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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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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 | 2026-08-29 11:27:48 | 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 | 2026-08-29 11:28:20 | 1 | ||||||||
|
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 | 2026-08-29 11:28:07 | 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 | 2026-08-29 11:28:20 | 2 | ||||||||
|
UpSet Resource Report Resource Website 10+ mentions |
UpSet (RRID:SCR_022731) | data analysis software, data processing software, data visualization software, software application, software resource | Software tool to visualize set intersections in matrix layout. Interactive, web based visualization technique designed to analyze set based data. Visualizes both, set intersections and their properties, and elements in dataset. Used for quantitative analysis of data with more than three sets. | visualize set intersections, matrix layout, intersecting sets, more than three sets quantitative data analysis | Air Force Research Laboratory ; Austrian Science Fund ; DARPA ; NHGRI K99 HG007583 |
PMID:26356912 | Free, Available for download, Freely available | https://github.com/VCG/upset | SCR_022731 | UpSet Plot | 2026-08-29 11:28:07 | 16 | |||||||
|
VirtualPlant Resource Report Resource Website 1+ mentions |
VirtualPlant (RRID:SCR_022576) | data access protocol, software resource, web service | Software platform to support systems biology research. Integrates genomic data and provides visualization and analysis tools for exploration of genomic data. Provides tools to generate biological hypotheses. | genomic data integration, support systems biology, genomic data visualization and analysis | FONDECYT ; Grape Genomics ; Millennium Nucleus for Plant Functional Genomics ; NIGMS 5F32GM75600; NIGMS R01 GM 032877; NSF DBI 0445666; NSF IOB 0519985; NSF MCB–0209754 |
PMID:20007449 | Free, Available for download, Freely available | SCR_022576 | VirtualPlant 1.3 | 2026-08-29 11:28:19 | 3 | ||||||||
|
Thermo Fisher: Applied Biosystems: SimpliAmp Thermal Cycler Resource Report Resource Website 1+ mentions |
Thermo Fisher: Applied Biosystems: SimpliAmp Thermal Cycler (RRID:SCR_023004) | instrument resource | Bentchtop Thermal Cycler for everyday PCR. Features innovative, safe heated lid and large LCD color touch screen. | Instrument, Equipment, USEDit, PCR, benchtop Thermal Cycler, Thermal Cycler | is listed by: USEDit | SCR_023004 | SimpliAmp™ Thermal Cycler | 2026-08-29 11:28:13 | 4 | ||||||||||
|
BICCN Imaging and analysis Techniques to Construct Cell Census Atlas of Human Brain Resource Report Resource Website 1+ mentions |
BICCN Imaging and analysis Techniques to Construct Cell Census Atlas of Human Brain (RRID:SCR_023000) | consortium, data or information resource, organization portal, portal, project portal | Project to develop and utilize imaging infrastructure to create human brain cell census and instantiate it in coordinate system that will enable immediate impact of all in vivo MRI studies of human brain. Consortium for creating cellular census of human cerebral cortex. | BRAIN Initiative Cell Census Network, imaging and analysis, construct cell census of human brain, creating cellular census, human cerebral cortex | is organization facet of: BICCN | DOI:10.1101/2021.10.20.464979 | Free, Freely available | SCR_023000 | 2026-08-29 11:28:22 | 2 | |||||||||
|
International Brain Laboratory Data Resource Report Resource Website 1+ mentions |
International Brain Laboratory Data (RRID:SCR_022946) | IBL Data | data or information resource | Data portal hosting access to behavioral data sets generated by International Brain Laboratory aiming to understand brain functions underlying decision making. Datasets are acquired in neuroscience laboratories performing experimental work. In each of these laboratories, mice are first trained in IBL decision making task following standardized training pipeline. | Neuropixels, International Brain Laboratory, neuroscience virtual laboratory, trained mice, standardized training pipeline, behavioral data sets | Free, Freely available | https://github.com/int-brain-lab | SCR_022946 | 2026-08-29 11:28:21 | 1 | |||||||||
|
EmaCalc Resource Report Resource Website 1+ mentions |
EmaCalc (RRID:SCR_022943) | data analysis software, data processing software, software application, software resource | Software package in Python for statistical analysis of Ecological Momentary Assessment data. | Ecological Momentary Assessment data analysis, Ecological Momentary Assessment, EMA | Free, Available for download, Freely available | SCR_022943 | 2026-08-29 11:28:13 | 1 | |||||||||||
|
MRIQC Resource Report Resource Website 10+ mentions |
MRIQC (RRID:SCR_022942) | data processing software, software application, software resource, workflow software | Software tool as quality assurance workflow for Brain Imaging Data Structure compliant anatomical and functional MRI datasets. Used to extract no-reference image quality metrics from structural and functional magnetic resonance imaging data. | Image quality metrics, brain imaging data structure, quality assurance workflow, BIDS compliant, anatomical and functional MRI datasets, MRI datasets | Laura and John Arnold Foundation ; Swiss National Science Foundation |
PMID:28945803 | Free, Available for download, Freely available | https://github.com/nipreps/mriqc | SCR_022942 | Image Quality in MRI | 2026-08-29 11:28:21 | 26 | |||||||
|
CytoTRACE Resource Report Resource Website 100+ mentions |
CytoTRACE (RRID:SCR_022828) | simulation software, software application, software resource | Software tool that predicts differentiation state of cells from single cell RNA sequencing data. Used for predicting differentiation states from scRNA-seq data. | differentiation state of cells, single cell RNA sequencing data, predicting differentiation states, scRNA-seq data | National Science Foundation Graduate Research Fellowship ; NCI R00CA187192; NCI R01CA100225; Stanford Bio-X Bowes Graduate Student Fellowship ; Stanford Bio-X Interdisciplinary Initiatives Seed Grants Program ; Stanford Medical Science Training Program ; Stinehart Reed foundation ; U.S. Department of Defense ; Virginia and D.K. Ludwig Fund for Cancer Research |
