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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Arvados Resource Report Resource Website 1+ mentions |
Arvados (RRID:SCR_002223) | arvados | storage service resource, data repository, service resource | Bioinformatics platform for storing, organizing, processing, and sharing genomic and other biomedical big data. Designed to make it easier for bioinformaticians to develop analyses, developers to create genomic web applications and IT administers to manage large-scale compute and storage genomic resources. Designed to run on top of cloud operating systems such as Amazon Web Services and OpenStack. Currently, there are implementations that work on AWS and Xen+Debian/Ubuntu. Functionally, Arvados has two major sets of capabilities: (a) data management and (b) compute management. | mapreduce/hadoop, genomic, biomedical, data sharing, compute, data management, cloud | is listed by: Debian | Free, Freely available | OMICS_01835 | https://sources.debian.org/src/arvados/ | SCR_002223 | 2026-08-04 09:40:35 | 3 | |||||||
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edX Resource Report Resource Website 10+ mentions |
edX (RRID:SCR_002240) | edX | training resource, online course | Massive, open, online courses (MOOCs) and interactive online classes in subjects including law, history, science, engineering, business, social sciences, computer science, public health, and artificial intelligence (AI). This non-profit was created by founding partners Harvard and MIT bringing the best of higher education to students around the world. Online courses are designed to be interesting, fun and rigorous. They are the best online courses, from the best professors and the best schools, spanning dozens of subjects. Some edX courses now offer ID verified Certificates of Achievement. A new way to demonstrate your achievement and showcase your knowledge. | education |
has parent organization: Harvard University; Cambridge; United States has parent organization: Massachusetts Institute of Technology; Massachusetts; USA; |
Free, Freely available | nlx_155551 | SCR_002240 | 2026-08-04 09:40:36 | 18 | ||||||||
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INCF Dataspace Resource Report Resource Website 1+ mentions |
INCF Dataspace (RRID:SCR_000158) | DataSpace | storage service resource, data repository, service resource |
THIS RESOURCE IS NO LONGER IN SERVICE. Documented August 21, 2017. Repository for sharing of neuroscience data, text, images, sounds, movies, models and simulations. |
neuroscience, text, image, sound, video, model, simulation, data sharing, preservation | has parent organization: International Neuroinformatics Coordinating Facility | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_157665 | SCR_000158 | 2026-08-04 09:40:04 | 2 | ||||||||
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Array Designer Resource Report Resource Website 1+ mentions |
Array Designer (RRID:SCR_010960) | Array Designer | commercial organization, software resource | Oligo and cDNA Microarray Design Software that designs thousands of primers and probes for oligo and cDNA microarrays in seconds. | is listed by: OMICtools | OMICS_00825 | SCR_010960 | 2026-08-04 09:42:49 | 2 | ||||||||||
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SyStat Resource Report Resource Website 1000+ mentions |
SyStat (RRID:SCR_010455) | SyStat | commercial organization, software resource | A commercial software tool for statistical analysis. | statistics | is listed by: SoftCite | nlx_157643 | SCR_010455 | 2026-08-04 09:42:42 | 1101 | |||||||||
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GeneSpring GX Resource Report Resource Website 1000+ mentions |
GeneSpring GX (RRID:SCR_010972) | GeneSpring GX | commercial organization, software resource | Powerful, accessible statistical tools for fast visualization and analysis of microarrays - expression arrays, miRNA, exon arrays and genomics copy number data. |
is listed by: OMICtools is listed by: SoftCite |
Commercial license | OMICS_00853 | SCR_010972 | 2026-08-04 09:42:49 | 1816 | |||||||||
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Tulane University; Louisiana; USA Resource Report Resource Website 1+ mentions |
Tulane University; Louisiana; USA (RRID:SCR_011548) | university | Tulane University of Louisiana is a private research university in New Orleans, Louisiana, United States. Founded as the Medical College of Louisiana in 1834 by a cohort of medical doctors, it became a comprehensive public university in the University of Louisiana in 1847 |
