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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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Adaptive Immune Receptor Repertoire Rearrangement Schema Resource Report Resource Website 1+ mentions |
Adaptive Immune Receptor Repertoire Rearrangement Schema (RRID:SCR_022592) | data or information resource, narrative resource, portal, standard specification, topical portal | Part of AIRR Data Model, defines annotations needed for rearrangements, which are sequences describing rearranged adaptive immune receptor chain (e.g., antibody heavy chain or TCR beta chain). Data for Rearrangement objects are stored as rows in tab delimited file and should be compatible with any TSV reader. Dataset is defined in this context as: TSV file, TSV with companion YAML file containing metadata, or directory containing multiple TSV files and YAML files. | AIRR Data Model, annotations needed for rearrangements, rearranged adaptive immune receptor chain sequences, | is related to: AIRR Data Commons | PMID:29144493 | Free, Freely available | https://fairsharing.org/FAIRsharing.zwjNAh | SCR_022592 | 2026-09-05 06:30:15 | 1 | ||||||||
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RefSeq non-redundant proteins Resource Report Resource Website 50+ mentions |
RefSeq non-redundant proteins (RRID:SCR_022748) | data or information resource | Non-redundant RefSeq protein records are currently provided for archaeal and bacterial RefSeq genomes, with exception of selected reference genomes, by NCBI prokaryotic genome annotation pipeline. This scope definition may change in the future to include additional RefSeq sub-kingdoms or other organism groups and some GenBank conceptual translation protein records may provide cross-links to RefSeq non-redundant proteins. | NIH, NLM, Non-redundant RefSeq protein records, RefSeq protein records, NCBI prokaryotic genome annotation, protein records |
is related to: RefSeq is related to: RefSeqGene |
Free, Freely available | SCR_022748 | 2026-09-05 06:30:16 | 55 | ||||||||||
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Artec 3D: Eva Fast 3D scanner Resource Report Resource Website |
Artec 3D: Eva Fast 3D scanner (RRID:SCR_022589) | instrument resource | 3D scanner for making quick, textured, and accurate 3D models of medium sized objects such as human bust, alloy wheel, or motorcycle exhaust system. Used for capturing objects of almost any kind, including objects with black and shiny surfaces. | Artec3D, 3D scanner, 3D models, medium sized objects, capturing objects, instrument, equipment, USEDit |
is listed by: USEDit is listed by: MfN Berlin Micro-CT Laboratory Core Facility |
Restricted | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/refs/heads/main/PDF/SCR_022589.pdf | SCR_022589 | 2026-09-05 06:30:15 | 0 | |||||||||
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Artec 3D: Space Spider Resource Report Resource Website 1+ mentions |
Artec 3D: Space Spider (RRID:SCR_022588) | instrument resource | 3D scanner based on blue light technology. Precision instrument for CAD users and engineers. Used for capturing small objects or intricate details of large industrial objects in high resolution, with accuracy and brilliant color. | Artec3D, 3D scanner, blue light technology, capturing small objects, intricate details of large industrial objects, instrument, equipment, USEDit |
is listed by: USEDit is listed by: MfN Berlin Micro-CT Laboratory Core Facility |
Restricted | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/refs/heads/main/PDF/SCR_022588.pdf | SCR_022588 | 2026-09-05 06:30:15 | 2 | |||||||||
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Surgisphere Resource Report Resource Website |
Surgisphere (RRID:SCR_022759) | organization | American healthcare analytics company established in 2008. Originally textbook marketing company, it came under scrutiny in May 2020 after it had provided large datasets of COVID-19 patients which were subsequently found to be extremely unreliable. The questionable data was used in studies published in The Lancet and The New England Journal of Medicine in May 2020. On 15 June 2020, company website was taken offline. | medical records, healthcare analytics company, unreliable datasets | SCR_022759 | 2026-09-05 06:30:16 | 0 | ||||||||||||
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ExonScan Web Server Resource Report Resource Website 1+ mentions |
ExonScan Web Server (RRID:SCR_022516) | data access protocol, software resource, web service | Software framework for modeling sequence motifs based on maximum entropy principle. | modeling sequence motifs, maximum entropy principle | has parent organization: MIT; Cambridge; Massachusetts; United States | PMID:15285897 | Free, Freely available | SCR_022516 | ExonScan | 2026-09-05 06:30:14 | 2 | ||||||||
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ShinyCell Resource Report Resource Website 10+ mentions |
