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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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neXtProt Resource Report Resource Website 100+ mentions |
neXtProt (RRID:SCR_008911) | database, portal, data or information resource, topical portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 15,2025. Human protein knowledge platform. Knowledge platform for human proteins selects and filters high throughput data pertinent to human proteins from UniProtKB. Extends UniProtKB/Swiss-Prot annotations for human proteins to include several new data types. | Protein, proteomics, sirna, 3d, pathway, variant, protein-protein interaction, protein-drug interaction, bio.tools, FASEB list |
is listed by: Debian is listed by: bio.tools is related to: UniProtKB has parent organization: SIB Swiss Institute of Bioinformatics |
Swiss Commission for Technology and Innovation ; SIB |
PMID:22139911 | THIS RESOURCE IS NO LONGER IN SERVICE | biotools:nextprot, nlx_151482 | https://bio.tools/nextprot | SCR_008911 | 2026-08-09 09:05:04 | 177 | ||||||
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CERMINE Resource Report Resource Website 1+ mentions |
CERMINE (RRID:SCR_008993) | CERMINE | service resource, software library, text extraction software, software application, data analysis service, software toolkit, analysis service resource, software resource, production service resource | Java library and a web service for extracting metadata and content from scientific articles in born-digital form. The system analyses the entire content of a PDF file containing a publication and attempts to extract information such as: the title of the article, journal information (title, etc.), bibliographic information (volume, issue, page numbers, etc.), authors and affiliations, keywords, abstract, bibliographic references and structured sections hierarchy. | java library, java, metadata extraction, page segmentation, content classification, bibliographic reference parsing, parse, extraction system, pdf |
is used by: Paperity is listed by: FORCE11 has parent organization: University of Warsaw; Warsaw; Poland |
National Centre for Research and Development Poland SP/I/1/77065/10 | GNU Affero General Public License, v3 | nlx_152512 | SCR_008993 | CERMINE - Content ExtRactor and MINEr, Content ExtRactor and MINEr | 2026-08-09 09:05:06 | 5 | ||||||
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Logical Observation Identifier Names and Codes Resource Report Resource Website 1+ mentions |
Logical Observation Identifier Names and Codes (RRID:SCR_010341) | LOINC | data or information resource, controlled vocabulary, ontology | Ontology of logical observation identifier names and codes (LOINC); Version 2.26; January 2, 2009 | umls | is listed by: BioPortal | nlx_157460 | SCR_010341 | 2026-08-09 09:05:20 | 1 | |||||||||
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BioLayout Express 3D Resource Report Resource Website 100+ mentions |
BioLayout Express 3D (RRID:SCR_007179) | data analysis software, data processing software, software application, data visualization software, software resource | BioLayout Express3D is a powerful new tool for the visualization and analysis of networks derived from biological systems. Network-based approaches are becoming increasing popular for the analysis of ''omics and other high dimensional data. Networks can be produced from a wide variety of biological relationships, such as interactions between individuals, disease transmission, sequence similarity, metabolic pathways, protein interactions, pathways, regulatory cascades, gene expression, etc. BioLayout Express3D has been specifically designed for visualization, clustering and analysis of large network graphs in two- and three-dimensional space derived primarily, but not exclusively, from biological data. Sponsors: This resource is supported by BBSRC (BB / F003722 / 1) and the Wellcome Trust (GR077040RP). Keywords: Biology, Tool, Software, visualization, Analysis, Network, Biological, System, Dimentional, Data, Disease, Transmission, Sequence, Metabolic, Pathway, Protein, Interaction, Gene, Expression, Clustering, Analysis, |
has parent organization: University of Edinburgh; Scotland; United Kingdom has parent organization: European Bioinformatics Institute |
nif-0000-30182 | SCR_007179 | BioLayout Express | 2026-08-09 09:04:36 | 125 | ||||||||||
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Unified Medical Language System Resource Report Resource Website 10+ mentions |
Unified Medical Language System (RRID:SCR_006363) | UMLS | database, data or information resource, narrative resource, web service, international standard specification, software resource, standard specification, data access protocol | Database of key terminology, classification and coding standards, and associated resources to promote creation of more effective and interoperable biomedical information systems and services, including electronic health records. This set of files and software brings together many health and biomedical vocabularies and standards to enable interoperability between computer systems. Users can use the UMLS to enhance or develop applications, such as electronic health records, classification tools, dictionaries and language translators. The UMLS has three tools, which we call the Knowledge Sources: * Metathesaurus: Terms and codes from many vocabularies, including CPT, ICD-10-CM, LOINC, MeSH, RxNorm, and SNOMED CT * Semantic Network: Broad categories (semantic types) and their relationships (semantic relations) * SPECIALIST Lexicon and Lexical Tools: Natural language processing tools We use the Semantic Network and Lexical Tools to produce the Metathesaurus. Metathesaurus production involves: * Processing the terms and codes using the Lexical Tools * Grouping synonymous terms into concepts * Categorizing concepts by semantic types from the Semantic Network * Incorporating relationships and attributes provided by vocabularies * Releasing the data in a common format Although we integrate these tools for Metathesaurus production, you can access them separately or in any combination according to your needs. The UMLS Terminology Services (UTS) provides three ways to access the UMLS: Web Browsers, Local Installation, and Web Services APIs. | interoperability, electronic health record, classification tool, dictionary, language translator, classification, terminology, semantic, metathesaurus, vocabulary, thesaurus, natural language processing |
is used by: DisGeNET is related to: MeSH is related to: ConceptWiki has parent organization: National Library of Medicine |
NLM | License required and only issued to individuals, Not to groups or organizations - no charge for licensing the UMLS from NLM. | nlx_152104 | SCR_006363 | Unified Medical Language System (UMLS) | 2026-08-09 09:04:26 | 47 | ||||||
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NeuroNEXT Resource Report Resource Website 1+ mentions |
NeuroNEXT (RRID:SCR_006760) | NeuroNEXT | knowledge environment, data or information resource, topical portal, portal, disease-related portal, research forum portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 26,2022. A unique clinical trial network open to studies of more than 400 neurological diseases, allowing investigators to more efficiently pursue new therapies based on scientific opportunity. The network has a centralized IRB serving 25 sites, which will allow trials to move faster, without the need to coordinate IRBs at each individual site. It is not necessary to be part of the NeuroNEXT infrastructure to propose and conduct a study within the network. The Network for Excellence in Neuroscience Clinical Trials, or NeuroNEXT, was created to conduct studies of treatments for neurological diseases through partnerships with academia, private foundations, and industry. The network is designed to expand the National Institute of Neurological Disorders and Stroke''s (NINDS) capability to test promising new therapies, increase the efficiency of clinical trials before embarking on larger studies, and respond quickly as new opportunities arise to test promising treatments for people with neurological disorders. The NeuroNEXT program aims to: * Provide a robust, standardized, and accessible infrastructure to facilitate rapid development and implementation of protocols in neurological disorders affecting adult and/or pediatric populations. The network includes multiple Clinical Sites, one Clinical Coordinating Center (CCC) and one Data Coordinating Center (DCC). * Support scientifically sound, possibly biomarker-informed, Phase II clinical trials that provide data for clear go/no-go decisions. * Energize and mobilize federal, industry, foundations and patient advocacy partners by leveraging existing relationships between NINDS and NeuroNEXT to organize high impact Phase II clinical trials for neurological disorders. * Expand the pool of experienced clinical investigators and research staff who are prepared to be leaders of multicenter clinical research trials. * Working with NeuroNEXT is a cooperative venture between NINDS, the NeuroNEXT network and the applicant. | clinical trial, adult, pediatric, child, network |
has parent organization: University of Iowa; Iowa; USA has parent organization: National Institute of Neurological Disorders and Stroke |
Neurological disorder | NINDS | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_151750 | SCR_006760 | NeuroNEXT - Network for Excellence in Neuroscience Clinical Trials | 2026-08-09 09:04:35 | 8 | |||||
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Chem Service, Inc. Resource Report Resource Website 10+ mentions |
Chem Service, Inc. (RRID:SCR_008380) | material service resource, service resource, instrument manufacture, production service resource | Chem Service, Inc. offers the convenience, cost savings and reliability of 1,000 Certified Standards Grade Organic Chemicals at your fingertips with our Organic Mini Stockroom Kit. Whether your lab is big or small, disposal fees are a concern. The Organic Mini-stockroom offers you the ability to have 1000 different chemicals at quantities ranging from 100mg to 10gm; thus, reducing disposal costs. Over 95% of their neat Standards Grade materials have a purity of 98.0% or greater, and have been analyzed by three or more (where feasible) independent methods of analysis. These do not require purity corrections when preparing a solution for use with EPA methods. Their more than 13,000 organic and inorganic standards, and solutions, support EPA Methods, ASTM Methods, State UST Methods, Air monitoring Methods, and International Methods. They offer explosive residue standards, PCB congeners, petroleum hydrocarbon standards for the petrochemical industry, pesticide standards, FAME, and vitamin standards for food analysis. Suited for identification of unknowns, product screening, optimal chemical selection and small scale chemical reactions, the O-1000A Organic Ministockroom Kit was designed for laboratories with broad chemical classification and indentification needs. Chem Service, Inc. is registered by ABS Quality Evaluations, Inc., to the internationally recognized requirements of ISO 9001 for design, development, production, distribution and servicing of organic neat and synthetic reference materials. | food, analysis, chemical, industry, method, organic, pestiide, petrochemical, solution, synthetic, vitamin | nif-0000-30016 | SCR_008380 | ChemService | 2026-08-09 09:04:55 | 10 | ||||||||||
