Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
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.
http://www.alz.washington.edu/
A clinical research, neuropathological research and collaborative research database that uses data collected from 29 NIA-funded Alzheimer's Disease Centers (ADCs). The database consists of several datasets, and searches may be done on the entire database or on individual datasets. Any researcher, whether affiliated with an ADC or not, may request a data file for analysis or aggregate data tables. Requested aggregate data tables are produced and returned as soon as the queue allows (usually within 1-3 days depending on the complexity).
Proper citation: National Alzheimer's Coordinating Center (RRID:SCR_007327) Copy
http://icy.bioimageanalysis.org/
An open community platform for bioimage informatics providing the software resources to visualize, annotate and quantify bioimaging data. To bridge the gap between developers and users, it combines: a) an open-source image analysis software, offering a powerful and flexible environment for developers such as applied mathematicians to write algorithms fast and efficiently; b) a common set of tools to view and manipulate data, and a set of plugins to perform specific quantification or analysis on images; c) a community-based website centralizing all plugins and resources to facilitate their management and maximize their visibility towards users. Workspaces are virtual groups of plugins dedicated to a specific application or image processing domain. By downloading a workspace, ICY automatically installs all corresponding plugins. The workspaces are enabled, but the editing section is not ready yet. If you want to publish a plugin on this website, its code has to be GPL. Source code is available and provided in each application download.
Proper citation: icy (RRID:SCR_010587) Copy
http://www.nia.nih.gov/ResearchInformation/ScientificResources/LongitudinalStudies.htm
THIS RESOURCE IS NO LONGER IN SERVICE, documented on August 11, 2015. A searchable database for epidemiologic research on aging changes across the lifespan. In 2003, the National Institute on Aging (NIA) established the Longitudinal Data on Aging (LDA) working group to assist with the development of research initiatives for identifying the physiologic and other types of factors across the lifespan, affecting onset and progression of disease with advancing age, as well as elucidation of protective factors contributing to exceptionally healthy aging. This database was developed based on input from the LDA working group which indicated that establishing a database of existing sources of longitudinal data on aging (e.g., ongoing longitudinal cohorts, longitudinal data sets, biospecimen repositories) would be a valuable resource for facilitating future research on aging changes across the lifespan. The longitudinal studies, data sets and repositories included in this database encompass a wide range of age groups (childhood to old age), studies in minority populations, as well as sources of longitudinal data existing in the United States and abroad. Our primary purpose for establishing this database is to provide a resource for potential applicants for grants to the NIA. No part of this database can be used for commercial purposes.
Proper citation: National Institute on Aging, Database of Longitudinal Studies (RRID:SCR_008259) Copy
Cloud based web platform connecting researchers, research organisations, funders and publishers in automated workflow management tool. Platform provides infrastructure for researchers, funders and publishers participating in Open Access Publishing. Features searchable database of journals compliant with research funders Open Access policies, connects researchers directly to journals submission systems, coordinates open access fee payments for funder with publisher upon acceptance, and supports compliancy by overseeing deposition of papers to designated repositories.
Proper citation: Chronos (RRID:SCR_017224) Copy
http://phenotype.mc.vanderbilt.edu/
Collaborative environment of building and validating electronic phenotype algorithms using electronic medical records (EMRs) and natural language processing (NLP) for use in genome-wide association studies (GWAS). On this site you can: View existing algorithms, Enter or create new algorithms, Collaborate with others to create or review algorithms, View implementation details for existing algorithms. The Electronic Medical Records and Genomics Network (eMERGE) has investigated whether data captured through routine clinical care using electronic medical records (EMRs) can identify disease phenotypes with sufficient positive and negative predictive values for use in genome-wide association studies (GWAS). Most EMRs captured key information (diagnoses, medications, laboratory tests) used to define phenotypes in a structured format; in addition, natural language processing has also been shown to improve case identification rates. PheKB is an outgrowth of that validation effort. Phenotype algorithms can be viewed by data modalities or methods used: CPT codes, ICD 10 codes, ICD 9 codes, Laboratories, Medications, Vital Signs, Natural Language Processing Algorithms can also be viewed by: * Implementation results (positive predictive value, sensitivity, publications) * Institution * Work Group
Proper citation: PheKB (RRID:SCR_005292) Copy
https://github.com/openMetadataInitiative/openMINDS_publications
Software repository is part of the open Metadata Initiative for Neuroscience Data Structures (openMINDS). It extends openMINDS, by providing metadata schemas for representing publications in neuroscience, including interactive publications such as Live Papers. It includes schemas for articles, books, preprints, blog posts, live papers, etc., linked to other openMINDS entities such as Datasets. The schemas closely follow those in Schema.org but extend them for improved interoperability with openMINDS.
