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 | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
HetMatPy Resource Report Resource Website 1+ mentions |
HetMatPy (RRID:SCR_023409) | network analysis software, data analysis software, software application, software resource, data processing software | Software Python package for matrix storage and operations on hetnets. Enables identifying relevant network connections between set of query nodes. | Hetionet, matrix storage, operations on hetnets, hetnets, heterogeneous networks, | Gordon and Betty Moore Foundation ; NHGRI R01 HG010067; NCI R01 CA237170 |
PMID:36711546 | Free, Available for download, Freely available | SCR_023409 | hetmatpy | 2026-08-11 09:44:27 | 1 | ||||||||
|
pillow Resource Report Resource Website 10+ mentions |
pillow (RRID:SCR_023337) | software toolkit, software resource, software library | Software Python Imaging Library adds image processing capabilities to your Python interpreter. This library provides extensive file format support, efficient internal representation, and image processing capabilities. Core image library is designed for fast access to data stored in few basic pixel formats. It should provide solid foundation for general image processing tool. | Python Imaging Library, image processing capabilities, foundation for general image processing, | Free, Available for download, Freely available | SCR_023337 | 2026-08-11 09:44:32 | 13 | |||||||||||
|
Global Alzheimers Association Interaction Network Resource Report Resource Website 10+ mentions |
Global Alzheimers Association Interaction Network (RRID:SCR_023699) | GAAIN | data or information resource, topical portal, portal, disease-related portal | Open access integrated research platform, which links scientists, shared data, and analysis tools to accelerate Alzheimer’s disease research, disease preventions, treatments and cure. Unites diverse and geographically distributed network of data partners to foster cohort discovery, collaboration and sharing. Researchers can discover clinical, genetic, imaging and other data collected across many independent studies. | USC Mark and Mary Stevens Neuroimaging and Informatics Institute, Alzheimer’s disease research, disease preventions, treatments and cure, network of data partners, cohort discovery, collaboration and sharing, clinical data, genetic data, imaging data, Alzheimer data discovery, | has parent organization: University of Southern California; Los Angeles; USA | Alzheimer’s disease | Alzheimer Association | Free, Freely available | SCR_023699 | 2026-08-11 09:44:37 | 30 | |||||||
|
mia Resource Report Resource Website 10+ mentions |
mia (RRID:SCR_023619) | data analysis software, data processing software, software resource, software application | Software R package with several tools for microbiome data analysis. | microbiome data, microbiome data analysis, | is related to: R Project for Statistical Computing | Free, Available for download, Freely available | https://github.com/microbiome/mia | SCR_023619 | 2026-08-11 09:44:40 | 10 | |||||||||
|
Cancer Genome Interpreter Resource Report Resource Website 10+ mentions |
Cancer Genome Interpreter (RRID:SCR_023752) | CGI | web service, software resource, data access protocol | Platform that systematizes interpretation of cancer genomes and makes it automatic. Web tool to annotate genomic alterations and interpret their possible role in tumorigenesis and in response to anti cancer therapies. Used to support identification of tumor alterations that drive disease and/or which may be therapeutically actionable. Analyses mutations including single nucleotide changes and small insertions/deletions, copy number alterations including gene amplifications and deletions and translocations. | cancer genomes, annotate genomic alterations, tumor alterations identification, mutations analysis, single nucleotide change, copy number alteration, gene amplifications, gene deletions, gene translocation, | European Union Horizon 2020 ; European Research Council ; Spanish Ministry of Economy and Competitiveness ; CERCA |
DOI:10.1101/140475 | Free, Freely available | SCR_023752 | 2026-08-11 09:44:30 | 21 | ||||||||
|
ViewPoint MicroZebraLab Resource Report Resource Website 1+ mentions |
ViewPoint MicroZebraLab (RRID:SCR_023750) | software application, data acquisition software, data processing software, software resource | Software tool to extract cardiovascular parameters from transmitted light videos of zebrafish embryos or larvae. Used to investigate live and in non-invasive way scope of zebrafish larvae physiological parameters. Measures heartbeat and blood flow. | ViewPoint, extract cardiovascular parameters, transmitted light videos, zebrafish embryos video, larvae video, physiological parameters, heartbeat measurement, blood flow measurement, | Restricted | SCR_023750 | MicroZebraLab | 2026-08-11 09:44:38 | 1 | ||||||||||
|
KinasePhos 3.0 Resource Report Resource Website 1+ mentions |
KinasePhos 3.0 (RRID:SCR_023595) | software application, simulation software, software resource | Software tool for redesign and expansion of prediction on kinase specific phosphorylation sites. Machine learning based kinase specific phosphorylation site prediction tool. | redesign and expansion of prediction, kinase specific phosphorylation sites, kinase specific phosphorylation site prediction, site prediction, kinase specific phosphorylation, | National Natural Science Foundation of China ; Science ; Technology and Innovation Commission of Shenzhen Municipality ; Guangdong Province Basic and Applied Basic Research Fund ; Ganghong Young Scholar Development Fund ; Warshel Institute for Computational Biology |