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Institute for Laboratory Animal Research Resource Report Resource Website 50+ mentions |
Institute for Laboratory Animal Research (RRID:SCR_006872) | data or information resource, standard specification, narrative resource | The mission of ILAR is to evaluate and disseminate information on issues related to the scientific, technological, and ethical use of animals and related biological resources in research, testing, and education. Using the principles of refinement, reduction, and replacement (3Rs) as a foundation, ILAR promotes high-quality science through the humane care and use of animals and the implementation of alternatives. Through the reports of expert committees, the ILAR Journal, web-based resources, and other means of communication, ILAR functions as a component of the National Academies to provide independent, objective advice to the federal government, the international biomedical research community, and the public. ILAR supports the responsible use of animals in research, testing, and education as a key component to advancing the health and quality of life of humans and animals. It promotes high-quality science and humane care and use of research animals based upon the principles of refinement, replacement, and reduction (the 3Rs) and high ethical standards. It fosters best practices that enhance human and animal welfare by organizing and disseminating information and by facilitating dialogue among interested parties. It has developed a unique Search Engine to search for animal models and strains. This search engine surveys all the websites of vendors and repositories of laboratory animals and biological material on our Links page. The ILAR develops guidelines on laboratory animal care and use and conducts conferences, symposia, and workshops on important laboratory animal problems. ILAR publishes the ILAR Journal on a quarterly basis, as well as conference proceedings and special reports prepared by committees of experts. A list of ILAR publications on issues related to laboratory animal research is available on the Web site. As part of the Animal Models and Genetic Stocks Information Exchange Program, ILAR staff members answer direct telephone and mail inquiries and maintain a Web page containing a database on animal models and genetic stock. The Web site also offers a comprehensive search engine that enables users to find information on the existence and location of special animal models, correct nomenclature to identify animals, and related topics such as diseases of animals and relevant publications. Sponsors: ILAR receives funding from the following sponsors: -Abbott Laboratories -Abbott Fund -American College of Laboratory Animal Medicine (ACLAM) -American Society of Laboratory Animal Practitioners (ASLAP) -Association for Assessment and Accreditation of Laboratory Animal Care (AAALAC) -Bristol-Myers Squibb Co. -Charles River -Charles River Laboratories Foundation -Covance -Federation of American Societies for Experimental Biology (FASEB) -GlaxoSmithKline -Merck & Co., Inc. -National Science Foundation (NSF) -Pfizer -Scientists Center for Animal Welfare (SCAW) -U.S. Department of Agriculture (USDA) -U.S. Department of the Army -U.S. Department of Health and Human Services (DHHS) :*National Institutes of Health (NIH) :*Office of Research Integrity (ORI) -U.S. Department of the Navy -U.S. Department of Veterans Affairs -Wellcome Trust -Wyeth Pharmaceuticals | education, ethical, animal, biological, biomedical, health, human, laboratory, life, quality, research, scientific, technological, test | nif-0000-24355 | SCR_006872 | ILAR | 2026-08-09 09:04:37 | 55 | ||||||||||
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SBO Resource Report Resource Website 1+ mentions |
SBO (RRID:SCR_006753) | SBO | database, data or information resource, controlled vocabulary, ontology | A set of controlled, relational vocabularies of terms commonly used in Systems Biology, and in particular in computational modeling. The ontology consists of seven orthogonal vocabularies defining: the roles of reaction participants (eg. substrate), quantitative parameters (eg. Michaelis constant), a precise classification of mathematical expressions that describe the system (eg. mass action rate law), the modeling framework used (eg. logical framework), and a branch each to describe entity (eg. macromolecule) and interaction (eg. process) types, and a branch to define the different types of metadata that may be present within a model. SBO terms can be used to introduce a layer of semantic information into the standard description of a model, or to annotate the results of biochemical experiments in order to facilitate their efficient reuse. SBO is an Open Biomedical Ontologies (OBO) candidate ontology, and is free for use. A programmatic access to the content of the Systems Biology Ontology is provided by Web Services. | systems biology, computational modeling, web service, obo, gold standard |
