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 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
ShinyLearner Resource Report Resource Website 1+ mentions |
ShinyLearner (RRID:SCR_017608) | data analysis software, data processing software, software application, software resource | Software framework for performing benchmarks of machine learning classification algorithms. Containerized benchmarking tool for machine-learning classification of tabular data. | Benchmark, machine, learning, classification, algorithm, tabular, data, bio.tools |
is listed by: Debian is listed by: bio.tools |
DOI:10.1101/675181 | Free, Available for download, Freely available | biotools:ShinyLearner | https://bio.tools/ShinyLearner | SCR_017608 | 2026-09-19 12:53:43 | 2 | |||||||
|
vbSPT Resource Report Resource Website 1+ mentions |
vbSPT (RRID:SCR_017554) | data analysis software, data processing software, software application, software resource | Software package for analysis of single particle diffusion trajectories, where diffusion constants switch randomly according to Markov process. Analytical tool to combine information from thousands of short single-molecule trajectories of intracellularly diffusing proteins. Has ability to learn number of diffusive states directly from data, in addition to model parameters such as transition rates and diffusion constants. | Analysis, single, particle, diffusion, trajectory, Markov, short, molecule, intracellularly, protein, data, transition, state | PMID:23396281 | Free, Available for download, Freely available | https://sourceforge.net/projects/vbspt/files/latest/download?source=files | SCR_017554 | variational Bayes single particle tracking | 2026-09-19 12:53:42 | 3 | ||||||||
|
LabChart Reader Resource Report Resource Website 100+ mentions |
LabChart Reader (RRID:SCR_017551) | data analysis software, data processing software, software application, software resource | LabChart data analysis software creates a platform for all of your recording devices to work together, allowing you to acquire biological signals from multiple sources simultaneously and apply advanced calculations and plots as your experiment unfolds. LabChart Reader is free version of software that allows to analyse with some limitations. LabChart Reader doesn’t allow saving of data - export image only. Has data pad for analysis. | Adinstruments, LabChart, data, analysis, calculation, plot | is related to: LabChart | https://www.adinstruments.com/products/labchart/versions-and-licenses | SCR_017551 | LabChart Reader software 8.1, LabChart Reader software | 2026-09-19 12:53:42 | 144 | |||||||||
|
Mousebytes Resource Report Resource Website 1+ mentions |
Mousebytes (RRID:SCR_017904) | data or information resource, data repository, database, service resource, storage service resource | Open access database for all cognitive data collected from touchscreen related tasks. Performs data comparison and interactive data visualization for any data uploaded onto the site. There are also guidelines and video tutorials available. | Data, mouse, cognition, imaging, genomics, integration, bio.tools, OpenBehavior |
is listed by: Debian is listed by: bio.tools is listed by: OpenBehavior has parent organization: Western University; Ontario; Canada |
Alzheimer’s Society of Canada ; Brain Canada ; Canadian First Research Excellence Fund (BrainsCAN) ; Canadian Institute of Health Research ; NSERC ; Weston Brain Institute (Canada) |
PMID:31825307 | Free, Freely available | SCR_021549, SCR_021598, r3d100013886, biotools:Mousebytes | https://bio.tools/MouseBytes, https://edspace.american.edu/openbehavior/project/touchscreen-cognition-mousebytes/, https://doi.org/10.17616/R31NJN7I | SCR_017904 | MouseBytes | 2026-09-19 12:53:44 | 4 | |||||
|
Drishti Resource Report Resource Website 10+ mentions |
Drishti (RRID:SCR_017999) | data processing software, data visualization software, software application, software resource | Open source scientific visualisation software. Multi platform, volume exploration and presentation software. Used for visualising volumetric data, such as tomography data, electron microscopy data, etc. | Visualization, volumetric data, tomography, electron microscopy, data | Free, Available for download, Freely available | SCR_017999 | 2026-09-19 12:53:45 | 21 | |||||||||||
|
VG Studio MAX Resource Report Resource Website 10+ mentions |
VG Studio MAX (RRID:SCR_017997) | data analysis software, data processing software, data visualization software, software application, software resource | Software tool for analysis and processing of µCT data, e.g. compiling virtual 3D models of morphological structures in site by Volume Graphics GmbH. Used for visualization of CT data. | Computed tomography, CT, data, analysis, processing, 3D, visualization, CT data | Restricted | SCR_017997 | VGStudio MAX, VG Studio MAX 3.1, VGStudio | 2026-09-19 12:53:45 | 11 | ||||||||||
|
webchem Resource Report Resource Website 1+ mentions |