PMID:35781048 | Free, Available for download, Freely available | https://github.com/tom-209/KinasePhos-3.0-executable-file | SCR_023595 | 2026-08-11 09:44:28 | 3 | ||||||||
|
BlobTools2 Resource Report Resource Website 100+ mentions |
BlobTools2 (RRID:SCR_023351) | data analysis software, data processing software, software resource, software application | Software suite for identifying and isolating non-target data in draft and publicly available genome assemblies. Used to process assembly, read and analysis files for fully reproducible interactive exploration in browser-based Viewer. Used for interactive quality assessment of genome assemblies .BlobTools2 is reimplementation of BlobTools, written in Python 3 with fully modular design to make creating new datasets and adding additional analysis types easier. | interactive quality assessment, genome assemblies, identifying and isolating non-target data, genome, QC, filtering, process assembly, read and analysis files, |
is related to: Blobtools is related to: Blobtoolkit |
BBSRC Bioinformatics and Biological Resources fund | PMID:32071071 | Free, Available for download, Freely available | https://github.com/blobtoolkit/blobtoolkit | SCR_023351 | blobtoolkit | 2026-08-11 09:44:26 | 383 | ||||||
|
BigSeqKit Resource Report Resource Website 1+ mentions |
BigSeqKit (RRID:SCR_023592) | software toolkit, software resource, software library | Software parallel Big Data toolkit to process FASTA and FASTQ files at scale. Used to manipulate FASTA/Q files at scale with speed and scalability at its core. | FASTA file, Q file, file manipulation, process FASTA and FASTQ files, | Free, Available for download, Freely available | SCR_023592 | 2026-08-11 09:44:40 | 1 | |||||||||||
|
TIGER Data Portal Resource Report Resource Website 10+ mentions |
TIGER Data Portal (RRID:SCR_023626) | data or information resource, topical portal, portal, disease-related portal | Resource enables integrative exploration of genetic and epigenetic basis of development of Type 2 Diabetes, together with other associated functional, molecular and clinical data, centered in biology and role of pancreatic beta cells.The gene expression regulatory variation landscape of human pancreatic islets. | Type 2 Diabetes, genetic and epigenetic, functional data, molecular data, clinical data, pancreatic beta cells. | is related to: T2DSystems | Type 2 Diabetes | European Union Horizon 2020 ; Spanish government ; Swiss State Secretariat for Education‚ Research and Innovation ; American Diabetes Association Innovative and Clinical Translational Award ; Research England ; Wellcome Trust ; NIDDK U01 DK105535; NIDDK U01 DK085545 |
PMID:34644572 | SCR_023626 | Translational Human Pancreatic Islet Genotype Tissue-Expression Resource | 2026-08-11 09:44:28 | 23 | |||||||
|
Zeiss Zen Lite Resource Report Resource Website 1000+ mentions |
Zeiss Zen Lite (RRID:SCR_023747) | data analysis software, software application, data acquisition software, software resource, data processing software | Software tool for basic image acquisition and analysis. Zeiss ZEN microscopy software to control of axiocam microscope cameras, image transformation and measurements, image processing, image alignment for correlative microscopy, various visualization options. | Zeiss, ZEN microscopy, image acquisition and analysis, axiocam microscope camera control, image transformation and measurements, image processing, image alignment, visualization, | SCR_023747 | ZEISS ZEN lite | 2026-08-11 09:44:29 | 1027 | |||||||||||
|
RIsearch Resource Report Resource Website 1+ mentions |
RIsearch (RRID:SCR_023503) | software application, simulation software, software resource | Software tool for prediction of RNA–RNA, RNA–DNA, and DNA–DNA interactions. Both RIsearch1 and RIsearch2 enable quick localisation of potential near complementary interactions between given query and target sequences. RIsearch1 performs computation with whole sequences. RIsearch2 focuses on perfect complementary seed regions and extends them on both ends. User defined seed and extension constraints makes RIsearch2 applicable to all kinds of interaction predictions (e.g., siRNA and Cas9–gRNA off-target predictions). | interaction predictions, RNA–RNA interactions, RNA–DNA interactions, DNA–DNA interactions, | Danish Council for Independent Research ; Danish Council for Strategic Research ; Danish Center for Scientific Computing ; Innovation Fund Denmark |
PMID:22923300 PMID:28108657 |
Free, Available for download, Freely available | SCR_023503 | RIsearch2, RIsearch1 | 2026-08-11 09:44:35 | 5 | ||||||||
|
X2K Web Resource Report Resource Website 10+ mentions |
X2K Web (RRID:SCR_023624) | X2K | web service, software resource, data access protocol | Web service to predict involvement of upstream cell signaling pathways, given signature of differentially expressed genes. Used to linking expression signatures to upstream cell signaling networks. | predicts involvement of upstream cell signaling pathways, differentially expressed genes, linking expression signatures, upstream cell signaling networks, | has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA | NHLBI U54 HL127624; NCI U24 CA224260; NIH Office of the Director OT3 OD025467 |
PMID:29800326 | Free, Freely available | https://github.com/MaayanLab/x2k_web | SCR_023624 | eXpression2Kinases (X2K) Web | 2026-08-11 09:44:36 | 25 | |||||
|
UpSetPlot Resource Report Resource Website 1+ mentions |
