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.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
United States Department of Energy Resource Report Resource Website 50+ mentions |
United States Department of Energy (RRID:SCR_012841) | DOE | institution | The mission of the Department of Energy is to ensure America''s security and prosperity by addressing its energy, environmental, and nuclear challenges through transformative science and technology solutions. Goal 1: Transform our Energy Systems - Catalyze the timely, material, and efficient transformation of the nation''s energy system and secure U.S. leadership in clean energy technologies. Goal 2: The Science and Engineering Enterprise - Maintain a vibrant U.S. effort in science and engineering as a cornerstone of our economic prosperity, with clear leadership in strategic areas. Goal 3: Secure Our Nation - Enhance nuclear security through defense, nonproliferation, and environmental efforts. Goal 4: Management and Operational Excellence - Establish an operational and adaptable framework that combines the best wisdom of all Department stakeholders to maximize mission success. |
is parent organization of: Microbial Genomics Program is parent organization of: Argonne National Laboratory is parent organization of: Brookhaven National Laboratories; New York; USA is parent organization of: Human Genome Project Information |
nlx_86742, grid.85084.31, Wikidata: Q217810, ISNI: 123423717, Crossref funder ID: 100000015 | https://ror.org/01bj3aw27 | SCR_012841 | US Department of Energy, U.S. Department of Energy, Department of Energy, U.S. DOE, US DOE | 2026-08-08 12:00:03 | 74 | ||||||||
|
USAID Resource Report Resource Website 500+ mentions |
USAID (RRID:SCR_012846) | USAID | government granting agency | is parent organization of: DHS Program | SCR_012846 | U.S. Agency for International Development, US Agency for International Development, US AID, USAID from the American people | 2026-08-08 12:00:03 | 521 | |||||||||||
|
Michigan State University College of Veterinary Medicine Resource Report Resource Website |
Michigan State University College of Veterinary Medicine (RRID:SCR_012848) | data or information resource, university, institution, portal, organization portal | The college includes four biomedical science departments -- microbiology and molecular genetics, pathobiology and diagnostic investigation, pharmacology and toxicology, and physiology; two clinical departments -- large-animal clinical sciences and small-animal clinical sciences; two service units -- the Veterinary Teaching Hospital and the Diagnostic Center for Population and Animal Health; and several research centers. In addition to the Doctor of Veterinary Medicine degree program, the college also offers certificate and bachelors degree programs in veterinary technology, as well as advanced degree (masters and doctor of philosophy) programs. The mission of the College of Veterinary Medicine is to develop a diverse academic community that fosters scholarly activity and encourages exemplary human qualities in order that the art and science of veterinary medicine may be imparted to students, expanded by research, and extended to the public for the benefit of animal and human health to meet the changing needs of Michigan, the nation, and the world. The College of Veterinary Medicine is fortunate to have an outstanding faculty, all of whom hold the doctor of veterinary medicine degree and/or the doctor of philosophy degree. Nearly all of the specialty boards recognized by the American Veterinary Medical Association are represented on the faculty. Many of these faculty members are leaders in their fields, both nationally and internationally. Michigan State has a long-standing commitment to equal opportunity, affirmative action, and multiculturalism. The College of Veterinary Medicine has attained national recognition for its leadership in programs for the encouragement of underrepresented groups at the preprofessional, professional, and advanced studies levels, as well as for increased diversity in its faculty. Special opportunities for preveterinary and professional students to participate in international veterinary activities further expand appreciation of different cultures. Indeed, international experience and opportunities abound in the college for both faculty and students. Nearly 300 individuals associated with the college have been involved in activities in 36 countries. A special endowment provides funds to support student travel abroad. The abundance and variety of animal agriculture and companion animals in Michigan provides the college with one of the largest clinical and diagnostic caseloads in the country. Educational and research opportunities are considerably enhanced by this large caseload. The college also takes seriously its obligation to meet the needs of society in addition to clinical services and education. The college has expertise in public health, biomedical and comparative medical research, ecosystem and environmental management, and the multiple facets that compose our complex global food system. CVM also supports key animal health programs conducted by both the Michigan Department of Agriculture and the U.S. Department of Agriculture. | has parent organization: Michigan State University; Michigan; USA | nlx_43774 | SCR_012848 | CVM | 2026-08-08 11:59:47 | 0 | ||||||||||
