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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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La Jolla Institute for Immunology Resource Report Resource Website 1+ mentions |
La Jolla Institute for Immunology (RRID:SCR_014845) | institution | Institute dedicated to research in immunology by utilizing the academic and research communities in the La Jolla area as well as technological advances in biomedical research, imaging and analysis. Specific topics include autoimmune disease, cancer, allergies, infectious diseases and inflammation. | la jolla, allergy, immunology, biomedical, research, autoimmune disease, cancer, allergy, infectious disease, inflammation |
is parent organization of: La Jolla Institute for Immunology Clinical Studies Core Facility is parent organization of: La Jolla Institute for Immunology Bioinformatics Core Facility is parent organization of: La Jolla Institute for Immunology Microscopy and Histology Core Facility is parent organization of: La Jolla Institute for Immunology Flow Cytometry Core Facility |
, Wikidata Q6463245, ISNI 0000 0004 0461 3162, GRID grid.185006.a | https://ror.org/05vkpd318 | SCR_014845 | 2026-09-12 12:58:22 | 3 | |||||||||
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University of Essex; England; United Kingdom Resource Report Resource Website 1+ mentions |
University of Essex; England; United Kingdom (RRID:SCR_014725) | university | A public research university in Colchester, Essex, England. The institution has degree programs that span the humanities, social sciences, and health. | university, public, research, humanities, social sciences, health, england, british | ISNI:0000 0001 0942 6946, Wikidata:Q1075104, grid.8356.8, Crossref funder ID:100010046 | https://ror.org/02nkf1q06 | SCR_014725 | 2026-09-12 12:58:21 | 2 | ||||||||||
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TeachingDemos Resource Report Resource Website 1+ mentions |
TeachingDemos (RRID:SCR_014689) | data or information resource, online course, portal, training resource | A portal and resource for tutorials on a variety of data analysis techniques, the use of tools such as MetaMapR, workshops on data visualization, and R code manuals. | is listed by: Metabolomics Workbench | Freely available | SCR_014689 | 2026-09-12 12:58:20 | 7 | |||||||||||
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Coherent X-Ray Imaging Data Bank (CXIDB) Resource Report Resource Website 10+ mentions |
Coherent X-Ray Imaging Data Bank (CXIDB) (RRID:SCR_014722) | CXIDB | data or information resource, data repository, database, service resource, storage service resource | Database of Coherent X-ray Imaging (CXI) experiments. This data is widely accessible to researchers worldwide. | coherent xray imaging, cxi, experiment, database, reproducibility |
uses: DataCite is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases |
Available to the research community | DOI:10.11577, r3d100011554 | https://doi.org/10.11577/, https://dx.doi.org/10.11577/ | SCR_014722 | Coherent X-ray Imaging Data Bank (CXIDB), CXIDB, Coherent X-ray Imaging Data Bank | 2026-09-12 12:58:21 | 23 | ||||||
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Johns Hopkins Research Data Repository Resource Report Resource Website 1+ mentions |
Johns Hopkins Research Data Repository (RRID:SCR_014728) | data repository, service resource, storage service resource | Open access repository for Johns Hopkins University researchers to share their research data. Data repository is administered by professional curators at JHU Data Services, who will work with depositors to enable future discovery and reuse of your data, and ensure your data is Findable, Accessible, Interoperable and Reusable (FAIR). Each dataset has citation and DOI, facilitating attribution, and connection to research publications. | FAIR, data collection, data set, public data, education, training, data archive | Free, Freely available | r3d100011836 | https://doi.org/10.17616/R3RW77 | https://archive.data.jhu.edu/dvn/, http://dms.data.jhu.edu/archiving-2/ | SCR_014728 | 2026-09-12 12:58:21 | 8 | ||||||||
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Prokka Resource Report Resource Website 1000+ mentions |
Prokka (RRID:SCR_014732) | data analysis software, data processing software, sequence analysis software, software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on February 28,2023. Software tool for the rapid annotation of prokaryotic genomes. It produces GFF3, GBK and SQN files that are ready for editing in Sequin and ultimately submitted to Genbank/DDJB/ENA. A typical 4 Mbp genome can be fully annotated in less than 10 minutes on a quad-core computer, and scales well to 32 core SMP systems., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | annotation, prokaryote, genome, prokaryotic genome, sequence analysis software, annotation software, bio.tools |
is listed by: Debian is listed by: bio.tools is listed by: OMICtools |
DOI:10.1093/bioinformatics/btu153 | THIS RESOURCE IS NO LONGER IN SERVICE | OMICS_04220, biotools:prokka | https://bio.tools/prokka, https://sources.debian.org/src/prokka/, https://sources.debian.org/src/prokka/ | SCR_014732 | 2026-09-12 12:58:21 | 4882 | |||||||
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CVODE Resource Report Resource Website 50+ mentions |