is listed by: BioPortal is related to: BioModels.net is related to: OBO has parent organization: European Bioinformatics Institute |
NIGMS | PMID:17118155 | Free, The community can contribute to this resource | nlx_66206 | SCR_006753 | Systems Biology Ontology | 2026-08-09 09:04:28 | 4 | |||||
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Bioinformatic Harvester IV (beta) at Karlsruhe Institute of Technology Resource Report Resource Website 1000+ mentions |
Bioinformatic Harvester IV (beta) at Karlsruhe Institute of Technology (RRID:SCR_008017) | database, data or information resource, data processing software, software application, data acquisition software, software resource | Harvester is a Web-based tool that bulk-collects bioinformatic data on human proteins from various databases and prediction servers. It is a meta search engine for gene and protein information. It searches 16 major databases and prediction servers and combines the results on pregenerated HTML pages. In this way Harvester can provide comprehensive gene-protein information from different servers in a convenient and fast manner. As full text meta search engine, similar to Google trade mark, Harvester allows screening of the whole genome proteome for current protein functions and predictions in a few seconds. With Harvester it is now possible to compare and check the quality of different database entries and prediction algorithms on a single page. Sponsors: This work has been supported by the BMBF with grants 01GR0101 and 01KW0013. | function, gene, bioinformatics, data, database, human, meta search engine, prediction, protein, bio.tools, FASEB list |
is listed by: bio.tools is listed by: Debian has parent organization: Karlsruhe Institute of Technology; Karlsruhe; Germany |
biotools:harvester, nif-0000-10169 | https://bio.tools/harvester | SCR_008017 | Harvester IV | 2026-08-09 09:04:49 | 1480 | ||||||||
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Systematic Treatment Enhancement Program for Bipolar Disorder (STEP-BD) Resource Report Resource Website 1+ mentions |
Systematic Treatment Enhancement Program for Bipolar Disorder (STEP-BD) (RRID:SCR_008844) | STEP-BD | data or information resource, topical portal, portal, disease-related portal, clinical trial, research forum portal | A long-term outpatient study designed to find out which treatments, or combinations of treatments, are most effective for treating episodes of depression and mania and for preventing recurrent episodes in people with bipolar disorder. This study has been completed. (2005) STEP-BD is evaluating all the best-practice treatment options used for bipolar disorder: mood-stabilizing medications, antidepressants, atypical antipsychotics, and psychosocial interventions - or talk therapies - including Cognitive Behavioral Therapy, Family-focused Therapy, Interpersonal and Social Rhythm Therapy, and Collaborative Care (psychoeducation). There are two kinds of treatment pathways in STEP-BD, and participants may have the opportunity to take part in both. The medications and psychosocial interventions provided in these pathways are considered among the best choices of treatment for bipolar disorder in everyday clinical practice. In the Best Practice Pathway, participants are followed by a STEP-BD certified doctor and all treatment choices are individualized. Everyone enrolled in STEP-BD may participate in this pathway. Participants and their doctors work together to decide on the best treatment plans and to change these plans if needed. Also, anyone who wishes to stay on his or her current treatment upon entering STEP-BD may do so in this pathway. Adolescents and adults age 15 years and older may participate in the Best Practice Pathway. For adults age 18 and older, another way to participate is in the STEP-BD Randomized Care Pathways. Depending on their symptoms, participants may be offered treatment in one or more of these pathways during the course of the study. The participants remain on mood-stabilizing medication. However, because doctors are uncertain which of several treatment strategies work best for bipolar disorder, another medication and/or talk therapy may be added. Each Randomized Care Pathway involves a different set of these additional treatments. Unlike in the Best Practice Pathway, the participants in the Randomized Care Pathways are randomly assigned to treatments. Also, in some cases, neither the participant nor the doctor will be told which of the different medications is being added. This is called a double-blind study and is done so that the medication effects can be evaluated objectively, without any unintended bias that may come from knowing what has been assigned. Participants will not be assigned medications that they have had bad reactions to in the past, that they are strongly opposed to, or that the doctor feels are unsuitable for them. The medication(s) participants may be randomly assigned to in the Randomized Care Pathways are