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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
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C-IMMSIM Resource Report Resource Website 1+ mentions |
C-IMMSIM (RRID:SCR_018775) | data access protocol, software resource, service resource, web service | Web prediction tool for molecular binding in simulation of immune system. Agent based simulator of immune response that represents pathogens, as well as lymphocytes receptors, by means of their amino acid sequences and makes use of bioinformatics methods for T and B cell epitope prediction.Calculates immune response to generic pathogenic secondary structure. Allows users to submit antigen protein sequence and specify schedule of its injection as well as host haplotype. | Molecular binding prediction, molecular binding simulation, immune system, pathogen, lymphocyte receptor, amino acid sequence, T cell epitope prediction, B cell epitope prediction, calculate immune response, generic pathogenic secondary structure, antigen protein sequence, host haplotype, immunogenic part, invading pathogen | European Community | PMID:20419125 | Restricted | SCR_018775 | 2026-08-15 11:25:59 | 5 | |||||||||
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ODAM Resource Report Resource Website 1+ mentions |
ODAM (RRID:SCR_018774) | data management software, software repository, web service, software application, data access protocol, software resource | Software experimental data table management system to make research data accessible and available for reuse with minimal effort on part of data provider. Allows any scientist or data researcher to be able to explore dataset and then extract some or all of data according to their needs. Designed to manage experimental data tables in quick and easy way for users. | Experimental data tables, research data management, OpenAPI, FAIR Data principles, assessment, EDTMS, data management, bio.tools |
is listed by: Debian is listed by: bio.tools |
Free, Available for download, Freely available | BioTools:ODAM, biotools:ODAM | https://bio.tools/ODAM, https://bio.tools/ODAM, https://bio.tools/ODAM, https://bio.tools/ODAM | SCR_018774 | Open Data for Access and Mining | 2026-08-15 11:25:59 | 3 | |||||||
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Leica: DM4000 B Microscope Resource Report Resource Website 1+ mentions |
Leica: DM4000 B Microscope (RRID:SCR_018895) | instrument resource | Fluorescent microscope which supports fluorescence contrast techniques. This product is archived and has been replaced by the Leica DM4000 B LED. | Leica, fluorescent microscope, DM4000 B, microscope, instrument, equipment | is listed by: USEDit | Restricted | https://meyerinst.com/library/uploads/dm4000b.pdf | SCR_018895 | 2026-08-15 11:26:02 | 1 | |||||||||
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Millar: MPVS Ultra Pressure Volume Loop System Resource Report Resource Website |
Millar: MPVS Ultra Pressure Volume Loop System (RRID:SCR_018894) | instrument resource | Pressure volume loop system with seven available volume segments, range of gain settings, integrated internal ECG circuit and dual pressure amplifiers. System can be used in either large or small animal subjects, depending on which size catheter is used. | Millar, ultra pressure, pressure volume loop system, instrument, equipment | is listed by: USEDit | Restricted | SCR_018894 | Pressure Volume Loop System | 2026-08-15 11:26:00 | 0 | |||||||||
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Scalable Analytics for Brain Exploration Research Resource Report Resource Website 1+ mentions |
Scalable Analytics for Brain Exploration Research (RRID:SCR_018812) | SABER, saber | software toolkit, workflow software, data processing software, software application, software resource, software library | Library of containerized tools and workflow deployment system for enabling processing of large neuroimaging datasets. Provides canonical neuroimaging workflows specified in standard workflow language (CWL), integration with workflow execution engine (Airflow), imaging database (bossDB), and parameter database (Datajoint) to deploy workflows at scale, and tools to automate deployment and optimization of neuroimaging pipelines. | Running containerized workflow, large neuroimaging datasets, canonical neuroimaging workflow, neuroimaging pipeline deployment, neuroimaging pipeline optimization | is related to: Brain Observatory Storage Service and Database (BossDB) | NIMH R24 MH114799 | DOI:10.1101/615161v1.full | Free, Available for download, Freely available | SCR_018812 | 2026-08-15 11:26:00 | 1 | |||||||