webchem (RRID:SCR_017684) | data acquisition software, data processing software, software application, software resource | Open source software package for R programming language that is used to acquire chemical information from online data sources. Package contains functions that allow programmer to interact with webpages and APIs to retrieve chemical information. | R programming language, acquire, chemical, information, online, data, retrive | is listed by: CRAN | Free, Available for download, Freely available | https://docs.ropensci.org/webchem/, https://github.com/ropensci/webchem | SCR_017684 | Chemical Information from Web | 2026-09-19 12:53:44 | 1 | ||||||||
|
LibreOfficeCalc Resource Report Resource Website 10+ mentions |
LibreOfficeCalc (RRID:SCR_018013) | data analysis software, data management software, data processing software, data visualization software, software application, software resource | Open source software application with data analysis tools and spreadsheet templates used to manage, process and visualize data. LibreOffice Calc is spreadsheet component of LibreOffice software package developed by Document Foundation. | Data, analysis, spreadsheet, template, process, visualize | Free, Available for download, Freely available | SCR_018013 | 2026-09-19 12:53:45 | 33 | |||||||||||
|
NeuroChaT Resource Report Resource Website 1+ mentions |
NeuroChaT (RRID:SCR_018020) | data analysis software, data processing software, software application, software resource, software toolkit | Software open source python toolbox to analyse neuronal signals recorded in vivo in freely behaving animal, with particular emphasis on spatial coding. Can be used as application programming interface, or as general user interface, and is designed to help simplify adoption of standardised analyses for behavioural neurophysiology and facilitate open data sharing and collaboration between laboratories. | Neuronal signal, analysis, freely behaving animal, spatial coding, behavioural neurophysiology, data, bio.tools |
is listed by: Debian is listed by: bio.tools |
Wellcome Trust | DOI:12688/wellcomeopenres.15533.1 | Free, Available for download, Freely available | biotools:NeuroChat | https://bio.tools/NeuroChaT | SCR_018020 | Neuron Characterisation Toolbox | 2026-09-19 12:53:45 | 2 | |||||
|
CNV webstore Resource Report Resource Website 1+ mentions |
CNV webstore (RRID:SCR_018007) | data analysis software, data processing software, data storage software, data visualization software, software application, software resource, software toolkit | Integrated platform to analyse, store, visualise and interpret CopyNumber Variation data. Analysis is supported for Illumina data, all CNV-reports and raw data can be imported after third-party analysis. Platform to streamline processing and downstream interpretation of microarray data in clinical context. Analysis tools include CNV analysis, parent of origin and uniparental disomy detection. Interpretation tools include data visualisation, gene prioritisation, automated PubMed searching, linking data to several genome browsers and annotation of CNVs based on several public databases. | Copy number variation, data, Illumina, CNV report, raw data, microarray data, clinical, analysis, visualization, gene prioritisation, PubMed searching, annotation, | Belgian National Fund for Scientific Research - Flanders ; Marguerite-Marie Delacroix foundation |
PMID:21208430 | http://cnv-webstore.ua.ac.be/cnv-webstore/ | SCR_018007 | CNV-webstore, CNV-WebStore | 2026-09-19 12:53:45 | 1 | ||||||||
|
MicroDynamix Resource Report Resource Website 1+ mentions |
MicroDynamix (RRID:SCR_017671) | data processing software, image analysis software, image reconstruction software, software application, software resource | Software tool for dendritic spine analysis that enables to visualize and quantify spine morphology over time. After loading image data acquired at different time points from in vivo and in vitro imaging sessions, automatically aligns images in 3D, then reconstructs dendritic branches, detects dendritic spines, and identifies important metrics such as length, thickness, and overall number, for accurate quantitative comparison. | MBF Bioscience, dendritic, spine, analysis, visualize, quantify, morphology, image, data, 3D, reconstruct | Restricted | SCR_017671 | 2026-09-19 12:53:44 | 1 | |||||||||||
|
Vesalius Resource Report Resource Website |
Vesalius (RRID:SCR_017670) | data acquisition software, data processing software, image acquisition software, image analysis software, software application, software resource | Software tool as ultra fast, multi channel resonant scanning laser confocal microscope system for rapid 2D and 3D slide scanning, and cleared tissue imaging. System for imaging of slide mounted specimens and cleared tissue imaging. Utilizes strip mosaic scanning process to rapidly and accurately collect fluorescent image data while stage moves specimen continuously in y-axis. | MBF Bioscience, resonant, scanning, laser, confocal, microscope, system, 2D, 3D, slide, cleared, tissue, imaging, collect, fluorescent, image, data, | Restricted | SCR_017670 | 2026-09-19 12:53:44 | 0 | |||||||||||
|
wavethresh Resource Report Resource Website 1+ mentions |