|
NGSmethDB Resource Report Resource Website 1+ mentions |
NGSmethDB (RRID:SCR_012847) | NGSmethDB | data or information resource, database, service resource, storage service resource, data repository | A dedicated database for the storage, browsing and data mining of whole-genome, single-base-pair resolution methylomes. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:20965971 | OMICS_01844, biotools:ngsmethdb | https://bio.tools/ngsmethdb | SCR_012847 | NGSmethDB - A database for NGS single-cytosine-resolution DNA methylation data | 2026-08-08 12:00:17 | 9 | ||||||
|
dmrFinder Resource Report Resource Website 10+ mentions |
dmrFinder (RRID:SCR_012853) | dmrFinder | software resource | Function for differentially methylated regions (DMR) detection that is a part of the charm package in R/Bioconductor. |
is listed by: OMICtools has parent organization: Bioconductor |
OMICS_00621 | SCR_012853 | 2026-08-08 12:00:17 | 29 | ||||||||||
|
Mauve Resource Report Resource Website 1000+ mentions |
Mauve (RRID:SCR_012852) | Mauve | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 28,2023. Software as system for efficiently constructing multiple genome alignments in the presence of large-scale evolutionary events such as rearrangement and inversion. | bio.tools |
is listed by: bio.tools has parent organization: University of Wisconsin-Madison; Wisconsin; USA |
DOI:10.1101/gr.2289704 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00940, biotools:mauve | https://bio.tools/mauve | http://gel.ahabs.wisc.edu/mauve/ | SCR_012852 | 2026-08-08 12:00:03 | 1675 | |||||
|
Django Resource Report Resource Website 500+ mentions |
Django (RRID:SCR_012855) | software resource | Django is a high-level Python Web framework that encourages rapid development and clean, pragmatic design. Developed four years ago by a fast-moving online-news operation, Django was designed to handle two challenges: the intensive deadlines of a newsroom and the stringent requirements of the experienced Web developers who wrote it. It lets you build high-performing, elegant Web applications quickly. Django focuses on automating as much as possible and adhering to the DRY principle. | nif-0000-30460 | SCR_012855 | Django | 2026-08-08 11:59:47 | 644 | |||||||||||
|
National Institute on Deafness and Other Communication Disorders Resource Report Resource Website 50+ mentions |
National Institute on Deafness and Other Communication Disorders (RRID:SCR_012859) | NIDCD | institution | The National Institute on Deafness and Other Communication Disorders (NIDCD) is one of the Institutes that comprise the National Institutes of Health (NIH). Established in 1988, NIDCD is mandated to conduct and support biomedical and behavioral research and research training in the normal and disordered processes of hearing, balance, smell, taste, voice, speech, and language. The Institute also conducts and supports research and research training related to disease prevention and health promotion; addresses special biomedical and behavioral problems associated with people who have communication impairments or disorders; and supports efforts to create devices which substitute for lost and impaired sensory and communication function. It is estimated that more than 46 million people in the United States suffer some form of disordered communication. NIDCD has focused national attention on disorders of human communication and has contributed to advances in biomedical and behavioral research that will improve the lives of millions of individuals with communication disorders. NIDCD has made important contributions to the body of knowledge needed to help those who experience communication disorders and to advance research in all aspects of human communication. NIDCD accomplishes its mandate through the Division of Intramural Research, which conducts research in laboratories at the NIH, and the Extramural Research Program, a program of research grants, career development awards, individual and institutional research training awards, center grants, and contracts to public and private research institutions and organizations. As a whole, the Institute supports and conducts approximately 600 research projects. The Institute also conducts and supports research and research training in disease prevention and health promotion and the special biomedical and behavioral problems associated with people having communication impairments and disorders. NIDCD''s extramural grant portfolio demonstrates a balance of basic and clinical research. The intramural research program spans a variety of topics, including, but not limited to, the development of a vaccine against otitis media, the identification and characterization of genes responsible for hereditary hearing impairment, genes associated with neoplasms affecting human communication, and treatment of voice disorders. |