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PHD SECONDARY STRUCTURE Resource Report Resource Website 1+ mentions |
PHD SECONDARY STRUCTURE (RRID:SCR_018778) | data access protocol, software resource, service resource, web service | Web tool for secondary structure prediction. Used for network protein sequence analysis. | Secondary structure prediction, network protein, protein sequence analysis, protein sequence, secondary structure predictor | Free, Freely available | SCR_018778 | 2026-08-15 11:25:59 | 2 | |||||||||||
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Muscle X Resource Report Resource Website 1+ mentions |
Muscle X (RRID:SCR_018811) | software toolkit, image analysis software, data processing software, software application, data analysis software, software resource | Software suite as collection of programs intended to assist with analyzing diffraction X-ray images. MuscleX diffraction X-ray image analyzing toolkit. Data reduction software for X-ray fiber diffraction data. | Diffraction analysis, x ray image, diffraction X-Ray image analysis, X-ray data, X-ray fiber diffraction data, data analysis, data reduction | has parent organization: Illinois Institute of Technology; Illinois; USA | Free, Available for download, Freely available | https://sourceforge.net/projects/musclex/files/ | SCR_018811 | MuscleX, Muscle X 1.14.12 | 2026-08-15 11:26:00 | 5 | ||||||||
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PSORT II Resource Report Resource Website 10+ mentions |
PSORT II (RRID:SCR_018772) | production service resource, web service, data access protocol, software resource, service resource, analysis service resource | Web tool for prediction of protein sorting signals and localization sites in amino acid sequencies. Recommended for animal/yeast sequences. Analyzes input sequence by applying stored rules for various sequence features of known protein sorting signals to report possiblity for input protein to be localized at each candidate site with additional information. | Protein sorting signal prediction, protein localization site, localization site prediction, amino acid sequence, sequence analysis, protein sorting signal | is related to: Psort | Free, Freely available | https://psort.hgc.jp/, https://www.psort.org/ | SCR_018772 | prediction of protein sorting signals and localization sites in amino acid sequencies, psort2, psort II | 2026-08-15 11:25:59 | 49 | ||||||||
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Beckman Coulter: Life Sciences MoFlo Astrios EQ Cell Sorter Resource Report Resource Website 10+ mentions |
Beckman Coulter: Life Sciences MoFlo Astrios EQ Cell Sorter (RRID:SCR_018893) | instrument resource | High speed flow cytometry sorter. | Beckman Coulter, MoFlo Astrios, cell sorter, high speed cell sorter, instrument, equipment | Restricted | https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/refs/heads/main/PDF/SCR_018893.pdf | https://bec-techdocs-prod.s3.us-west-2.amazonaws.com/techdoc/files/ifu/en/B22986EB.pdf?AWSAccessKeyId=ASIA2KJI7HMZ2LIVGGKQ&Expires=1714677977&Signature=NUhKRS0AmHkKA8B0w8HjLbJKEwA%3D&x-amz-security-token=IQoJb3JpZ2luX2VjEAoaCXVzLXdlc3QtMiJHMEUCIEx6nFrj%2FnqQlzHXnA3IEIEojJvZpacwr6mpjViWWJTgAiEAzf0qI2V844ONFBygXgWQGvW3sp6U15S4zbvNTu8elbMq%2BgIIYxAEGgw3MDkyOTI0MDc2MDMiDKy2KN600BLxzSXZ9CrXArQAhXoDa7HakRWxTvFeJnE7Y6XRHdaq3Opce4UsXYCd9ifVecXBHIa%2FMl6SmmJn%2Ff6YB8lPieTfcZ2AGsJvsq61KpgLzz0mDDZmZ%2BJ6SQ8JBkKLaX9ldL%2FgZT3%2FJjjTnjldGXuAnXEcE5guzvUAsZKClU%2FNd82fAzcw0qojPzaS8kREVxW6gieieMNfqMk80NKwhNOfPiu%2FZZ%2F0CRk47wtO7zRb75Wngh%2BKrudOC4lMRnXSmyg1jDWbdm7X8wxJJkTaqtsnwtdjW3t0Q08G3OPPQF8JukVrva3A1JhCWx0d1lzB3ysc3wNE5TAtSvxdWldGyHvABiAthK84dHaAFhE4dYespF0MyB1zdQrB6GQUcT7MWG2p%2BATXd%2FWMku5Yw%2Ba4D1PpP1z89SwFp8LrcYQJmnoNk6JgfTBofY7wRs4H5mn3AOk8aEXcdqMt%2FEUP5Y2woAGtgC8wkJ7PsQY6ngEOXPlGjJzzEpvu4oBQzCGRY9JUbk5514ZEYBhZz5%2FClFdDzI84cDMvcbC28pPRLHy6Lb07ciE%2FhMZtS1JmFrxAlCud78kMh%2BOfBs6HczpQu9KZuc9LSykM8SNL0J5VY9pL%2F7zMi7zjW8NzDpakoxZDxBKF9R4sMS17sUPCSt2959DkY5zQwHi33G%2B6YWTsj4%2BIpyHsCAi9sG6ESJ%2F8pA%3D%3D | SCR_018893 | MoFlo Astrios Cell Sorter | 2026-08-15 11:26:02 | 13 | ||||||||
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DoubletFinder Resource Report Resource Website 1000+ mentions |
