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.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
Heuristic Identification of Biological Architectures for simulating Complex Hierarchical Interactions Resource Report Resource Website |
Heuristic Identification of Biological Architectures for simulating Complex Hierarchical Interactions (RRID:SCR_017140) | HIBACHI, hibachi | simulation software, software application, software resource | Software tool that creates data sets with particular characteristics. Method and open source software for simulating complex biological and biomedical data to aid in comparing and evaluating machine learning methods. | data, simulation, dataset, compare, machine, evaluate, learning, method | NIAID AI116794; NIDDK DK112217; NLM LM012601 |
PMID:29218887 | Free, Available for download, Freely available | SCR_017140 | Heuristic Identification of Biological Architectures for simulating Complex Hierarchical Interactions | 2026-10-17 01:29:15 | 0 | |||||||
|
EDDA Study Design Terminology Resource Report Resource Website |
EDDA Study Design Terminology (RRID:SCR_010312) | EDDA | controlled vocabulary, data or information resource, ontology | Ontology terms useful for machine learning experiments. The terminology appearing in JMLA has been enriched with terms from MeSH and Emtree, the controlled vocabularies for MEDLINE and Embase, respectively. Synonyms include American and British variants and some inverted terms. | obo |
is listed by: BioPortal has parent organization: University of Pittsburgh School of Medicine; Pennsylvania; USA |
NLM R00LM010943 | PMID:23646024 | nlx_157393 | SCR_010312 | Evidence in Documents Discovery and Analysis Study Design Terminology | 2026-10-17 01:31:27 | 0 | ||||||
|
PONDR Resource Report Resource Website 100+ mentions |
PONDR (RRID:SCR_023691) | data access protocol, software resource, web service | Web tool to predict order and disorder from amino acid sequence. Used to predict of natural disordered regions in proteins. | amino acid sequence, predict sequence order and disorder, protein natural disordered regions prediction, protein, | DOE ; MRC of Canada ; NLM R01 LM06916; NSF |
DOI:10.1016/S1093-3263(00)00138-8 | Free, Freely available | SCR_023691 | Predictor of Natural Disordered Regions | 2026-10-17 01:31:34 | 171 | ||||||||
|
lilikoi Resource Report Resource Website 1+ mentions |
lilikoi (RRID:SCR_016361) | data analysis software, data processing software, software application, software resource, software toolkit | Software tool as an R package for personalized pathway-based classification modeling using metabolomics data. Provides personalized pathway deregulation measurements (PDS scores) and offers a standardized classification model for biomarker prediction. | personalized, medicine, metabolomics, data, classification, clustering, biomarker, prediction, algorithm, calculating, microarray, enrichment |
is listed by: OMICtools is related to: University of Hawaii; Hawaii; USA |
NICHD R01 HD084633; NIEHS K01 ES025434; NIGMS GM103457; NLM R01 LM012373 |
DOI:https://doi.org/10.1101/283408 | Free, Available for download, Freely available | https://omictools.com/lilikoi-tool | SCR_016361 | 2026-10-17 01:29:04 | 3 | |||||||
|
Hanalyzer Resource Report Resource Website |
Hanalyzer (RRID:SCR_000923) | software application, software resource, source code | An open-source data integration system designed to assist biologists in explaining the results observed in genome-scale experiments as well as generating new hypotheses. It combines information extraction techniques, semantic data integration, and reasoning and facilitates network visualization. The Hanalyzer source code and binaries are available for download. | genomic, visualization, reading, reasoning, reporting, throughput analyzer, data network |
has parent organization: University of Colorado Denver; Colorado; USA has parent organization: SourceForge |
NIDCR R01DE15191; NLM R01LM008111; NLM R01LM009254; NIGMS R01GM083649; NLM T15LM009451; NHGRI 5R01HG004483-09 |
PMID:19325874 | nlx_48287 | SCR_000923 | Hanalyzer: A 3R System | 2026-10-17 01:32:56 | 0 | |||||||
|
Developmental and Reproductive Toxicology Database Resource Report Resource Website 1+ mentions |