wavethresh (RRID:SCR_024311) | software resource, software toolkit | Software R package to perform 1, 2 and 3D real and complex-valued wavelet transforms, nondecimated transforms, wavelet packet transforms, nondecimated wavelet packet transforms, multiple wavelet transforms, complex-valued wavelet transforms, wavelet shrinkage for various kinds of data, locally stationary wavelet time series, nonstationary multiscale transfer function modeling, density estimation. | perform 1D, 2D and 3D real and complex valued wavelet transforms, nondecimated transforms, wavelet packet transforms, nondecimated wavelet packet transforms, multiple wavelet transforms, complex-valued wavelet transforms, wavelet shrinkage, data, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/r-cran-wavethresh/ | SCR_024311 | 2026-09-19 12:56:23 | 3 | |||||||||
|
PMAP Resource Report Resource Website |
PMAP (RRID:SCR_000740) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 23, 2022. A database of proteolytic pathways. Its goal is to contribute to the scientific community and the understanding of proteolysis by providing better tools and data to researchers and medical researchers. | proteolytic pathway, proteolysis, database, data | has parent organization: Sanford Burnham Prebys Medical Discovery Institute | PMID:18842634 PMID:16448029 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-03318 | SCR_000740 | 2026-09-19 12:56:28 | 0 | ||||||||
|
Cancer Gene Index Resource Report Resource Website 1+ mentions |
Cancer Gene Index (RRID:SCR_001117) | data or information resource, database | THIS RESOURCE IS NO LONGER IN SERVICE, documented on November 17, 2016. A database of genes that have been experimentally associated with human cancer diseases and/or pharmacological compounds, the evidence of these associations, and relevant annotations on the data. | gene, cancer, genetics, pharmacology, disease, database, data |
is listed by: OMICtools has parent organization: National Cancer Institute has parent organization: National Cancer Institute |
Cancer | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_01575 | SCR_001117 | 2026-09-19 12:56:29 | 2 | ||||||||
|
EPDnew Resource Report Resource Website 10+ mentions |
EPDnew (RRID:SCR_002485) | HT-EPD, EPD | data or information resource, database | EPDnew databases are the result of merging Eukaryotic Promoter Database, EPD, promoters within house analysis of promoter specific high throughput data for selected organisms only. EPDnew is a set of species specific databases of experimentally validated promoters. | Promoter collection, eukaryotic promoter, promoter specific high throughput data, species specific data, experimentally validated promoter, promoter, data |
is listed by: OMICtools is related to: Eukaryotic Promoter Database is related to: Eukaryotic Promoter Database has parent organization: SIB Swiss Institute of Bioinformatics |
Swiss Government ; Swiss National Science Foundation |
PMID:27899657 PMID:23193273 |
Free, Available for download, Freely available | nif-0000-02806 | https://epd.expasy.org/ | SCR_002485 | , Eukaryotic Promoter Database, Eukaryotic Promoter Database new | 2026-09-19 12:56:36 | 27 | ||||
|
High Quality SNP Database Resource Report Resource Website 1+ mentions |
High Quality SNP Database (RRID:SCR_007230) | HQSNP DB | data or information resource, database | This is the HQSNP DB (high-quality SNP database) developed by CHG bioinformatics group. The high-quality SNP is defined as a SNP having allele frequency or genotyping data. The majority of the HQSNPs come from HapMap, others come from JSNP (Japanese SNP database), TSC (The SNP Consortium), Affymetrix 120K SNP, and Perlegen SNP. There are four kinds of SNP search you can do: * Get SNPs by dbSNP rs#: Choose this search if you have already selected a list of SNPs and you just want to get the SNP information. The program will generate a Excel file containing the SNP flanking sequence, variation, quality, function, etc. In the Excel file, there are 10 highlighted fields. You can send only those highlighted information to Illumina to get SNP pre-score. (The same fields are presented in other types of searches as well.) * Get gene SNPs by gene names: Choose this search if you have a list of gene names and you want to get the SNP information in these genes. The gene name can be official gene symbol, Ensembl gene ID, RefSeq accession ID, LocusLink number, etc. * Get gene SNPs by genome regions: Choose this search if you have a list of genome regions and you want to get all gene SNP information in these regions. The software will find all the Ensembl genes in the regions and find SNPs associated to each Ensembl gene. * Get genome scan SNPs by genome regions: Choose this search if you have a list of genome regions and you want to get evenly spaced SNPs in these regions. A SNP selection tool (SNPselector) was built upon HQSNP. It took snp ID list, gene name list, or genome region list as input and searched SNPs for genome scan or gene assoctiation study. It could take an optional ABI SNP file (exported from ABI SNP search web page) as input for checking whether the candidate SNP is available from ABI. It could also take an optional Illumina SNP pre-score file as input to select SNP for Illumina SNP assay. It generated results sorted by tag SNP in LD block, SNP quality, SNP function, SNP regulatory potential, and SNP mutation risk. SNPselector is now retired from public use (as of September 30, 2010). | snp, genotyping, data, allele, bioinformatics, genome, study, gene | has parent organization: Duke University; North Carolina; USA | nif-0000-30254 | SCR_007230 | SNPselector and High Quality SNP Database, CHG DAS Data | 2026-09-19 12:57:02 | 3 | ||||||||