is parent organization of: T4-like genome database is parent organization of: Tulane National Biomedical Research Center is parent organization of: Tulane University School of Medicine; Louisiana; USA is parent organization of: Research Network in Early Experience and Brain Development is parent organization of: Deep Collaborative Learning is parent organization of: Tulane University TNBRC Anatomic Pathology Core Facility is parent organization of: Tulane University TNBRC Immunology Assay Core Facility is parent organization of: Tulane University TNBRC Infectious Disease Aerobiology Core Facility is parent organization of: Tulane University TNBRC Clinical Pathology Core Facility is parent organization of: Tulane University TNBRC Unit of Collaborative Research Core Facility is parent organization of: Tulane University TNBRC Flow Cytometry Core Facility is parent organization of: Tulane University TNBRC High Containment Research Performance Core Facility is parent organization of: Tulane University TNBRC Confocal Microscopy and Molecular Pathology Core Facility is parent organization of: Tulane University TNPRC Pathogen Detection and Quantification Core Facility is parent organization of: Tulane University TNBRC Genetics and Genome Banking Core Facility is parent organization of: Tulane University TNBRC Vector Borne Infectious Disease and Diagnostic Parasitology Core Facility is parent organization of: Tulane University TNPRC Virus Characterization, Isolation, Production and Sequencing Core Facility is parent organization of: Tulane University TNBRC Animal Resources is parent organization of: Tulane University TNBRC Molecular Virology and Sequencing Core Facility is parent organization of: Tulane University School of Medicine Flow Cytometry and Cell Sorting Core Facility is parent organization of: Tulane University School of Medicine CTRII NextGen Sequencing Core Facility |
, GRID grid.265219.b, ISNI 0000 0001 2217 8588, Crossref Funder ID 100007875, Wikidata Q1193547 | https://ror.org/04vmvtb21 | SCR_011548 | 2026-08-04 09:42:51 | 5 | ||||||||||
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DataSift Resource Report Resource Website 1+ mentions |
DataSift (RRID:SCR_010708) | commercial organization, software resource | A portal that allows users to track specific words, phrases or nearby relationships from social media sources including Twitter, Digg and others. Datasift aggregates, filters, records, and analyzes real-time data from a variety of social sources using our Curation Stream Definition Language (CSDL) allowing customers to curate their own news. | nlx_86821 | SCR_010708 | TweetMeme | 2026-08-04 09:42:48 | 4 | |||||||||||
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ImmunoSpot Software for Analyzing ELISPOT Assays Resource Report Resource Website 100+ mentions |
ImmunoSpot Software for Analyzing ELISPOT Assays (RRID:SCR_011082) | ImmunoSpot | commercial organization, software resource | ELISpot analyzing software | SciRes_000119 | SCR_011082 | ImmunoSpot Software for ELISPOT Analysis, CTL ImmunoSpot | 2026-08-04 09:42:51 | 186 | ||||||||||
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Protocols.io Resource Report Resource Website 100+ mentions |
Protocols.io (RRID:SCR_010490) | commercial organization, software resource | A commercial protocol sharing tool, which allows scientists to check in protocols the way that computer scientists check in code. |
is used by: SPARC Portal is used by: NIH Heal Project is listed by: re3data.org |
nlx_158033 | SCR_010490 | 2026-08-04 09:42:41 | 198 | |||||||||||
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SMART JUNIOR Resource Report Resource Website 1+ mentions |
SMART JUNIOR (RRID:SCR_012154) | Smart JUNIOR | commercial organization, software resource | Monitor-recognition software | rid_000087 | SCR_012154 | Smart Junior software | 2026-08-04 09:42:54 | 5 | ||||||||||
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Openlab Resource Report Resource Website 1000+ mentions |
Openlab (RRID:SCR_012158) | Openlab | commercial organization, software resource | A software package for performing 2D microscope image processing and integrating and controlling a diverse array of instrumentation in a laboratory environment. The software suite has four basic areas of operation acquisition, image presentation, and storage, analysis, and automation., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | fluorescence imaging, cell biology | is listed by: SoftCite | THIS RESOURCE IS NO LONGER IN SERVICE | rid_000096 | SCR_012158 | 2026-08-04 09:42:54 | 1133 | ||||||||
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CMA Resource Report Resource Website 10+ mentions |
CMA (RRID:SCR_012779) | CMA | commercial organization, software resource | A software package to do meta-analysis which works in a spreadsheet interface and also provides forest plots, which are useful for visualizing between-study heterogeneity. | is listed by: OMICtools | Commercial license | OMICS_00233 | SCR_012779 | Comprehensive Meta-analysis | 2026-08-04 09:43:05 | 22 | ||||||||
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BrainLab Resource Report Resource Website 1+ mentions |