Proper citation: openMINDS publications metadata model (RRID:SCR_026251) Copy
THIS RESOURCE IS NO LONGER IN SERVICE, documented on March 28, 2013. GIB is a comprehensive data repository of complete microbial genomes in the public domain. GIB will diffuse the genome sequence data and annotation in a day whenever the data is submitted to the International Nucleotide Sequence Databases (DDBJ, EMBL database and GenBank). You can explore any microbial genome by clone name, ORF name/number, function, gene name, product name, location, sequence (namely, homology search), and other features/qualifiers defined by INSD. The result of query is displayed either in graphics or in a table format.
Proper citation: Genome information broker (RRID:SCR_007684) Copy
An integrative interaction database that integrates different types of functional interactions from heterogeneous interaction data resources. Physical protein interactions, metabolic and signaling reactions and gene regulatory interactions are integrated in a seamless functional association network that simultaneously describes multiple functional aspects of genes, proteins, complexes, metabolites, etc. With human, yeast and mouse complex functional interactions, it currently constitutes the most comprehensive publicly available interaction repository for these species. Different ways of utilizing these integrated interaction data, in particular with tools for visualization, analysis and interpretation of high-throughput expression data in the light of functional interactions and biological pathways is offered.
Proper citation: ConsensusPathDB (RRID:SCR_002231) Copy
Publicly accessible 3D data repository where subject experts, educators, and general public can find, view, interact with, and download 3D and 2D media representing physical objects important to the world’s natural history, cultural heritage, and scientific collections. Media data are contributed by a community that includes museums, institutions, researchers, scholars, and other subject experts who use MorphoSource to archive data, share findings, and increase scholarly impact. Contributed media represent both biological objects such as fossils and representatives of living species, as well as artifacts and objects created by humans that are critical to our shared cultural heritage.
Proper citation: MorphoSource (RRID:SCR_025654) Copy
SOCR designs, validates and freely disseminates knowledge. The Resource develops AI/ML tools, mathematical models, and end-to-end data analytic protocols for biomedical and health studies. It provides portable online aids for probability, statistics and health science education, promotes technology enhanced instruction, supports efficient statistical computing, supports AI-services, and advances predictive big data analytics. The SOCR platform includes repository of interactive apps, datasets and case-studies, computational tools, visualization approaches, instructional resources, learning materials, and curricular components. SOCR faculty, staff, and students support data and information science collaborations and analytic partnerships involving biomedical, healthcare, and biostatistical investigations.
Proper citation: University of Michigan Statistics Online Computational Resource Core Facility (RRID:SCR_022917) Copy
http://hcc.musc.edu/research/resources/biorepository/
The Hollings Cancer Center Tissue Biorepository & Research Pathology Services Shared Resource provides investigators with a centralized infrastructure that promotes biomedical research involving the use and study of human biospecimens. The shared resource is comprised of four integrated components: Biospecimens and data bank, Laser Capture Microdissection, Tissue Microarray, and Research Pathology Services. These components, along with extensive staff expertise, offer a comprehensive means by which researchers can utilize valuable human biospecimens and cutting edge technology to support basic, translational and clinical research. Services: * Biospecimen and Data Bank ** Collecting, processing, and banking of tissue, saliva, urine, blood, plasma, serum, and other tissue derivatives; including those for protocol driven studies ** Retrieval of banked specimens linked to clinicopathologic data, while maintaining patient confidentiality, for research use ** Quality control of collected tissue by the Tissue Biorepository Director, a trained pathologist: verification of diseased state and assessment of tumor purity, etc ** Quality control of DNA/RNA/protein isolated from collected tissue using the Agilent Bioanalyzer * Laser Capture Microdissection ** Identification, localization, and microdissection of targeted cell populations (from human and animal tissue sources) ** Extraction of DNA/RNA/protein from microdissected samples. ** Quality analysis and quality control of isolated nucleic acid using Agilent Bioanalyzer * Tissue Microarray ** Create custom and standard TMAs ** Consultation and technical support in the construction and analyses of TMA * Research Pathology Services ** Macrodissection of tissue prior to isolation of DNA/RNA/protein to increase tumor purity ** Immunohistochemistry and In-situ hybridization ** Quantitative image analysis on conventional and TMA sections, including tissue scoring, Ki-67 labeling index, microvascular density counting, and tissue microarray scoring, etc. * Bio-molecular Assessment ** Cellular DNA, RNA and protein prepared by the Tissue Repository from banked specimens or any other biomolecules submitted by investigators can be qualitatively assessed by Agilent Bioanalyzer, prior to use for downstream applications such as microarray and/or qRT-PCR analysis