free of charge. There are other treatment options for participants if they do not respond well to the treatment assigned to them. Also, participants may return to the Best Practice Pathway at any time. About 1,500 individuals will be enrolled in at least one Randomized Care Pathway during their period of participation in STEP-BD. It is important to note that STEP-BD provides continuity of care. For example, if a participant starts out in the Best Practice Pathway and later chooses to enter one of the Randomized Care Pathways, he or she continues with the same STEP-BD doctor and treatment team. Then, after completing the Randomized Care Pathway, the participant may return to the Best Practice Pathway for ongoing, individually-tailored treatment. Follow the link to view study info at Clinicaltrials.gov, http://www.clinicaltrials.gov/ct/show/NCT00012558?order=1 | treatment, depression, mania, bipolar disorder, depressive disorder, clinical trial, psychosocial therapy, lithium, drug, valproate, bupropion, paroxetine, lamotrigine, risperidone, inositol, tranylcypromine, behavioral therapy, cognitive behavioral therapy, family-focused therapy, interpersonal and social rhythms therapy, adolescent, adult human, outpatient, best-practice, antidepressant, atypical antipsychotic, psychosocial intervention, medication |
is used by: Limited Access Datasets From NIMH Clinical Trials is related to: NIMH Repository and Genomics Resources has parent organization: ClinicalTrials.gov |
Mania, Bipolar Disorder, Depressive Disorder | NIMH | nlx_146235 | http://www.nimh.nih.gov/health/trials/practical/step-bd/index.shtml | SCR_008844 | Systematic Treatment Enhancement Program for Bipolar Disorder | 2026-08-09 09:05:03 | 5 | |||||
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VisTrails Resource Report Resource Website 10+ mentions |
VisTrails (RRID:SCR_006261) | VisTrails | data processing software, software application, software resource, workflow software | Open-source scientific workflow and provenance management system that provides support for simulations, data exploration and visualization. It was designed to manage these rapidly-evolving workflows. VisTrails has a comprehensive provenance infrastructure that maintains detailed history information about the steps followed and data derived in the course of an exploratory task: VisTrails maintains provenance of data products, of the workflows that derive these products and their executions. This information is persisted as XML files or in a relational database, and it allows users to navigate workflow versions in an intuitive way, to undo changes but not lose any results, to visually compare different workflows and their results, and to examine the actions that led to a result. It also enables a series operations and user interfaces that simplify workflow design and use, including the ability to create and refine workflows by analogy and to query workflows by example. VisTrails supports the creation and execution of workflows. It allows the combination of loosely-coupled resources, specialized libraries, grid and Web services. The released version comes with support for several packages including, VTK, Image Magick, Web Services, and pylab. You can also download packages contributed by users, as well as create your own packages/modules. Workflows can be run interactively, through the VisTrails GUI, or in batch using a VisTrails server. VisTrails is written in Python and it uses the multi-platform Qt library for its user interface. It runs on Mac, Linux and Windows. Provenance-rich results derived by VisTrails can be included in LaTeX, Wiki, Microsoft Word and PowerPoint documents. | workflow, provenance, simulation, data exploration, visualization, data analysis, management system, python, mac, linux, windows |
is listed by: FORCE11 is related to: crowdLabs has parent organization: University of Utah; Utah; USA |
DOE ; IBM ; NSF IIS-0905385; NSF IIS-0844572; NSF IIS CAREER-0746500; NSF CNS-0751152; NSF IIS-0513692; NSF CCF-0401498; NSF CNS-0541560; NSF OISE-0405402; NSF OCE-0424602; NSF CNS-0524096; NSF IIS-0534628 |
Open unspecified license | nif-0000-06694 | SCR_006261 | Vis Trails | 2026-08-09 09:04:19 | 20 | ||||||
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Core Genotyping Facility Resource Report Resource Website 10+ mentions |
Core Genotyping Facility (RRID:SCR_008438) | organization portal, portal, data or information resource, laboratory portal | With remarkable advances in genomic technologies, the National Cancer Institute established the Core Genotyping Facility (CGF) to investigate the contribution of germline genetic variation to cancer susceptibility and outcomes. Working in concert with epidemiologists, biostatisticians and basic research scientists in the intramural research program, the CGF has developed the capacity to conduct genome-wide association studies and candidate gene approaches to identify the heritable determinants of various forms of cancer. In order to ensure the accuracy and timely completion of all CGF provided operations, the following Information Systems were developed. While the investigator does not have direct access to these systems, their availability to CGF staff members greatly aids in their querying and reporting capabilities. In turn this provides benefit to the investigator by providing the most up to date reporting