ShinyCell (RRID:SCR_022756) | data processing software, data visualization software, software application, software resource | Software R package to create interactive Shiny based web applications to visualise single cell data via visualising cell information and/or gene expression on reduced dimensions e.g. UMAP, visualising coexpression of two genes on reduced dimensions, visualising distribution of continuous cell information e.g. nUMI / module scores using violin plots / box plots, visualising composition of different clusters / groups of cells using proportion plots and visualising expression of multiple genes using bubbleplots / heatmap.Shiny Interactive Web Apps for Single-Cell Data. | visualise single cell data, visualising cell information, gene expression on reduced dimensions, visualising coexpression of two genes on reduced dimensions, visualising distribution of continuous cell information | works with: Shiny | Free, Available for download, Freely available | SCR_022756 | 2026-09-05 06:30:16 | 24 | ||||||||||
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AIRR Community Resource Report Resource Website |
AIRR Community (RRID:SCR_022598) | data or information resource, narrative resource, portal, standard specification | Research driven group that is organizing and coordinating stakeholders in use of next generation sequencing technologies to study antibody/B-cell and T-cell receptor repertoires. Develops and promotes standards and recommendations for obtaining, analyzing, curating and comparing/sharing AIRR-seq datasets;using and validating tools for analyzing AIRR-seq data;relating AIRR-seq datasets to other “big data” sets, such as microarray, flow cytometric, and MiSeq and single-cell gene-expression data; legal and ethical issues involving use and sharing of AIRR-seq data sets derived from human sources. | next generation sequencing technologies use, study antibody, B-cell and T-cell receptor repertoires, standards and recommendations for AIRR-seq datasets | is related to: AIRR Data Commons | Free, Freely available | SCR_022598 | Adaptive Immune Receptor Repertoire Community, Adaptive Immune Receptor Repertoire Community of The Antibody Society | 2026-09-05 06:30:15 | 0 | |||||||||
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ComplexUpset Resource Report Resource Website 10+ mentions |
ComplexUpset (RRID:SCR_022752) | data analysis software, data processing software, software application, software resource | Software R package for visualization of intersecting sets. Used for quantitative analysis of sets, their intersections, and aggregates of intersections. Visualizes set intersections in matrix layout and introduces aggregates based on groupings and queries. | visualization of intersecting sets, set intSections in matrix layout, aggregates based on groupings and queries, quantitative analysis of sets |
uses: ggplot2 is listed by: CRAN |
Air Force Research Laboratory and DARPA ; Austrian Science Fund ; NHGRI K99 HG007583 |
PMID:26356912 | Free, Available for download, Freely available | SCR_022752 | 2026-09-05 06:30:16 | 25 | ||||||||
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ZDOCK Server Resource Report Resource Website 100+ mentions |
ZDOCK Server (RRID:SCR_022518) | data access protocol, software resource, web service | Web tool as protein docking server, based on rigid body docking programs ZDOCK and M-ZDOCK, to predict structures of protein-protein complexes and symmetric multimers. | Protein docking server, ZDOCK, M-ZDOCK, predict structures, protein-protein complexes, symmetric multimers | NIGMS GM084884 | PMID:24532726 | Free, Freely available | SCR_022518 | 2026-09-05 06:30:14 | 137 | |||||||||
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learnMSA Resource Report Resource Website 1+ mentions |
learnMSA (RRID:SCR_022572) | alignment software, data processing software, image analysis software, software application, software resource | Software tool as multiple sequence alignment formulated as statistical machine learning problem, where optimal profile hidden Markov model for potentially very large family of protein sequences is searched and alignment is decoded. | Multiple sequence alignment, protein sequences, statistical machine learning problem, hidden Markov model | Free, Available for download, Freely available | SCR_022572 | 2026-09-05 06:30:15 | 2 | |||||||||||
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sei Resource Report Resource Website 10+ mentions |
sei (RRID:SCR_022571) | data access protocol, software resource, web service | Web server for systematically predicting sequence regulatory activities and applying sequence information to human genetics data. Provides global map from any sequence to regulatory activities, as represented by sequence classes, and each sequence class integrates predictions for chromatin profiles like transcription factor, histone marks, and chromatin accessibility profiles across wide range of cell types. | systematically predicting sequence regulatory activities, applying sequence information, human genetics data, sequence class predictions | National Science Foundation Graduate Research Fellowship Program ; NHGRI R01HG005998; NHLBI U54HL117798; NIGMS R01GM071966 |
PMID:35817977 | Free, Available for download, Freely available | https://hb.flatironinstitute.org/sei | SCR_022571 | 2026-09-05 06:30:15 | 10 | ||||||||
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pMAT Resource Report Resource Website 1+ mentions |
pMAT (RRID:SCR_022570) | pMAT | data analysis software, data processing software, software application, software resource | Open source software suite for analysis of fiber photometry data. | fiber photometry data analysis, fiber photometry | NIDA DA043572 | PMID:33385438 | SCR_022570 | Photometry Modular Analysis Tool | 2026-09-05 06:30:15 | 8 | ||||||||