PMID:31974247 | Free, Freely available | SCR_022828 | Cellular (Cyto) Trajectory Reconstruction Analysis using gene Counts and Expression | 2026-08-29 11:28:21 | 170 | ||||||||
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Plant mPLoc Resource Report Resource Website 100+ mentions |
Plant mPLoc (RRID:SCR_023014) | data access protocol, software resource, web service | Web application for predicting subcellular localization of plant proteins including those with multiple sites.Top Down Strategy to Augment Power for Predicting Plant Protein Subcellular Localization. | Predicting Plant Protein Subcellular Localization, predicting subcellular localization, plant proteins, | National Natural Science Foundation of China ; Science and Technology Commission of Shanghai Municipality ; Shanghai Pujiang Program |
PMID:20596258 | Free, Freely available | SCR_023014 | Plant-mPLoc | 2026-08-29 11:28:22 | 362 | ||||||||
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Multi Loc2 Resource Report Resource Website 1+ mentions |
Multi Loc2 (RRID:SCR_023013) | data access protocol, software resource, web service | Web application for integrating phylogeny and Gene Ontology terms into subcellular protein colalization prediction.Extensive high performance subcellular protein localization prediction system. | subcellular protein localization, prediction system, integrating phylogeny and Gene Ontology terms, subcellular protein colalization prediction | PMID:19723330 | Free, Freely available | SCR_023013 | MultiLoc2 | 2026-08-29 11:28:13 | 5 | |||||||||
|
ModelRisk Resource Report Resource Website 1+ mentions |
ModelRisk (RRID:SCR_022836) | simulation software, software application, software resource | Monte Carlo simulation software that makes quantitative risk analysis intuitive. Monte Carlo simulation Excel add-in that allows user to include uncertainty in their spreadsheet models. | Monte Carlo simulation, Excel add-in, quantitative risk analysis intuitive | Restricted | SCR_022836 | 2026-08-29 11:28:21 | 2 | |||||||||||
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Pi USB Cam project Resource Report Resource Website |
Pi USB Cam project (RRID:SCR_022834) | data or information resource, instrument resource, portal, project portal | Project related to video recording.Provides system for high throughput video capture. Pi USB Cam system includes low cost Raspberry Pi microcomputer, DIY electronics peripherals, freely available open-source firmware, and custom 3D-printed casings. | OpenBehavior, Instrument, video capture, Raspberry Pi microcomputer, DIY electronics peripherals |
is listed by: OpenBehavior has parent organization: University of Illinois at Chicago; Illinois; USA |
DOI:10.1523/ENEURO.0224-22.2022 | Free, Freely available | SCR_022834 | Pi USB Cam system, Pi USB Cam | 2026-08-29 11:28:21 | 0 | ||||||||
|
Qualitative Data Repository Resource Report Resource Website 1+ mentions |
Qualitative Data Repository (RRID:SCR_022833) | QDR | data repository, service resource, storage service resource | Archive for storing and sharing digital data (and accompanying documentation) generated or collected through qualitative and multi method research in social sciences. QDR provides data management consulting services and actively curates all data projects, maintaining value and usefulness of data over time, and ensuring their availability and findability for re-use. | FAIR, social sciences data, storing and sharing digital data, CoreTrustSeal standards |
is used by: NIH Heal Project is listed by: re3data.org is listed by: DataCite is listed by: FAIRsharing |
Free, Freely available | DOI:10.5064, DOI:10.25504/FAIRsharing.bmz5ap, r3d100011038, DOI:10.17616/r3cs51 | https://www.re3data.org/repository/r3d100011038, https://doi.org/10.17616/r3cs51, https://doi.org/10.5064/, https://dx.doi.org/10.5064/, https://fairsharing.org/10.25504/FAIRsharing.bmz5ap, https://doi.org/10.17616/R3CS51 | SCR_022833 | Qualitative Data Repository at Syracuse University | 2026-08-29 11:28:10 | 6 | ||||||
|
SyRI Resource Report Resource Website 10+ mentions |
SyRI (RRID:SCR_023008) | SyRI | data analysis software, data processing software, software application, software resource | SyRI compares alignments between two chromosome level assemblies and identifies synteny and structural rearrangements. | Synteny identifier, rearrangement identifier, compare alignments, two chromosome level assemblies, structural rearrangements | German Federal Ministry of Education and Research | DOI:10.1186/s13059-019-1911-0 | Free, Available for download, Freely available | SCR_023008 | Synteny and Rearrangement Identifier | 2026-08-29 11:28:13 | 43 | |||||||
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scShapes Resource Report Resource Website 1+ mentions |
scShapes (RRID:SCR_022838) | data analysis software, data processing software, software application, software resource | Software tool as statistical framework for identifying distribution shapes in single-cell RNA-sequencing data. | Differential distributions, single-cell RNA-sequencing, zero-inflation, scRNA-seq data, modeling gene expression read counts | DOI:10.1101/2022.02.13.480299 | Free, Available for download, Freely available | SCR_022838 | 2026-08-29 11:27:50 | 1 | ||||||||||
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atRISK Resource Report Resource Website 1+ mentions |
atRISK (RRID:SCR_022837) | simulation software, software application, software resource | Software is add-in tool for Microsoft Excel that computes and tracks many different possible scenarios in model using Monte Carlo simulation.Helps make better decisions through risk modeling and analysis. | Monte Carlo simulation, risk modeling and analysis, Palisade | Restricted | SCR_022837 | @RISK, Palisade @RISK | 2026-08-29 11:28:11 | 3 |
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