BrainLab (RRID:SCR_026474) | commercial organization, software resource | Privately held German medical technology company headquartered in Munich, Bavaria. Brainlab develops software and hardware for radiotherapy and radiosurgery, and the surgical fields of neurosurgery, ENT and craniomaxillofacial, spine surgery, and traumatic interventions. Brainlab software and hardware devices create and enhance data to improve critical surgeries, radiosurgery treatments and operating room efficiency. | medical technology company, software and hardware, radiotherapy and radiosurgery, surgical fields of neurosurgery, ENT and craniomaxillofacial, spine surgery, traumatic interventions, | SCR_026474 | 2026-08-04 09:46:00 | 4 | ||||||||||||
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UCI Machine Learning Repository Resource Report Resource Website 10+ mentions |
UCI Machine Learning Repository (RRID:SCR_026571) | storage service resource, data repository, service resource | Collection of databases, domain theories, and data generators that are used by machine learning community for empirical analysis of machine learning algorithms. Datasets approved to be in the repository will be assigned Digital Object Identifier (DOI) if they do not already possess one. Datasets will be licensed under a Creative Commons Attribution 4.0 International license (CC BY 4.0) which allows for the sharing and adaptation of the datasets for any purpose, provided that the appropriate credit is given | Digital Object Identifier, dataset, databases, domain theories, data generators, empirical analysis of machine learning algorithms, | has parent organization: University of California at Irvine; California; USA | Free, Freely available | r3d100010960 | https://www.re3data.org/repository/r3d100010960, https://doi.org/10.17616/R3T91Q | SCR_026571 | UC Irvine Machine Learning Repository | 2026-08-04 09:46:01 | 11 | |||||||
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National Resource for Automated Molecular Microscopy Resource Report Resource Website 1+ mentions |
National Resource for Automated Molecular Microscopy (RRID:SCR_001448) | NRAMM | biomedical technology research center, training resource | Biomedical technology research center that develops, tests and applies technology aimed toward completely automating the processes involved in solving macromolecular structures using cryo-electron microscopy. The goal is to establish a resource that will serve both as a center for high-throughput molecular microscopy as well as for transferring this technique to the research community. Current Core Technology Research and Development is focused on 4 areas: improving grid substrates and specimen preparation; further automation and optimization of image acquisition; development of an integrated single particle analysis and processing pipeline; and the development of automated high throughput EM screening. NRAMM welcomes applications of both collaborative and service projects. | macromolecular structure, cryo-electron microscopy, macromolecule, structure, microscopy, automation, high throughput, specimen handling, image acquisition, data processing, data information integration, structural biology technology center | NIGMS 9 P41 GM103310; NCRR 2P41RR017573 |
THIS RESOURCE IS NO LONGER IN SERVICE | nlx_152671 | SCR_001448 | 2026-08-04 09:40:23 | 2 | ||||||||
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National Biomedical Center for Advanced ESR Technology Resource Report Resource Website 1+ mentions |
National Biomedical Center for Advanced ESR Technology (RRID:SCR_001444) | ACERT | biomedical technology research center, training resource | Biomedical technology research center that develops methods, both experimental and theoretical, of modern electron spin resonance (ESR) for biomedical applications. Center technologies are applicable to the determination of the structure and complex dynamics of proteins. Principal areas of expertise: * Pulsed Fourier Transform and Two Dimensional ESR * High Frequency-High Field (HFHF) ESR * High Resolution ESR Microscopy * Theory and Computational Methods for Modern ESR Activities include: * making resources available to the biomedical community, * publishing results, * running workshops on the new methodologies, * addressing the need to bring these new technologies to other laboratories. | electron spin resonance, spectrometer, electron spin resonance spectrometer, structure, dynamics, protein, structural biology technology center | has parent organization: Cornell University; New York; USA | NIGMS P41GM103521; NCRR P41RR016292 |
Free, Freely Available | nlx_152669 | SCR_001444 | ACERT National ESR Center, National Biomedical Center for Advanced Electron Spin Resonance Technology | 2026-08-04 09:40:23 | 1 | ||||||
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Center for Integrative Biomedical Computing Resource Report Resource Website 1+ mentions |