Proper citation: Hollings Cancer Center Tissue Biorepository and Research Pathology Services Shared Resource (RRID:SCR_004626) Copy
http://www.ncbi.nlm.nih.gov/pccompound
One of three primary databases of PubChem (Pcsubstance, Pccompound, and PCBioAssay), PubChem Compound Database contains validated chemical depiction information provided to describe substances in PubChem Substance. Structures stored within PubChem Compounds are pre-clustered and cross-referenced by identity and similarity groups. Additionally, calculated properties and descriptors are available for searching and filtering of chemical structures. A PubChem FTP and structure download are available. New data are accepted into the repository.
Proper citation: PubChem Compound (RRID:SCR_010578) Copy
https://datasetsearch.research.google.com/
Search engine for datasets hosted in web-based repositories and marked up according to schema.org. Helps users find datasets on the web. It aggregates information from publisher websites, digital libraries, and other sources, and uses metadata to allow users to filter results by criteria like last updated date, usage rights, download format, and topic. Users can find datasets across a wide variety of disciplines, including scientific, government, and commercial data.
Proper citation: Google Dataset Search (RRID:SCR_027615) Copy
THIS RESOURCE IS NO LONGER IN SERVICE, documented May 10, 2017. A pilot effort that has developed a centralized, web-based biospecimen locator that presents biospecimens collected and stored at participating Arizona hospitals and biospecimen banks, which are available for acquisition and use by researchers. Researchers may use this site to browse, search and request biospecimens to use in qualified studies. The development of the ABL was guided by the Arizona Biospecimen Consortium (ABC), a consortium of hospitals and medical centers in the Phoenix area, and is now being piloted by this Consortium under the direction of ABRC. You may browse by type (cells, fluid, molecular, tissue) or disease. Common data elements decided by the ABC Standards Committee, based on data elements on the National Cancer Institute''s (NCI''s) Common Biorepository Model (CBM), are displayed. These describe the minimum set of data elements that the NCI determined were most important for a researcher to see about a biospecimen. The ABL currently does not display information on whether or not clinical data is available to accompany the biospecimens. However, a requester has the ability to solicit clinical data in the request. Once a request is approved, the biospecimen provider will contact the requester to discuss the request (and the requester''s questions) before finalizing the invoice and shipment. The ABL is available to the public to browse. In order to request biospecimens from the ABL, the researcher will be required to submit the requested required information. Upon submission of the information, shipment of the requested biospecimen(s) will be dependent on the scientific and institutional review approval. Account required. Registration is open to everyone., documented on August 1, 2015. Consortium that aims to facilitate interdisciplinary collaborations to advance the understanding of pancreatic islet development and function, with the goal of developing innovative therapies to correct the loss of beta cell mass in diabetes, including cell reprogramming, regeneration and replacement. They are responsible for collaboratively generating the necessary reagents, mouse strains, antibodies, assays, protocols, technologies and validation assays that are beyond the scope of any single research effort. The scientific goals for the BCBC are to: * Use cues from pancreatic development to directly differentiate pancreatic beta cells and islets from stem / progenitor cells for use in cell-replacement therapies for diabetes, * Determine how to stimulate beta cell regeneration in the adult pancreas as a basis for improving beta cell mass in diabetic patients, * Determine how to reprogram progenitor / adult cells into pancreatic beta-cells both in-vitro and in-vivo as a mean for developing cell-replacement therapies for diabetes, and * Investigate the progression of human type-1 diabetes using patient-derived cells and tissues transplanted in humanized mouse models. Many of the BCBC investigator-initiated projects involve reagent-generating activities that will benefit the larger scientific community. The combination of programs and activities should accelerate the pace of major new discoveries and progress within the field of beta cell biology.