DoubletFinder (RRID:SCR_018771) | data processing software, software application, data analysis software, software resource | Software R package that predicts doublets in single cell RNA sequencing data. Doublet detection in single cell RNA sequencing data using artificial nearest neighbors. Identifies doublets using only gene expression data. | Doublet detection in single cell RNA, single cell RNA, doublet detection, RNA sequencing data, gene expression data, artificial nearest neighbors |
is related to: Seurat has parent organization: University of California at San Francisco; California; USA |
Department of Defense Breast Cancer Research Program ; NICHD DP2 HD080351; NSF MCB 1330864; UCSF Center for Cellular Construction ; NSF Science and Technology Center ; Damon Runyon Cancer Research Foundation |
PMID:30954475 | Free, Available for download, Freely available | SCR_018771 | 2026-08-15 11:25:58 | 1250 | ||||||||
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Plexon: 16 channel V-Probe Resource Report Resource Website 1+ mentions |
Plexon: 16 channel V-Probe (RRID:SCR_018784) | instrument resource | Linear electrode array used for intracranial electrophysiological recordings. V-Probe is multi-use, multi-site, linear electrode with recording sites positioned on side of sharpened, symmetric cone by Plexon Inc. Minimizes trauma to brain tissue upon insertion. Durable, highly customizable, and often used in acute research with medium to large animals. | Linear electrode, V-Probe, intracranial electrophysiological recording, Plexon Inc., minimizes trauma, brain tissue, insertion, customizable, animal research, instrument, equipment | is listed by: USEDit | Restricted | https://plexon.com/wp-content/uploads/2020/01/Probe-Technical-Guide.pdf | SCR_018784 | 2026-08-15 11:25:58 | 8 | |||||||||
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AsPredicted Resource Report Resource Website 100+ mentions |
AsPredicted (RRID:SCR_018789) | data or information resource, portal, topical portal | Website for study pre-registration. Defines minimum required criteria for pre-registration and allows authors to pre-register their study. It is standardized pre-registration that requires only what is necessary to separate exploratory from confirmatory analyses. | Study pre-registration, publish paper, evaluation, minimum required criteria, author study pre-registration, standardized pre-registration | has parent organization: University of Pennsylvania; Philadelphia; USA | Restricted | SCR_018789 | 2026-08-15 11:25:59 | 165 | ||||||||||
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Plexon: 16-channel digital headstage Resource Report Resource Website |
Plexon: 16-channel digital headstage (RRID:SCR_018783) | instrument resource | Headstage that attaches to 16-channel linear electrode arrays by Plexon Inc. Digitizes analog voltage signals and outputs them to data acquisition systems. | Headstage, digital headstage, 16 channel linear electrode arrays, Plexon Inc., voltage signal, instrument, equipment | is listed by: USEDit | Restricted | https://plexon.com/wp-content/uploads/2020/01/Digital-Headstage-Technical-Guide.pdf | SCR_018783 | Plexon 16-channel digital headstage (Generation 2) | 2026-08-15 11:25:59 | 0 | ||||||||
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AlgPred Resource Report Resource Website 50+ mentions |
AlgPred (RRID:SCR_018780) | data access protocol, software resource, service resource, web service | Web tool for prediction of allergens based on similarity of known epitope with any region of protein. Used for prediction of allergenic proteins and mapping of IgE epitopes. | Allergen prediction, allergenic protein, allergenic protein prediction, IgE epitopes mapping, epitope, protein region, prediction, bio.tools |
is listed by: Debian is listed by: bio.tools |
Council of Scientific and Industrial Research | PMID:16844994 | Free, Freely available | biotools:algpred | https://webs.iiitd.edu.in/raghava/algpred/submission.html, https://bio.tools/algpred | SCR_018780 | 2026-08-15 11:25:58 | 94 | ||||||
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FunGene Resource Report Resource Website 50+ mentions |