Center for Integrative Biomedical Computing (RRID:SCR_001961) | CIBC | biomedical technology research center, training resource | Biomedical technology research center that produces open-source software tools for biomedical image-based modeling, biomedical simulation and estimation, and the visualization of biomedical data. The Center works closely with software users and collaborators in a range of scientific domains to produce user-optimized tools and provides advice, technical support, workshops, and education to enhance user success. Biological projects and collaborations drive their development efforts, all with a single unifying vision: to develop the role of image-based modeling and analysis in biomedical science and clinical practice. The CIBC has a strong, ongoing emphasis on software simulation of bioelectric fields, with clinically oriented collaborations in cardiac defibrillation and the diagnosis/treatment of epilepsy. In addition, the CIBC has expanded in recent years to include applications of statistical shape analysis and three-dimensional visualization to mouse genetics and neuroimaging and applications of image and geometry processing to cell biology. | cardiac defibrillation, epilepsy, software, biomedical, image, modeling, simulation, estimation, visualization, computing, informatics, computing and informatics technology center | has parent organization: University of Utah; Utah; USA | NIGMS P41GM103545 | nif-0000-10535 | SCR_001961 | NIH/NIGMS Center for Integrative Biomedical Computing | 2026-08-04 09:40:31 | 1 | |||||||
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GenVision Resource Report Resource Website 1+ mentions |
GenVision (RRID:SCR_001166) | GenVision | commercial organization, software resource | A genomic visualization application to support easy generation of publication quality graphics and maps. It produces high quality images of annotated genomes but it can also be customized to accentuate specific areas of interest, such as comparing gene functionality, illustrating gene expression levels, and visualizing the coverage in an assembled contig. | genome, image, visualization, graphic, map, gene expression, contig, genetics |
is listed by: OMICtools works with: Lasergene's SeqMan Pro |
Commercial | OMICS_02135 | SCR_001166 | GenVision - Software for Publication-Quality Illustrations, DNASTAR GenVision | 2026-08-04 09:40:19 | 1 | |||||||
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NIH Center for Macromolecular Modeling and Bioinformatics Resource Report Resource Website 10+ mentions |
NIH Center for Macromolecular Modeling and Bioinformatics (RRID:SCR_001435) | Center for Macromolecular Modeling and Bioinformatics, TCBG | biomedical technology research center, training resource | Biomedical technology research center focusing on the structure and function of supramolecular systems in the living cell as well as on the development of new algorithms and efficient computing tools for physical biology. They bring the most advanced molecular modeling, bioinformatics, and computational technologies to bear on questions of biomedical relevance. They extend, refine and deliver these technologies in response to experimental progress and emerging needs of the wide biomedical research community. They magnify the impact of their work through direct collaboration with experimental researchers, the distribution of cutting-edge and user-friendly software, and via extensive training, service, and dissemination efforts. The multidisciplinary team is engaged in the modeling of large macromolecular systems in realistic environments, and has produced ground-breaking insights into biomolecular processes coupled with mechanical force, bioelectronic processes in metabolism and vision, and with the function and mechanism of membrane proteins. They are committed and work towards further advancement of * Molecular modeling tools which can integrate structural information with bioinformatics databases and molecular dynamics simulations, and which can be used by a wide audience; * High performance molecular visualization and simulation software, capable of modeling biomolecules in realistic environments of 100,000,000 atoms or more; * Conceptual and methodological foundations of molecular modeling in the fields of quantum biology, mechanobiology, and interactive modeling; * Biomedical science through collaborations between theoretical and experimental researchers; * Support of the entire research process and training through a web-enabled collaborative environment; and * Service, training, and dissemination by leveraging web-based molecular graphics and integrated modeling technologies. | supramolecular system, living cell, cell, algorithm, computing, physical biology, software, molecular dynamics, simulation, molecule, visualization, biomolecule, molecular modeling, bioinformatics, computational technology, computing and informatics technology center, model, macromolecule | has parent organization: University of Illinois at Urbana-Champaign; Illinois; USA | NIGMS P41GM104601 | Free, Freely Available | nlx_152659 | SCR_001435 | Resource for Macromolecular Modeling and Bioinformatics, Theoretical and Computational Biophysics Group, NIH Center for Macromolecular Modeling & Bioinformatics | 2026-08-04 09:40:23 | 33 |
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