UpSetPlot (RRID:SCR_023225) | software application, data processing software, software resource, data visualization software | Software Python implementation of UpSet plots to visualize set overlaps. | UpSet plots, Python, visualize set overlaps, | Austrian Science Fund ; Air Force Research Laboratory ; DARPA ; NHGRI K99 HG007583 |
PMID:26356912 | Free, Available for download, Freely available | SCR_023225 | 2026-08-11 09:44:34 | 7 | |||||||||
|
Diabetes Data and Hypothesis Hub Resource Report Resource Website 1+ mentions |
Diabetes Data and Hypothesis Hub (RRID:SCR_023629) | D2H2 | portal, topical portal, data or information resource, database, disease-related portal | Platform that facilitates data driven hypothesis generation for diabetes and related metabolic disorder research community. Curated transcriptomics datasets from various Type 2 Diabetes studies are made available for download, visualization, and enrichment analysis. | diabetes, metabolic disorder, diabetes related metabolic disorder, transcriptomics datasets, |
is listed by: NIDDK Information Network (dkNET) has parent organization: University of Wisconsin-Madison; Wisconsin; USA has parent organization: Icahn School of Medicine at Mount Sinai; New York; USA |
Type 2 Diabetes | Free, Freely available | SCR_023629 | Diabetes Data and Hypothesis Hub (D2H2) | 2026-08-11 09:44:40 | 2 | |||||||
|
Korea Statistical Information Service Resource Report Resource Website 50+ mentions |
Korea Statistical Information Service (RRID:SCR_023565) | data or information resource, web service, software resource, data access protocol | Republic of Korea e-Government platform for major domestic, international and North Korean statistics. Web service provides official statistics produced by statistical agencies covering more than 500 subject matters as well as the latest data on international finance and economy from international organizations i.e. IMF, World Bank, OECD. | Korean statistics, public data, international finance and economy, | Free, Freely available | SCR_023565 | KOSIS | 2026-08-11 09:44:36 | 72 | ||||||||||
|
MetaFluor Fluorescence Ratio Imaging Software Resource Report Resource Website 1+ mentions |
MetaFluor Fluorescence Ratio Imaging Software (RRID:SCR_014331) | portal, topical portal, data or information resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on June 1, 2023. Software designed to take single or multi-wavelength intracellular ion measurements an provide simultaneous display of the raw data, ratio image, graphs of intensities, ratios, ion concentrations, and a non-ratiometric image for microscope techniques such as a brightfield or phase-contrast image. Two different ratiometric indicators can be imaged and measured simultaneously to provide greater insight to ion exchange and intracellular function regardless of dye loading concentrations, conditions, or emission intensities. | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014331 | 2026-08-11 09:42:48 | 2 | ||||||||||||
|
ObjectFinder Resource Report Resource Website 1+ mentions |
ObjectFinder (RRID:SCR_023319) | software application, data or information resource, 3d visualization software, image analysis software, 2d spatial image, image, software resource, 3d spatial image, data processing software, data visualization software | Software image analysis package for 3D object recognition in volumetric images developed for neuroscience research purposes. MATLAB application to recognize small structures in large volumetric image, plot their statistics and perform quantitative analysis such as nearest neighbor and colocalization analysis. Used to detect fluorescently labeled synapses in neuronal image stacks acquired using confocal or super resolution microscopes. | 3D object recognition, volumetric images, neuroscience, recognize small structures in large volumetric images, detect fluorescently labeled synapses, neuronal image stacks, | is related to: MATLAB | https://lucadellasantina.github.io/ObjectFinder/ | SCR_023319 | 2026-08-11 09:44:36 | 7 | ||||||||||
|
xyz2swc Resource Report Resource Website 1+ mentions |
xyz2swc (RRID:SCR_023317) | web service, software resource, data access protocol | Web service that converts all 30 reconstruction formats (and 65 variations) described in scientific literature into SWC standard. Service is available open-source through user-friendly browser interface and Application Programming Interface. | reconstruction formats conversion, formats conversion into SWC standard, SWC standard, | is related to: NeuroMorpho.Org | Free, Freely available | https://neuromorpho.org/xyz2swc/ | SCR_023317 | 2026-08-11 09:44:26 | 3 | |||||||||
|
Variant Prediction Tools Evaluation Resource Report Resource Website 1+ mentions |
Variant Prediction Tools Evaluation (RRID:SCR_023314) | VETA | data analysis software, data processing software, software resource, software application | Software tool that analyses performance of several variant prediction methods at different levels. Used to benchmark variant effect predictors from VCF files. | variant prediction, benchmark variant effect predictors, VCF files | is related to: Benchmark of human deep intronic variation | DOI:10.3389/fcvm.2022.975478 | Free, Available for download, Freely available | https://samtools.github.io/hts-specs/VCFv4.2.pdf | SCR_023314 | Variant prEdiction Tools evAluation | 2026-08-11 09:44:32 | 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 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:
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 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.