FunGene (RRID:SCR_018749) | software toolkit, database, data repository, production service resource, storage service resource, data or information resource, software resource, service resource, analysis service resource | Functional gene pipeline and repository. Functional gene repository provides collections of genes in interactive platform, while functional gene pipeline offers suite of tools for functional gene amplicon processing and analysis. Together they enable key steps in functional gene based microbial community analysis, from target selection and primer analysis to amplicon processing and ecological discovery. | Gene processing, microbial ecology, functional genes, amplification primers, phylogeny, biogeochemical cycles, amplicon analysis, ecological discovery, microbial community | has parent organization: Michigan State University; Michigan; USA | NIEHS P42 ES004911; USDA National Institute of Food and Agriculture ; NIDDK UH3 DK083993; Office of Science U.S. Department of Energy ; NIEHS |
PMID:24101916 | Free, Freely available | SCR_018749 | FunGene Pipeline | 2026-08-15 11:25:58 | 58 | |||||||
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syngo DynaCT Resource Report Resource Website |
syngo DynaCT (RRID:SCR_018902) | data processing software, software application, software resource, data visualization software, 3d visualization software | Software tool to construct 3D models of soft tissue using CT-like cross sectional imaging. | 3D model, soft tissue, soft tissue 3D model, 3D model construction, cross sectional imaging | Restricted | SCR_018902 | Siemens Healthineers syngo DynaCT | 2026-08-15 11:26:03 | 0 | ||||||||||
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RatsPub Resource Report Resource Website |
RatsPub (RRID:SCR_018905) | web service, data access protocol, software application, software resource, text-mining software | Web service that conducts comprehensive literature mining to identify roles of genes in addiction. Searches PubMed to find abstracts containing genes of interest and list of curated addiction related keywords. | Literature mining, addiction gene, PubMed abstract, gene, addiction, addiction relationship, neurogenetics | NIDA P30 DA044223; NIDA U01 DA047638 |
Free, Freely available | https://github.com/chen42/ratspub | SCR_018905 | rats.pub, Rats.pub, Relationship with Addiction Through Searches of PubMed | 2026-08-15 11:26:03 | 0 | ||||||||
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BadMedicine Resource Report Resource Website 1+ mentions |
BadMedicine (RRID:SCR_018879) | software toolkit, software development tool, code testing framework, software application, software resource, software library | Software library and command line tool for generating realistic looking synthetic Electronic Health Records data for testing purposes. | Electronic Health Record, electronic health record data generation, health data, testing health data, bio.tools |
is listed by: bio.tools is listed by: Debian |
Free, Freely available | biotools:badmedicine | https://bio.tools/badmedicine | SCR_018879 | 2026-08-15 11:26:02 | 1 | ||||||||
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robvis Resource Report Resource Website 100+ mentions |
robvis (RRID:SCR_018755) | robvis | software toolkit, web application, software resource | Software R package and web app, which facilitates rapid production of publication quality risk of bias assessment figures. Used to produce high quality figures that summarize the risk-of-bias assessments performed as part of systematic review or research synthesis project. | Risk of bias assessment, publication figure, publication quality figure, figure production, systematic review, research synthesis project | is related to: Shiny | University of Bristol ; University Hospitals Bristol NHS Foundation Trust |
DOI:10.1002/jrsm.1411 | Free, Freely available | SCR_018755 | Risk Of Bias VISualization | 2026-08-15 11:25:58 | 100 | ||||||
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Zeiss: Axio Imager 2 Resource Report Resource Website 10+ mentions |
Zeiss: Axio Imager 2 (RRID:SCR_018876) | instrument resource | Axio Imager 2 resolves samples from tissue sections in pathology to brain specimens in neuroscience to multi dyed FISH specimens. Works with ZEN imaging software. | Upright microscope, Zeiss, imaging microscope, instrument, equipment, upright microscope platform, |
is used by: Icahn School of Medicine at Mount Sinai Microscopy and Advanced Bioimaging Core Facility is related to: Zeiss: Axio Imager M2 is related to: Zeiss: Axio Imager Z2m system |
https://raw.githubusercontent.com/SciCrunch/RRID-Instruments/main/PDF/SCR_018876.pdf | SCR_018856 | https://www.zeiss.com/microscopy/us/products/light-microscopes/axio-imager-2-for-biology.html | SCR_018876 | Axio Imager 2 | 2026-08-15 11:26:00 | 41 |
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