possible. The Core Genotyping Facility (CGF) offers a wide variety of sample preparation and genotyping operations. All samples received must meet minimum requirements and are taken through the Sample Handling pipeline prior to completing any genotyping. The Sample Handling pipeline includes DNA quantification and genetic fingerprinting. Also offered are Whole Genome Amplification (WGA) assays, to get the most yield out of low quantity DNA samples. Theirr genotyping products cover a wide-range of assay sizes. The CGF operates the Illumina BeadLab system which supports Illumina assay technologies including the whole genome genotyping Infinium assays, custom GoldenGate OPA assays, and Custom Infinium (iSelect) assays. In addition, the CGF offers Affymetrix GeneChip arrays and uniplex TaqMan genotyping. Sponsors: CGF is supported by the SAIC-Frederick. :Keywords: Genomic, Technology, Cancer, Genotyping, Germline, Genetic, Epidemiologist, Biostatistician, Research, Gene, Assay, Genotype, Pipeline, Genome, DNA, : | has parent organization: National Cancer Institute | nif-0000-30251 | SCR_008438 | CGF | 2026-08-09 09:04:51 | 10 | ||||||||||
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DARC - Database for Aligned Ribosomal Complexes Resource Report Resource Website 10+ mentions |
DARC - Database for Aligned Ribosomal Complexes (RRID:SCR_006932) | DARC | database, data or information resource, service resource, model, data analysis service, analysis service resource, production service resource | A database for aligned ribosomal complexes that provides a resource for directly comparing the structures. A collection of files deposited in the RCSB protein data bank and the Electron Microscopy Data Bank have been aligned so as to make direct comparison of the structures possible. An easy-to-use, searchable interface allows users to access and download >130 cryo-EM maps and >300 atomic models in the format of brix and pdb files, respectively. The aligned coordinate system substantially simplifies direct visualization of conformational changes in the ribosome, such as subunit rotation and head-swiveling, as well as direct comparison of bound ligands, such as antibiotics or translation factors. | ribosomal complex, cryo-electron microscopy, ribosomal particle, atomic model, ribosome, x-ray crystallography, structure, bio.tools |
uses: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) uses: Electron Microscopy Data Bank at PDBe (MSD-EBI) is listed by: Debian is listed by: bio.tools has parent organization: Ludwig-Maximilians-University; Munich; Germany |
DFG SFB594; DFG SFB646; DFG WI3285/1-1 |
PMID:22009674 | biotools:darc_site, nlx_149452 | https://bio.tools/darc_site | SCR_006932 | The DARC site, Database for Aligned Ribosomal Complexes, Database for Aligned Ribosomal Complexes (DARC), DARC site | 2026-08-09 09:04:34 | 27 | |||||
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PhysioNet Resource Report Resource Website 500+ mentions |
PhysioNet (RRID:SCR_007345) | PhysioNet | database, data or information resource, service resource, storage service resource, data repository, data analysis service, analysis service resource, production service resource | Collection of dissemination and exchange recorded biomedical signals and open-source software for analyzing them. Provides facilities for cooperative analysis of data and evaluation of proposed new algorithm. Providies free electronic access to PhysioBank data and PhysioToolkit software. Offers service and training via on-line tutorials to assist users at entry and more advanced levels. In cooperation with annual Computing in Cardiology conference, PhysioNet hosts series of challenges, in which researchers and students address unsolved problems of clinical or basic scientific interest using data and software provided by PhysioNet. All data included in PhysioBank, and all software included in PhysioToolkit, are carefully reviewed. Researchers are further invited to contribute data and software for review and possible inclusion in PhysioBank and PhysioToolkit. Please review guidelines before submitting material. | physiologic, physiology, signal, software, research, biomedical, cardiopulmonary, neural, healthy, patient, cardiac, death, congestive heart failure, epilepsy, gait, disorder, sleep apnea, cardioogy, computation, physiologic signal, workspace, time series, FASEB list, DRKB |
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 is listed by: DataCite is listed by: re3data.org is listed by: FAIRsharing has parent organization: Massachusetts Institute of Technology; Massachusetts; USA; is parent organization of: CHB-MIT Scalp EEG Database is parent organization of: EEG Motor Movement/Imagery Dataset is parent organization of: Sleep-EDF Database |
Aging | NIBIB ; NIGMS ; NIH EB037545 |
PMID:22256277 PMID:14716615 PMID:14632011 PMID:11446213 PMID:10851218 |
Free, Freely available | r3d100011561, nif-0000-00250, DOI:10.17616/R3D06S, DOI:10.25504/FAIRsharing.bemzxg, DOI:10.13026 | https://doi.org/10.17616/R3D06S, https://doi.org/10.17616/r3d06s, https://doi.org/10.13026/, https://dx.doi.org/10.13026/, https://fairsharing.org/10.25504/FAIRsharing.bemzxg, https://doi.org/10.17616/R3D06S | SCR_007345 | Physionet: The Research Resource for Complex Physiologic Signals, PhysioNet, PhysioNet: The Research Resource for Complex Physiologic Signals | 2026-08-09 09:04:40 | 841 | |||