has parent organization: NIH Blueprint for Neuroscience Research has parent organization: National Institutes of Health |
nlx_inv_1005114, Crossref funder ID: 100000055, Wikidata: Q10843453, grid.214431.1, ISNI: 0000 0001 2226 8444 | https://ror.org/04mhx6838 | SCR_012859 | National Institute on Deafness Other Communication Disorders | 2026-08-08 12:00:04 | 90 | ||||||||
|
ChIPpeakAnno Resource Report Resource Website 100+ mentions |
ChIPpeakAnno (RRID:SCR_012828) | ChIPpeakAnno | software resource | Software package that includes functions to retrieve the sequences around the peak, obtain enriched Gene Ontology terms, find the nearest gene, exon, miRNA or custom features such as most conserved elements. |
is listed by: OMICtools is listed by: SoftCite has parent organization: Bioconductor |
OMICS_00804 | SCR_012828 | 2026-08-08 12:00:03 | 480 | ||||||||||
|
MitoBreak Resource Report Resource Website 10+ mentions |
MitoBreak (RRID:SCR_012949) | MitoBreak | data or information resource, database, service resource, storage service resource, data repository | Database with curated datasets of mitochondrial DNA (mtDNA) rearrangements. Users may submit new mtDNA rearrangements. | mitochondrial dna rearrangement, mitochondrial dna, deletion, duplication, linear, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:24170808 | Free, The community can contribute to this resource | biotools:mitobreak, OMICS_01640 | https://bio.tools/mitobreak | SCR_012949 | 2026-08-08 12:00:18 | 11 | ||||||
|
NGSEP Resource Report Resource Website 50+ mentions |
NGSEP (RRID:SCR_012827) | NGSEP | software resource, software application, data analysis software, data processing software | Software whose main functionality is the variants detector, which allows to make simultaneous discovery of SNVs, small indels, and CNVs.Accurate variant calling across species and sequencing protocols.Used for analysis of DNA high throughput sequencing data. | matlab, variants detector, SNVs discovery, CNVs discovery, variant calling, species, sequencing protocols, bio.tools | is listed by: bio.tools | PMID:31099384 | Free, Available for download, Freely available | OMICS_00067, biotools:NGSEP | https://bio.tools/NGSEP | SCR_012827 | NGSEP3, Next Generation Sequencing Eclipse Plugin, Next Generation Sequencing Experience Platform | 2026-08-08 11:59:47 | 75 | |||||
|
inSilicoMerging Resource Report Resource Website 10+ mentions |
inSilicoMerging (RRID:SCR_012829) | inSilicoMerging | software resource | Collection of techniques to remove inter-study bias when combining gene expression data originating from different studies. |
is listed by: OMICtools has parent organization: Bioconductor |
OMICS_00859 | SCR_012829 | 2026-08-08 12:00:16 | 41 | ||||||||||
|
Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) Resource Report Resource Website 10000+ mentions |
Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) (RRID:SCR_012820) | RCSB PDB | data or information resource, database, service resource, storage service resource, data repository | Collection of structural data of biological macromolecules. Database of information about 3D structures of large biological molecules, including proteins and nucleic acids. Users can perform queries on data and analyze and visualize results. | 3-dimensional, annotation, molecule, nucleic acid, protein, visualization, sequence, function, macromolecule, ligand, model, dna, x-ray crystallography, ribosome, structure, oncogene, nucleic acids, molecular structure, cryomicroscopy, gold standard, FASEB list |
is used by: Structural Genomics Consortium is used by: Ligand Expo is used by: DARC - Database for Aligned Ribosomal Complexes is used by: FireDB is used by: Protein Data Bank Bind Database is used by: Protein Data Bank Site is used by: NIF Data Federation is used by: ChannelPedia is used by: MobiDB is used by: BALBES is used by: Structural Antibody Database is used by: BioLiP is recommended by: NIDDK Information Network (dkNET) is recommended by: National Library of Medicine is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: re3data.org is affiliated with: EMDataResource.org is affiliated with: ConSurf Database is related to: pdb-data is related to: PDB2MultiGif is related to: GlyProt is related to: pdb-care is related to: pdb2linucs is related to: GlyVicinity is related to: GlyTorsion is related to: GlySeq is related to: AffinDB is related to: StatAlign is related to: Community Structure-Activity Resource is related to: Binding MOAD is related to: ConSurf Database is related to: glycosciences.de is related to: DOMINE: Database of Protein Interactions is related to: Jenalib: Jena Library of Biological Macromolecules is related to: SynSysNet is related to: EMDataResource.org is related to: PDBe - Protein Data Bank in Europe is related to: TFinDIT is related to: HOLLOW is related to: ccPDB - Compilation and Creation of datasets from PDB is related to: DOMMINO - Database Of MacroMolecular INteractiOns is related to: InterEvol database is related to: Polbase is related to: PoSSuM is related to: ProtChemSI is related to: RNA CoSSMos is related to: PDBsum is related to: Worldwide Protein Data Bank (wwPDB) is related to: canSAR is related to: CAPS Database is related to: Dockground: Benchmarks, Docoys, Templates, and other knowledge resources for DOCKING is related to: Combinatorial Extension (CE) is related to: Metalloprotein Site Database is related to: PDBj - Protein Data Bank Japan is related to: Statistical Torsional Angles Potentials of NMR Refinement Database is related to: Metalloprotein Ligand Interaction Database is related to: CARP is related to: PDBTM is related to: RNA FRABASE - RNA FRAgments search engine and dataBASE is related to: AmiGO is related to: ConsensusPathDB is related to: Biological Magnetic Resonance Data Bank (BMRB) is related to: DNA DataBank of Japan (DDBJ) is related to: FlyMine is related to: NCBI Protein Database is related to: NCBI Nucleotide is related to: FunTree is related to: IndelFR - Indel Flanking Region Database is related to: NMR Restraints Grid is related to: Enzyme Structures Database is related to: Electron Microscopy Data Bank at PDBe (MSD-EBI) is related to: Worldwide Protein Data Bank (wwPDB) is related to: DNA DataBank of Japan (DDBJ) is related to: PDBe - Protein Data Bank in Europe is related to: MINAS - Metal Ions in Nucleic AcidS is related to: PDBj - Protein Data Bank Japan has parent organization: University of California at San Diego; California; USA has parent organization: Rutgers University; New Jersey; USA is parent organization of: RCSB PDB Software Tools is parent organization of: Protein Data Bank Markup Language is parent organization of: Ligand Expo works with: CellPhoneDB |
NIH ; DOE ; NSF DBI-1338415 |
PMID:12037327 | Public, Acknowledgement requested | nif-0000-00135, SCR_017379, r3d100010327 | http://www.rcsb.org, http://www.pdb.org, | http://www.rcsb.org/pdb/ | SCR_012820 | RCSB, Research Collaboratory for Structural Bioinformatics Protein Data Bank, The Protein Data Bank, PDB, Protein Databank, RCSB Protein Data Bank, Protein Data Bank | 2026-08-08 11:59:47 | 12459 | |||
|
MATCONT and CL MATCONT: Continuation Software in Matlab Resource Report Resource Website 10+ mentions |
MATCONT and CL MATCONT: Continuation Software in Matlab (RRID:SCR_012822) | simulation software, software resource, software application, data processing software | MATCONT is a graphical MATLAB package for the interactive numerical study of parameterized dynamical systems. It is developed in parallel with the command line continuation toolbox CL_MATCONT and with the command line continuation toolbox CL_MATCONTM for the interactive numerical study of parameterized maps and iterates of maps. MATCONT and CL_MATCONT allow the numerical continuation of equilibria, limit cycles and homoclinic orbits, detection of codimension 1 and 2 bifurcations, continuation of the codimension 1 bifurcations and computation of their normal forms. For equilibria normal form coefficients of codimension 2 bifurcations are also computed, as well as switching to the codimension 1 curves in codimension 2 points. CL_MATCONTM provides similar facilities for maps and iterates of maps, including normal form coefficients of codimension 2 bifurcations and continuation of homoclinic and heteroclinic connections and tangencies of such connections. | dynamical system, bifurcation, map, neuroinformatics, normal form, simulation, software | nif-0000-00165 | SCR_012822 | MATCONT | 2026-08-08 12:00:03 | 26 | ||||||||||
|
DEXSeq Resource Report Resource Website 500+ mentions |
DEXSeq (RRID:SCR_012823) | DEXSeq | software resource | Software package focused on finding differential exon usage using RNA-seq exon counts between samples with different experimental designs. It provides functions that allows the user to make the necessary statistical tests based on a model that uses the negative binomial distribution to estimate the variance between biological replicates and generalized linear models for testing. The package also provides functions for the visualization and exploration of the results. | bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Bioconductor |