CVODE (RRID:SCR_014696) | data analysis software, data processing software, software application, software resource | Solver for stiff and nonstiff ordinary differential equation (ODE) systems (initial value problem), given in explicit form y' = f(t,y), based on Adams and BDF methods. It is one of the programs that makes up the Suite of Nonlinear and Differential/Algebraic Equation Solvers (SUNDIALS)., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | data analysis software, solver, equation solver, ordinary differential equation, differential equation, stiff, nonstiff | is listed by: SoftCite | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014696 | SUNDIALS CVODE | 2026-09-12 12:58:20 | 56 | |||||||||
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iBRAIN Resource Report Resource Website 1+ mentions |
iBRAIN (RRID:SCR_014691) | group | Brain research group affiliated with the Nanjing University of Aeronautics and Astronautics (NUAA) in China. The main research interests of iBRAIN include developing methods in machine learning, data mining, neural computation, and related areas for decoding brain functions or recognizing brain disease. Research related code and datasets can be found on the main site. | brain, human brain, brain disease, brain research, group, brain research group, machine learning, data mining, neural computation | Brain disease | Public | SCR_014691 | Intelligence BRain Analysis through Images and Networks (iBRAIN), Intelligence BRain Analysis through Images and Networks, Intelligence Brain Analysis Through Images and Networks | 2026-09-12 12:58:20 | 6 | |||||||||
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SparseTracer Resource Report Resource Website 1+ mentions |
SparseTracer (RRID:SCR_014736) | data analysis software, data processing software, software application, software resource | Software used to automatically trace single neurons. It supports VTK 3D visualization. | single neuron, automatic, trace, software, vtk, 3d visualization, vtk 3d visualization, bioinformatics | Free, Available for download | SCR_014736 | 2026-09-12 12:58:21 | 2 | |||||||||||
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SplitsTree Resource Report Resource Website 1000+ mentions |
SplitsTree (RRID:SCR_014734) | data analysis software, data processing software, data visualization software, software application, software resource | Application that uses molecular sequence data to compute unrooted phylogenetic networks. Given an alignment of sequences, a distance matrix, or a set of trees, the program will compute a phylogenetic tree or network using methods such as split decomposition, neighbor-net, consensus network, super networks methods or methods for computing hybridization or simple recombination networks., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | sequence data, unrooted phylogenetic network, phylogenetic network, phylogeny, data analysis software, data visualization software, software | THIS RESOURCE IS NO LONGER IN SERVICE | SCR_014734 | SplitsTree3, SplitsTree4 | 2026-09-12 12:58:21 | 1361 | ||||||||||
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SLiCAP Resource Report Resource Website |
SLiCAP (RRID:SCR_014742) | data analysis software, data processing software, software application, software resource, software toolkit | A software toolbox containing a symbolic linear circuit analysis program. It is a MATLAB application that helps set up and solve design equations of electronic circuits. | symbolic network simulation tool, symbolic linear circuit, analysis, electronic circuit, matlab, data analysis software, circuit | Open source, Available for download | SCR_014742 | Symbolic Linear Circuit Analysis | 2026-09-12 12:58:21 | 0 | ||||||||||
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Symbolic SPICE Resource Report Resource Website |
Symbolic SPICE (RRID:SCR_014743) | data analysis software, data processing software, software application, software resource | Analog circuit analyzer and approximator used as a pre-processor to find design formulas or as a post-processor to approximate design formulas. The program performs the .AC analysis in SPICE symbolically with optional numeric evaluation and user selected threshold approximation. | analog circuit, circuit analysis, circuit approximation, data analysis software, ac analysis, symbolic | is related to: Michigan State University; Michigan; USA | Demo available | SCR_014743 | 2026-09-12 12:58:21 | 0 | ||||||||||
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PePPER Prokaryote Promoter Prediction Resource Report Resource Website 10+ mentions |
PePPER Prokaryote Promoter Prediction (RRID:SCR_014740) | PePPER | data analysis software, data processing software, sequence analysis software, software application, software resource | A webserver for the prediction of prokaryote promoter elements and regulons. DNA in FASTA or plain format serve as input. A gene table can be included with the run. | promoter prediction objective, prokaryote, promoter, regulon, predict, sequence analysis software, web server | PMID:22747501 | Free, Web application | SCR_014740 | 2026-09-12 12:58:21 | 32 | |||||||||
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SCAM Resource Report Resource Website 10+ mentions |
SCAM (RRID:SCR_014741) | data analysis software, data processing software, software application, software resource, software toolkit | Software toolbox for deriving and solving circuit equations symbolically in MATLAB. | matlab, circuit equations, symbolic solving, derivation, circuit analysis | Open source, Available for download | SCR_014741 | Symbolic Circuit Analysis in Matlab, Symbolic Circuit Analysis in Matlab (SCAM) | 2026-09-12 12:58:21 | 43 | ||||||||||