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SNPFILE Resource Report Resource Website 1+ mentions |
SNPFILE (RRID:SCR_009402) | software toolkit, software application, software resource, software library | Software library and API for manipulating large SNP datasets with associated meta-data, such as marker names, marker locations, individuals'' phenotypes, etc. in an I/O efficient binary file format. In its core, SNPFile assumes very little about the metadata associated with markers and individuals, but leaves this up to application program protocols. (entry from Genetic Analysis Software) | gene, genetic, genomic, c++, linux, unix | is listed by: Genetic Analysis Software | nlx_154641 | SCR_009402 | 2026-08-09 09:05:19 | 1 | ||||||||||
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Salamons Neuroanatomy and Neurovasculature Web-Atlas Resource Resource Report Resource Website 1+ mentions |
Salamons Neuroanatomy and Neurovasculature Web-Atlas Resource (RRID:SCR_007343) | Neuroanatomy and Neurovascular Atlas | training resource, data or information resource, atlas | Annotated images of human brain derived from CT, MRI, angiography and post-mortem sections and drawings. Brain vasculature: arteries, arterioles, veins. Pathological specimens. Quizzes and general information on brain structures and clinical syndromes. Extensive collection of images, many from pathological conditions. | neuroanatomy | has parent organization: University of California at Los Angeles; California; USA | nif-0000-00247 | SCR_007343 | Neuroanatomy and Neurovascular Atlas | 2026-08-09 09:04:42 | 2 | ||||||||
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Allen Institute for Brain Science Resource Report Resource Website 500+ mentions |
Allen Institute for Brain Science (RRID:SCR_006491) | portal, data or information resource, atlas, topical portal | Seattle based independent, nonprofit medical research organization dedicated to accelerating the understanding of how human brain works. Provides free data and tools to researchers and educators and variety of unique online public resources for exploring the nervous system. Integrates gene expression data and neuroanatomy, along with data search and viewing tools, these resources are openly accessible via the Allen Brain Atlas data portal. Provides Allen Mouse Brain, Allen Spinal Cord Atlas, Allen Developing Mouse Brain Atlas, Allen Human Brain Atlas,Allen Mouse Brain Connectivity Atlas, Allen Cell Type Database, The Ivy Glioblastoma Atlas Project (Ivy GAP), The BrainSpan Atlas of the Developing Human Brain. | Institute, embryonic, gene, expression, data, neuroscience, medical, research, neuroanatomy |
is listed by: Brain Architecture Project is related to: VisiGene Image Browser is related to: Recombinase (cre) Activity is related to: Cytosplore Viewer is related to: Mozak is related to: Microns Explorer is related to: CellLocator is related to: Seattle Alzheimer Disease Brain Cell Atlas is related to: Atlasplot is related to: Atlas Ontology Model is related to: Allen Brain Atlas-Driven Visualizations is related to: Brain heatmap is related to: Brainmapr is related to: ABAEnrichment is related to: Hippo-ATESC is related to: AllenDigger is related to: Cocoframer is related to: Process Genes List is related to: AIDAhisto is related to: MeshGen is related to: PET-CT mouse brain toolbox is related to: Multimodal Environment for Neuroimaging and Genomic Analysis is related to: goi2roimapping is related to: Spatiotemporal pattern Exploration of Brain is related to: Allen Mouse Brain ImageLoader is related to: ARA Tools is related to: allenCCF is related to: CutNII is related to: Genomic-and-High-Dimensional-Data is related to: Mouse_abi_tool is related to: Abagen is related to: VoxHunt is related to: ABI-expression-data-generator is related to: GCEA_FalsePositives is related to: Atlas Splitter is related to: ABAnnotate is related to: JuGEx is related to: Alleninf is related to: Atlas Alignment Meter is related to: Pinpoint is related to: Atlas Densities is related to: Atlas Direction Vectors is related to: SageBionetworks Portals is related to: brain-mapping is related to: BrainModules is related to: BrainRegionMarkers is related to: AP-histology is related to: Brainreg-segment is related to: Segmenting Brain Regions is related to: DeepSlice is related to: Cell Type Analysis Toolbox is related to: BrainGlobe Atlas API is related to: QUINT is related to: BRain area Input Output is related to: Brainreg is related to: MorphAPI is related to: Aligning Big Brains and Atlases is related to: Allen Brain Atlas Tools is related to: Brain Gene Expression Analysis toolbox is related to: Blue Brain Cell Atlas is related to: 3DBar is related to: Brainrender is related to: QuickNII is related to: Brain Architecture Project is related to: NeuroInfo is related to: Azimuth is related to: Enhanced and Unified Anatomical Labeling for Common Mouse Brain Atlas is related to: Integrated Brain Gene Expression is related to: MIRACL is related to: Linked Neuron Data is related to: BrainStars is related to: MouseLight Project is related to: Distributed Archives for Neurophysiology Data Integration is related to: Open Source Brain is related to: VisuAlign is related to: NS-Forest is related to: SHARCQ is related to: ModelDB is related to: Gene Expression Omnibus (GEO) is related to: NCBI database