OMICS_01329, biotools:dexseq | https://bio.tools/dexseq | SCR_012823 | 2026-08-08 12:00:16 | 540 | ||||||||
|
snapCGH Resource Report Resource Website 1+ mentions |
snapCGH (RRID:SCR_012947) | snapCGH | software resource | Software providing methods for segmenting, normalising and processing aCGH data; including plotting functions for visualising raw and segmented data for individual and multiple arrays. |
is listed by: OMICtools has parent organization: Bioconductor |
OMICS_00734 | SCR_012947 | 2026-08-08 12:00:05 | 5 | ||||||||||
|
ArrayTrack Resource Report Resource Website 50+ mentions |
ArrayTrack (RRID:SCR_012839) | ArrayTrack | software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on May 23,2023. Provides an integrated solution for managing, analyzing, and interpreting microarray gene expression data. |
uses: Gene Ontology For Functional Analysis (GOFFA) is listed by: OMICtools has parent organization: U.S. Food and Drug Administration |
THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_00851 | SCR_012839 | 2026-08-08 12:00:17 | 66 | |||||||||
|
Canadian Institutes of Health Research Resource Report Resource Website 100+ mentions |
Canadian Institutes of Health Research (RRID:SCR_012838) | CIHR | institution | The Canadian Institutes of Health Research (CIHR) is the Government of Canada''s agency responsible for funding health research in Canada. CIHR was created in 2000 under the authority of the CIHR Act and reports to Parliament through the Minister of Health. CIHR''s budget for 2008-09 is $928.6 million, of which $132 million is allocated to administering the Networks of Centres of Excellence and Canada Research Chair programs. CIHR was created to transform health research in Canada by: * funding more research on targeted priority areas; * building research capacity in under-developed areas such as population health and health services research; * training the next generation of health researchers; and * focusing on knowledge translation, so that the results of research are transformed into policies, practices, procedures, products and services. CIHR consists of 13 virtual institutes, a structure that is unique in the world. These innovative institutes bring together all partners in the research process - the people who fund research, those who carry it out and those who use its results - to share ideas and focus on what Canadians need: good health and the means to prevent disease and fight it when it happens. Each institute supports a broad spectrum of research in its topic areas and, in consultation with its stakeholders, sets priorities for research in those areas. |
is related to: Structural Genomics Consortium is parent organization of: Institute of Neurosciences Mental Health and Addiction is parent organization of: Institute of Aging - CIHR is parent organization of: International Initiative for Traumatic Brain Injury Research |
grid.248883.d, ISNI: 000000010789659X, Crossref funder ID: 501100000024, Wikidata: Q5030193, nlx_45689 | https://ror.org/01gavpb45 | SCR_012838 | Instituts de recherche en sante du Canada, IRSC | 2026-08-08 12:00:03 | 486 | ||||||||
|
minfi Resource Report Resource Website 100+ mentions |
minfi (RRID:SCR_012830) | minfi | software resource, software application, data analysis software, data visualization software, data processing software | Software tools for analyzing and visualizing Illumina''s 450k array data. | Illumina, array data, Analyze Illumina Infinium DNA methylation arrays, DNA methylation array, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is listed by: SoftCite is related to: SWAN has parent organization: Bioconductor |
PMID:28035024 | Free, Available for download, Freely available | biotools:minfi, OMICS_00799, BioTools:minfi | https://bio.tools/minfi, https://bio.tools/minfi, https://bio.tools/minfi | SCR_012830 | 2026-08-08 11:59:47 | 417 | ||||||
|
miRNApath Resource Report Resource Website 1+ mentions |
miRNApath (RRID:SCR_012833) | miRNApath | software resource | Software package that provides pathway enrichment techniques for miRNA expression data. |
is listed by: OMICtools has parent organization: Bioconductor |
OMICS_00787 | SCR_012833 | 2026-08-08 11:59:47 | 5 |
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 PRECISE-TBI Resources search. From here you can search through a compilation of resources used by PRECISE-TBI and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that PRECISE-TBI 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 PRECISE-TBI then you can log in from here to get additional features in PRECISE-TBI 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:
If you are logged into PRECISE-TBI you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
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.