Proper citation: Beta Cell Biology Consortium (RRID:SCR_005136) Copy
A social visualization repository for the scientific workflow management system VisTrails providing a platform for sharing and executing computational tasks. It adopts the model used by social Web sites and that integrates a set of usable tools and a scalable infrastructure to provide an environment for scientists to collaboratively analyze and visualize data. crowdLabs aims to foster collaboration but was specifically designed to support the needs of computational scientists, including the ability to access high-performance computers and manipulate large volumes of data. By providing mechanisms that simplify the publishing and use of analysis pipelines, it allows IT personnel and end users to collaboratively construct and refine portals. This lowers the barriers for the use of scientific analyses and enables broader audiences to contribute insights to the scientific exploration process, without the high costs incurred by traditional portals. In addition, it supports a more dynamic environment where new exploratory analyses can be added on-the-fly.
Proper citation: crowdLabs (RRID:SCR_006294) Copy
https://cm.jefferson.edu/MINTbase/
Web-based framework that serves the dual-purpose of being content repository for tRFs and tool for interactive exploration of these newly discovered molecules. Framework for interactive exploration of mitochondrial and nuclear tRNA fragments. Can report comparative information on how tRF is distributed across all anticodon/amino acid combinations, provides alignments between tRNA and multiple tRFs with which user can interact, provides details on published studies that reported tRF as expressed.
Proper citation: MINTbase (RRID:SCR_026216) Copy
http://www.nitrc.org/projects/jhumipavplugins/
This repository stores plugins, tutorial code, and examples demonstrating MRI manipulation within the MIPAV plugin environment. This project is separate from JIST so that we can provide WRITE access to any interested party without overly exposing the infrastructure to unplanned modification. Please contact the administrators if you would like to join this project - open use is encouraged.
Proper citation: JIST Resources for Algorithm Development (RRID:SCR_009500) Copy
The IPD - MHC Database provides a centralized repository for sequences of the major histocompatibility complex from a number of different species. Through a number of international collaborations IPD is able to provide the MHC sequences of different species. The sequences provided by each group are curated by experts in the field and then submitted to the central database.
Proper citation: IPD-MHC- Major Histocompatibility Complex (RRID:SCR_007749) Copy
http://tandem.bu.edu/cgi-bin/trdb/trdb.exe
A public repository of information on tandem repeats in genomic DNA and contains a variety of tools for their analysis. These currently include the Tandem Repeats Finder algorithm, query and filtering capabilities for finding particular repeats of interest, repeat clustering algorithms based on sequence similarity, polymorphism prediction based on common patterns of mutation, PCR primer selection, and data download in a variety of formats. In addition, TRDB serves as a centralized research workbench, provides storage space for results of analysis, and permits collaborators to privately share their data and analysis.
Proper citation: Tandem Repeats Database (RRID:SCR_005659) Copy
The ArkDB database system aims to provide a comprehensive public repository for genome mapping data from farmed and other animal Species. The system also aims to provide a route in to genomic and other sequence from the initial viewpoint of linkage mapping, RH mapping, physical mapping or - possibly more importantly - QTL mapping data. Sponsors: ArkDB is funded by Biotechnology and Biological Sciences Research Council (BBSRC), UK. Cat, Chicken, Cow, Deer, Duck, Horse, Pig, Quail, Salmon, Sea Bass, Sheep, Turkey, QLT map, Linkage map, RH map, Farm animal, Genome map, Sequence, Mapping
Proper citation: ArkDB - Genomes For The Rest of Us (RRID:SCR_001838) Copy
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the RRID Resources search. From here you can search through a compilation of resources used by RRID and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that RRID has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on RRID then you can log in from here to get additional features in RRID such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
You can save any searches you perform for quick access to later from here.
We recognized your search term and included synonyms and inferred terms along side your term to help get the data you are looking for.
If you are logged into RRID you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the sources that were queried against in your search that you can investigate further.
Here are the categories present within RRID that you can filter your data on
Here are the subcategories present within this category that you can filter your data on
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