of Genotypes and Phenotypes (dbGap) is related to: CellFinder is related to: Nutil - Neuroimaging utilities is related to: NeuroMorpho.Org is related to: Semi-Manual Alignment to Reference Templates is related to: MeshView is related to: Single Cell Portal is related to: Brain Image Library is related to: UCSC Cell Browser is related to: National Institute on Aging Genetics of Alzheimer’s Disease Data Storage Site (NIAGADS) is related to: cellxgene is related to: Atlas Ontology Model has parent organization: Allen Institute is parent organization of: Allen Mouse Brain Reference Atlas is parent organization of: Allen Institute for Brain Science Sleep Study is parent organization of: Allen Developing Mouse Brain Atlas is parent organization of: Allen Institute for Brain Science Transgenic Mouse Study is parent organization of: Allen Institute Neurowiki is parent organization of: Ivy Glioblastoma Atlas Project is parent organization of: Allen Brain Atlas API is parent organization of: Allen Human Brain Atlas is parent organization of: Allen Mouse Spinal Cord Atlas is parent organization of: Allen Institute Mouse Diversity Study is parent organization of: Allen Human Brain Atlas: BrainSpan (Atlas of the Developing Brain) is parent organization of: Allen Mouse Brain Connectivity Atlas is parent organization of: ABA Adult Mouse Brain Ontology is parent organization of: NIH Blueprint NHP Atlas is parent organization of: Aging Dementia and Traumatic Brain Injury Study is parent organization of: ACQ4 is parent organization of: CellTax vignette is parent organization of: Allen Brain Atlas is parent organization of: BRAIN Cell Data Center is parent organization of: BICCN Cell Registry is parent organization of: ABA Mouse Brain: Atlas is parent organization of: Allen Institute Mouse Whole Cortex and Hippocampus SMART-seq is parent organization of: Allen Mouse Brain Common Coordinate Framework is parent organization of: Allen Mouse Reference Atlas Ontology is parent organization of: BICCN is parent organization of: BRAIN Initiative Cell Atlas Network is parent organization of: Brain Knowledge Platform |
nif-0000-00146 | SCR_006491 | The Allen Institute for Brain Science, Allen Mouse Brain | 2026-08-09 09:04:28 | 803 | |||||||||
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PLEXdb - Plant Expression Database Resource Report Resource Website 10+ mentions |
PLEXdb - Plant Expression Database (RRID:SCR_006963) | PLEXdb | database, data or information resource, service resource, topical portal, storage service resource, portal, data repository, data analysis service, analysis service resource, production service resource | PLEXdb (Plant Expression Database) is a unified gene expression resource for plants and plant pathogens. PLEXdb is a genotype to phenotype, hypothesis building information warehouse, leveraging highly parallel expression data with seamless portals to related genetic, physical, and pathway data. The integrated tools of PLEXdb allow investigators to use commonalities in plant biology for a comparative approach to functional genomics through use of large-scale expression profiling data sets. | gene expression, plant, plant pathogen, genotype, phenotype, genetic, physical, pathway, plant biology, compare, functional genomics, expression profiling, expression atlas, pathogen, genome, anova, cluster, bio.tools |
is listed by: Debian is listed by: bio.tools is related to: FuncExpression has parent organization: Iowa State University; Iowa; USA |
UniNSF DBI-0543441; NSF IOS-0922746; USDA 3625-21000-049-00D |
PMID:22084198 | biotools:plexdb, r3d100011516, nlx_149236 | https://bio.tools/plexdb, https://doi.org/10.17616/R39D13 | SCR_006963 | PLEXdb - Gene expression resources for plants and plant pathogens, Plant Expression Database | 2026-08-09 09:04:32 | 21 | |||||
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BrainLine Resource Report Resource Website 1+ mentions |
BrainLine (RRID:SCR_006603) | BrainLine | data or information resource, topical portal, narrative resource, portal, podcast, video resource | BrainLine is a national multimedia project offering information and resources about preventing, treating, and living with TBI. BrainLine includes a series of webcasts, an electronic newsletter, and an extensive outreach campaign in partnership with national organizations concerned about traumatic brain injury. BrainLine serves anyone whose life has been affected by TBI. That includes people with brain injury, their families, professionals in the field, and anyone else in a position to help prevent or ameliorate the toll of TBI. Through BrainLine, we seek to provide a sense of community, a place where people who care about TBI can go 24 hours a day for information, support, and ideas. BrainLine is funded by the Defense and Veterans Brain Injury Center, the Primary Operational TBI Component of the Defense Centers of Excellence for Psychological Health and Traumatic Brain Injury, through a subcontract award with the Henry M. Jackson Foundation for the Advancement of Military Medicine. | traumatic brain injury, concussion, one mind tbi | Henry M. Jackson Foundation ; Defense and Veterans Brain Injury Center |
nlx_143816 | SCR_006603 | brainline.org: preventing treating and living with traumatic brain injury (TBI), brainline.org | 2026-08-09 09:04:25 | 2 |
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