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Adaptive Biotechnologies Resource Report Resource Website 10+ mentions |
Adaptive Biotechnologies (RRID:SCR_014709) | resource | Commercial organization which combines high-throughput sequencing and bioinformatics to profile T-cell and B-cell receptors. | high throughput, sequencing, bioinformatics, t cell, b cell, biotechnology | Commercially available | SCR_014709 | 2026-09-12 12:58:20 | 24 | |||||||||||
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Measures of Effect Size Toolbox Resource Report Resource Website 1+ mentions |
Measures of Effect Size Toolbox (RRID:SCR_014703) | MES | data analysis software, data processing software, software application, software resource | Matlab statistics toolbox allowing the computation of a wide range of measures of effect size. Four main toolbox functions cover common analysis designs, including two-sample-, oneway- and twoway- data sets as well as categorical data. Data may be repeated-measures. | matlab, statistics toolbox, measure of effect size, effect size, common analysis design, data analysis software | PMID:22082031 | Available for download | SCR_014703 | MES Toolbox | 2026-09-12 12:58:20 | 3 | ||||||||
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Tool for Tumor Progression Resource Report Resource Website 1+ mentions |
Tool for Tumor Progression (RRID:SCR_014700) | TTP | simulation software, software application, software resource | Software used to simulate tumor progression in various stages of growth in order to study the process' dynamics. The input can be fitness landscape, mutation rate, and cell division time. The output is growth dynamics and other relevant statistics, such as expected tumor detection time and expected appearance time of surviving mutants. The tool is implemented in Java and runs on all operating systems which run a Java Virtual Machine (JVM) of version 1.7 or above. | tumor, tumor progression, cancer, simulation, simulation software, tumor dynamics, tumor growth | Cancer | Available for download, Necessary libraries are included in the file | SCR_014700 | Tool for Tumor Progression (TTP) | 2026-09-12 12:58:20 | 1 | ||||||||
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Australian Data Archive Resource Report Resource Website 1+ mentions |
Australian Data Archive (RRID:SCR_014706) | data repository, service resource, storage service resource | A consortium of leading national Australian universities which collects and preserves digital research data and makes these data available for secondary analysis. The consortium provides a data catalogue comprised of seven sub-archives: Social Science, HIstorical, Indigenous, Longitudinal, Qualitative, Crime and Justice, and International. All users can browse and search the catalogue, view study and variable documentation, and download related material. Registered users can also analyze and visualize most data online and users who have completed the relevant undertaking form(s) can download entire studies or subsets of variables. Deposited data are processed, reviewed, and published for research use. | data archive, data catalogue, australia, digital research data |
is listed by: DataCite is listed by: re3data.org is listed by: FAIRsharing |
Available to the research community | DOI:10.26193, DOI:10.17616/R3DS3K, DOI:10.25504/FAIRsharing.sN8d9i | https://doi.org/10.26193, https://dx.doi.org/10.26193, http://doi.org/10.17616/R3DS3K, https://fairsharing.org/10.25504/FAIRsharing.sN8d9i | SCR_014706 | 2026-09-12 12:58:20 | 9 | ||||||||
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NMRbox Resource Report Resource Website 50+ mentions |
NMRbox (RRID:SCR_014827) | software resource, software toolkit, web application | Computing platform for biomolecular NMR available to not-for-profit or government users. It consists of a virtual machine (VM) provisioned with dozens of widely-used NMR software packages, and is available as a cloud-based Platform-as-a-Service (PaaS) or as a downloadable VM for local execution. | Nuclear Magnetic Resonance, nmr, spectra, computing platform, platform, virtual machine, cloud, software toolbox | NIGMS P41GM111135 | Account required | SCR_014827 | , Nuclear Magnetic Resonance box, NMRbox.org | 2026-09-12 12:58:22 | 92 | |||||||||
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Webulous Resource Report Resource Website 1+ mentions |
Webulous (RRID:SCR_014825) | software resource, web application | Server used to create spreadsheets with ontology based data validations. Webulous can process populated templates and transform them into OWL/RDF using design patterns expressed in OPPL. It also has an add-on with Google spreadsheets which supports loading templates from a Webulous server and allows users to submit populated spreadsheets back to the Webulous server for transformation into OWL. | server, ontology, data validation, owl, spreadsheet | Available for installation | SCR_014825 | 2026-09-12 12:58:22 | 2 |
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The data sets included in this resource are published in Kravitz et al, 2012. Distinct roles for direct and indirect pathway striatal neurons in reinforcement (Nat. Neurosci).
