment Trial is parent organization of: High-dose Ursodiol Therapy of Primary Sclerosing Cholangitis is parent organization of: Peginterferon and Ribavirin for Pediatric Patients with Chronic Hepatitis C is parent organization of: Maryland Genetics of Interstitial Cystitis is parent organization of: Treatment of SSRI-resistant Depression in Adolescents (TORDIA) is parent organization of: Systematic Treatment Enhancement Program for Bipolar Disorder (STEP-BD) is parent organization of: TADS - Treatment for Adolescents with Depression Study is parent organization of: Biomarkers of Anti-TNF Treatment Efficacy in Rheumatoid Arthritis - Unresponsive Populations is parent organization of: Renin Angiotensin System Study |
NIH ; NLM |
PMID:27631620 | Free, Freely available | OMICS_01792, r3d100010211, nif-0000-21091 | https://doi.org/10.17616/R3H887 | SCR_002309 | Clinical Trials Database, ClinicalTrials.gov, Clinicaltrials.gov: A Service Of The National Institutes Of Health, ClinicalTrials, Clinical Trials gov | 2026-09-02 05:38:49 | 54250 | ||||
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Group ICA Of EEG Toolbox Resource Report Resource Website 1+ mentions |
Group ICA Of EEG Toolbox (RRID:SCR_002478) | EEGIFT | data analysis software, data processing software, software application, software resource, software toolkit | Implements multiple algorithms for independent component analysis and blind source separation of group (and single subject) EEG data. This MATLAB toolbox is compatible with MATLAB 6.5 and higher. | matlab, eeg, independent component analysis, magnetic resonance, algorithm |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Group ICA of fMRI Toolbox has parent organization: MIALAB - Medical Image Analysis Lab |
NIH ; NIBIB 1R01EB000840 |
PMID:21747835 | Available for download | nlx_155861 | http://www.nitrc.org/projects/gift | SCR_002478 | Group ICA Of EEG Toolbox (EEGIFT) | 2026-09-02 05:38:58 | 5 | ||||
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Centre for Modeling Human Disease Gene Trap Resource Resource Report Resource Website 1+ mentions |
Centre for Modeling Human Disease Gene Trap Resource (RRID:SCR_002785) | CMHD Gene Trap Resource | biomaterial manufacture, material service resource, production service resource, service resource | Generate gene trap insertions using mutagenic polyA trap vectors, followed by sequence tagging to develop a library of mutagenized ES cells freely available to the scientific community. This library is searchable by sequence or key word searches including gene name or symbol, chromosome location, or Gene Ontology (GO) terms. In addition,they offer a custom email alert service in which researchers are able to submit search criteria. Researchers will receive automated e-mail notification of matching gene trap clones as they are entered into the library and database. The resource features the use of complementary second and third generation polyA trap vectors developed by the Stanford lab and the laboratory of Professor Yasumasa Ishida of the Nara Institute of Science and Technology (NAIST) in Japan to mutagenize murine embryonic stem (ES) cells. CMHD gene trap clones are distributed by the Canadian Mouse Mutant Repository(CMMR). Information about ordering, services, and pricing can be found on their web site (http://www.cmmr.ca/services/index.html)., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on January 15,2026. | embryonic stem cell, polya trap vector, gene trap, insertion, mutagenic polya trap vector, sequence, expression, mutagenesis, gene, mutation, expression profile, phenotype, database, gene expression, vector insertion, expressed sequence tag, blast, clone |
is related to: Gene Ontology is related to: CMMR - Canadian Mouse Mutant Repository is related to: International Gene Trap Consortium has parent organization: CMHD - Centre for Modeling Human Disease |
Canadian Institutes of Health Research ; Genome Canada ; Genome Prairie ; NIH |
PMID:14681480 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-02891 | http://www.cmhd.ca/sub/genetrap.asp | SCR_002785 | Centre for Modeling Human Disease (CMHD) Gene Trap Resource | 2026-09-02 05:39:05 | 3 | ||||
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Simtk.org Resource Report Resource Website 10+ mentions |
Simtk.org (RRID:SCR_002680) | SimTK | simulation software, software application, software repository, software resource | A National NIH Center for Biomedical Computing that focuses on physics-based simulation of biological structures and provides open access to high quality simulation tools, accurate models and the people behind them. It serves as a repository for models that are published (as well as the associated code) to create a living archive of simulation scholarship. Simtk.org is organized into projects. A project represents a research endeavor, a software package or a collection of documents and publications. Includes sharing of image files, media, references to publications and manuscripts, as well as executables and applications for download and source code. Simulation tools are free to download and space is available for developers to manage, share and disseminate code. | model, modeling, rna folding, protein folding, myosin dynamics, neuromuscular biomechanics, cardiovascular dynamics, biomolecular simulation, biomedical computing, repository, cardiovascular, neuromuscular, myosin, rna, simulation, biocomputation |
is used by: NIF Data Federation lists: Adaptively Sampled Particle Fluids lists: OpenMM lists: CPODES numerical integrator is listed by: Biositemaps is listed by: Integrated Models is listed by: DataCite is listed by: re3data.org is related to: OpenSim is related to: Simbody(tm): SimTK Multibody Dynamics Toolset is related to: SimVascular is related to: SAFA Footprinting Software is related to: Ion Simulator Interface is related to: LAPACK linear algebra library is related to: Neuromuscular Models Library has parent organization: Simbios is parent organization of: FEATURE is parent organization of: Cardiovascular Model Repository is parent organization of: ConTrack is parent organization of: Allopathfinder is parent organization of: Molecular Simulation Trajectories Archive of a Villin Variant is parent organization of: LAPACK linear algebra library is parent organization of: SimTKCore |
NIH ; NIGMS U54 GM072970 |
Free, Available for download, Freely available | nif-0000-23302, DOI:10.17616/R3QJ4B, DOI:10.18735 | https://doi.org/10.17616/R3QJ4B, https://doi.org/10.17616/r3qj4b, https://doi.org/10.18735/, https://dx.doi.org/10.18735/ | SCR_002680 | Simulation Toolkit, SimTK - the Simulation Toolkit | 2026-09-02 05:39:03 | 20 |
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