Developmental and Reproductive Toxicology Database (RRID:SCR_002326) | DART | data or information resource, database | Bibliographic database providing references to developmental and reproductive toxicology literature on the National Library of Medicine's Toxicology Data Network. It covers teratology and other aspects of developmental and reproductive toxicology. It contains over 200,000 references to literature published since 1965. DART/ETIC is easily accessible and free of charge. Search by subject terms, title words, chemical name, Chemical Abstracts Service Registry Number (RN), and author. Search results can easily be viewed, printed or downloaded. Search results are displayed in relevancy ranked order, but may be sorted by publication date, author or title. | chemical, developmental, medicine, reproductive, teratology, toxicology, development | has parent organization: National Library of Medicine | U.S. Environmental Protection Agency ; NIEHS ; National Center for Toxicological Research ; NLM |
PMID:24698185 | Free | nif-0000-21110 | SCR_002326 | 2026-10-17 01:33:04 | 1 | ||||||
|
Protein Clusters Resource Report Resource Website 1+ mentions |
Protein Clusters (RRID:SCR_003459) | ProtClustDB | data or information resource, database | Database of related protein sequences (clusters) consisting of proteins derived from the annotations of whole genomes, organelles and plasmids. It currently limited to Archaea, Bacteria, Plants, Fungi, Protozoans, and Viruses. It contains annotation information, publications, domains, structures, and external links and analysis tools including multiple alignments, phylogenetic trees, and genomic neighborhoods (ProtMap). Data is available for download via Protein Clusters FTP | bacteriophage, mitochondrial organelle, chloroplast organelle, plasmid, phylogeny, nucleotide sequence, chloroplast, dna, virus, genome, organelle, gold standard |
is listed by: re3data.org has parent organization: NCBI |
NIH ; Intramural Research Program ; NLM |
PMID:18940865 | Free, Available for download, Freely available | nif-0000-03354, r3d100010861 | https://doi.org/10.17616/R3TS52 | SCR_003459 | Protein Clusters Database, NCBI Protein Clusters, Entrez Protein Clusters | 2026-10-17 01:32:39 | 4 | ||||
|
tTFtarget Resource Report Resource Website 1+ mentions |
tTFtarget (RRID:SCR_025631) | data or information resource, database | Transcription factor target database. Platform consolidating both computationally predicted and experimentally validated binding sites between transfer RNA-derived fragments and target genes or transcripts across multiple organisms. | Transcription factor target, validated binding sites, transfer RNA-derived fragments, target genes, multiple organisms, | NLM R01LM014087; NSF |
DOI:10.1093/nar/gkad815 | Free, Freely available | SCR_025631 | tRFtarget 2.0, tRFtarget 1.0 | 2026-10-17 01:38:55 | 4 | ||||||||
|
RFMix Resource Report Resource Website 1+ mentions |
RFMix (RRID:SCR_027030) | software application, software resource | Software tool for local ancestry and admixture inference. Discriminative Modeling Approach for Rapid and Robust Local-Ancestry Inference. | Discriminative Modeling, local ancestry and admixture inference, | NHGRI 2R01HG003229; NLM LM007033; NSF |
PMID:23910464 | Restricted | SCR_027030 | 2026-10-17 01:37:29 | 9 | |||||||||
|
CDEMapper Resource Report Resource Website |
CDEMapper (RRID:SCR_027602) | software application, software resource, source code | Software Common Data Elements (CDEs) mapping tool to bridge the gap between local data elements and National Institutes of Health (NIH) CDEs. Elasticsearch and Large Language Model (LLM)-powered mapping tool designed for biomedical and clinical researchers to efficiently map study variables to the NIH Common Data Elements (CDEs). It integrates essential and advanced services into a user-centered mapping workflow, allowing users to choose different mapping strategies based on their project's needs.Used for enhancing National Institutes of Health common data element use with large language models. | mapping, map study variables, NIH Common Data Elements, map study variables to NIH Common Data Elements, | NLM U24LM013755 | PMID:40332956 | Free, Available for download, Freely available | https://github.com/BIDS-Xu-Lab/CDE-Mapping-Tool | SCR_027602 | CDEMapper 2.0 | 2026-10-17 01:37:50 | 0 |
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 NIF Resources search. From here you can search through a compilation of resources used by NIF and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that NIF 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 NIF then you can log in from here to get additional features in NIF 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 NIF 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.