|
CMKB Resource Report Resource Website 1+ mentions |
CMKB (RRID:SCR_007229) | CMKB | data or information resource, database | It is a database of keys facts about proteins, families, and complexes involved in cell migration. This ongoing project provides a large amount of automated and curated data, collected from numerous online resources that are updated monthly. These data include names, synonyms, sequence information, summaries, CMC research data, reagents, structures, as well as protein family and complex details. CMKB''s ultimate goal is to create a database that will enable the cell migration community to conveniently access significant information about molecules of interest. This will also serve as a stepping stone to pathway analysis and demonstrate how these molecules coordinate with one another during cell adhesion and movement. Sponsors: This resource is supported by the Cell Migration Consortium. | cell, migration, knowledgebase, database, protein, family, data, sequence, synonyms, research, reagent, structure, protein, molecule, interest, pathway, adhesion, movement | nif-0000-30312 | SCR_007229 | Cell Migration Knowledgebase, The Cell Migration Knowledgebase | 2026-09-19 12:57:02 | 1 | |||||||||
|
Open Regulatory Annotation Database Resource Report Resource Website 50+ mentions |
Open Regulatory Annotation Database (RRID:SCR_007835) | ORegAnno | data or information resource, database | Open source, open access database and literature curation system for community based annotation of experimentally identified DNA regulatory regions, transcription factor binding sites and regulatory variants. Automatically cross referenced against PubMED, Entrez Gene, EnsEMBL, dbSNP, eVOC: Cell type ontology, and Taxonomy database. Community driven resource for curated regulatory annotation. | Collection, annotation, curated, experimentally, identified, DNA, regulatory, region, element, transcript, factor, binding, site, regulatory, variant, data, FASEB list |
has parent organization: University of Manchester; Manchester; United Kingdom works with: PubMed works with: Entrez Gene works with: Ensembl works with: dbSNP |
American Cancer Society ; BioSapiens Network of Excellence ; British Columbia Cancer Foundation ; Canadian Institutes of Health Research ; Edward Mallinckrodt ; Jr. Foundation ; European Molecular Biology Laboratory ; European Network of Excellence ; Genome British Columbia ; Genome Canada ; Marie Curie Early Stage Research Training Fellowship ; Michael Smith Foundation for Health Research ; Natural Sciences and Engineering Research Council ; NCI K22 CA188163; NHGRI K99 HG007940; NHGRI R01 HG008150; NIMH R01 MH101814; Pleiades Promoter Project ; Research Foundation – Flanders ; Swedish Research Council |
PMID:18006570 PMID:26578589 |
Free, Freely available | nif-0000-03223, r3d100010656 | http://www.oreganno.org/, https://doi.org/10.17616/R3DG70 | SCR_007835 | Open REGulatory ANNOtation, ORegAnno 3.0 | 2026-09-19 12:57:11 | 88 | ||||
|
LEGER: the post-genome Database for Listeria Research Resource Report Resource Website 1+ mentions |
LEGER: the post-genome Database for Listeria Research (RRID:SCR_007760) | data or information resource, database | Knowledge database and visualization tool for comparative genomics of pathogenic and non-pathogenic Listeria species.Provides information on gene functions (as annotated or supposed by literature from homologous organisms) , protein expression levels under defined experimental conditions ,subcellular localization of proteins (expected and/or experimentally validated) , biological meaning of genes and proteins based on KEGG, InterPro and Gene Ontology. | Proteome, functional, genome, data, protein, expression, subcellular, localization | German Bundesministerium für Bildung und Forschung (BMBF) | PMID:16381897 | Free, Freely available | nif-0000-03077 | SCR_007760 | Proteome Database LEGER | 2026-09-19 12:57:09 | 2 |
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 dkNET Resources search. From here you can search through a compilation of resources used by dkNET and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that dkNET 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 dkNET then you can log in from here to get additional features in dkNET 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 dkNET 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.
The NIDDK Information Network (dkNET) serves the needs of basic and clinical investigators by providing seamless access to large pools of data and research resources relevant to the mission of The National Institute of Diabetes Digestive and Kidney Diseases (NIDDK). dkNET is hosted at University of California San Diego, and is supported by NIH NIDDK grant U24DK097771.
Email: info_at_ dknet.org