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Rphenograph Resource Report Resource Website 10+ mentions |
Rphenograph (RRID:SCR_022603) | data analysis software, data processing software, software application, software resource | Software R tool as simple R implementation of PhenoGraph algorithm, which is clustering method designed for high dimensional single cell data analysis. | R, high dimensional single cell data analysis, clustering method |
is related to: Phenograph is related to: CRAN is related to: R Project for Statistical Computing |
Free, Available for download, Freely available | SCR_022603 | 2026-09-05 06:30:15 | 29 | ||||||||||
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IBM SPSS Amos Resource Report Resource Website 10+ mentions |
IBM SPSS Amos (RRID:SCR_022686) | data analysis software, data processing software, software application, software resource | Structural equation modeling software helping support your research and theories by extending standard multivariate analysis methods, including regression, factor analysis, correlation and analysis of variance. | regression, factor analysis, correlation and analysis of variance | is related to: IBM SPSS Statistics | Restricted | SCR_022686 | SPSS Amos | 2026-09-05 06:30:16 | 10 | |||||||||
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Enhancing Quality In Preclinical Data Quality System Resource Report Resource Website 1+ mentions |
Enhancing Quality In Preclinical Data Quality System (RRID:SCR_022729) | data or information resource, narrative resource, standard specification | Preclinical research quality system that can be applied in public and private sectors to ensure that early drug development research proceeds along structured lines. Used for ensuring generation of reliable preclinical data. Proposes guidance on expectations for quality related measures, defines criteria for adequate processes like performance standards, and provides examples of how such measures can be developed and implemented. EQIPD certification was established by EQIPD consortium and is now managed by its legacy organisation GoEQIPD. | EQIPD certification, guidance on expectations, Enhancing Quality In Preclinical Data, EQIPD consortium, GoEQIPD, reliable preclinical data generation | PMID:34028353 | Free, Freely available | SCR_022729 | EQIPD Quality System | 2026-09-05 06:30:16 | 1 | |||||||||
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GE: Phoenix Nanotom S system Resource Report Resource Website 1+ mentions |
GE: Phoenix Nanotom S system (RRID:SCR_022582) | instrument resource | Nanofocus computed tomography system for applications in material science, precision injection moulding, micromechanics, electronics geology and biology. System includes nanofocus X-ray tube, precision mechanics and advanced software modules. Used for range of 3D CT applications., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | Phoenix nanotoms, nano ct system, nanofocus computed tomography, instrument, equipment, USEDit |
is listed by: MfN Berlin Micro-CT Laboratory Core Facility is related to: USEDit |
THIS RESOURCE IS NO LONGER IN SERVICE | SCR_022582 | Phoenix Nanotome S | 2026-09-05 06:30:15 | 8 | |||||||||
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Hexamer Additive Linear Resource Report Resource Website 1+ mentions |
Hexamer Additive Linear (RRID:SCR_022581) | HAL | data access protocol, software resource, web service | Web tool to predict effects of sequence variants on alternative splicing. Predicts changes in alternative 5' splice events as well as skipped exon events. | sequence variants on alternative splicing prediction, cassete exon, skipped exon events, changes in alternative 5' splice events, | Burroughs Wellcome Career Award at the Scientific Interface ; National Science Foundation Career Award |
DOI:10.1016/j.cell.2015.09.054 | Free, Freely available | SCR_022581 | 2026-09-05 06:30:15 | 1 | ||||||||
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NetShift Resource Report Resource Website 10+ mentions |
NetShift (RRID:SCR_022733) | data access protocol, software resource, web service | Web tool for identification of driver nodes between case control association networks.Methodology for understanding driver microbes from healthy and disease microbiome datasets. | Driver microbes, identification of driver nodes, case control association networks, driver nodes between networks | Academy of Scientific and Innovative Research ; CSIR-National Chemical Laboratory |
PMID:30287886 | Free, Freely available | SCR_022733 | Netshif | 2026-09-05 06:30:16 | 10 | ||||||||
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Epredia: CryoStar NX50 Cryostat Resource Report Resource Website 1+ mentions |
Epredia: CryoStar NX50 Cryostat (RRID:SCR_022732) | instrument resource | Manual cryostat designed to accommodate needs of routine clinical laboratory by offering form fitting ergonomic design, with optional height adjustment, vacutome and cold D disinfection. | Manual cryostat, ergonomic design, optional height adjustment, vacutome, cold D disinfection, USEDit | is listed by: USEDit | Commercially available | Model_Number_CryoStar_NX50 | SCR_022732 | Epredia™ CryoStar™ NX50 Cryostat, CryoStar NX50 Cryostat | 2026-09-05 06:30:16 | 2 |
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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.
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