Searching the RRID Resource Information Network
Are you sure you want to leave this community? Leaving the community will revoke any permissions you have been granted in this community.
SciCrunch Registry is a curated repository of scientific resources, with a focus on biomedical resources, including tools, databases, and core facilities - visit SciCrunch to register your resource.
| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
VFS Resource Report Resource Website 1+ mentions |
VFS (RRID:SCR_005138) | VFS | software resource | A versatile high-throughput sequencing (HTS) tool for discovering viral integration events and reconstruct fusion transcripts at single-base resolution. It combines soft-clipping information, read-pair analysis, and targeted de novo assembly to discover and annotate viral-human fusion events. A simple yet effective empirical statistical model is used to evaluate the quality of fusion breakpoints. Minimal user defined parameters are required. | ubuntu, debian, high-throughput sequencing, virus, reconstruct, fusion transcript, transcript, integration, fusion, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools has parent organization: SourceForge has parent organization: Chinese University of Hong Kong; Hong Kong; China |
PMID:23314323 | GNU General Public License, v3 | OMICS_00224, biotools:viralfusionseq | https://bio.tools/viralfusionseq | SCR_005138 | ViralFusionSeq, ViralFusionSeq (VFS) | 2026-09-12 12:56:21 | 1 | |||||
|
RetroSeq Resource Report Resource Website 10+ mentions |
RetroSeq (RRID:SCR_005133) | RetroSeq | software resource | A tool for discovery and genotyping of transposable element variants (TEVs) (also known as mobile element insertions) from next-gen sequencing reads aligned to a reference genome in BAM format. The goal is to call TEVs that are not present in the reference genome but present in the sample that has been sequenced. It should be noted that RetroSeq can be used to locate any class of viral insertion in any species where whole-genome sequencing data with a suitable reference genome is available. RetroSeq is a two phase process, the first being the read pair discovery phase where discorandant mate pairs are detected and assigned to a TE class (Alu, SINE, LINE, etc.) by using either the annotated TE elements in the reference and/or aligned with Exonerate to the supplied library of viral sequences. | mobile element insertion, next-gen sequencing, bam, transposable element, genome, sequence |
is listed by: OMICtools has parent organization: Wellcome Trust Sanger Institute; Hinxton; United Kingdom |
PMID:23233656 | Acknowledgement requested, Open unspecified license | OMICS_11232, OMICS_00120 | SCR_005133 | 2026-09-12 12:56:21 | 46 | |||||||
|
Cloudbreak Resource Report Resource Website |
Cloudbreak (RRID:SCR_005097) | software resource | Software providing a Hadoop-based genomic structural variation (SV) caller for Illumina paired-end DNA sequencing data. It contains a full pipeline for aligning data in the form of FASTQ files using alignment pipelines that generate many possible mappings for every read, in the Hadoop framework. It then contains Hadoop jobs for computing genomic features from the alignments, and for calling insertion and deletion variants from those features. | illumina, mapreduce, insertion, deletion, genomic | is listed by: OMICtools | OMICS_04078 | SCR_005097 | 2026-09-12 12:56:21 | 0 | ||||||||||
|
Werblin Lab Resource Report Resource Website |
Werblin Lab (RRID:SCR_005251) | Werblin Lab | data or information resource, image, laboratory portal, organization portal, portal, video resource | The goal of our research is to uncover the neural circuitry that mediates some of the remarkable processing capabilities of the retina. The retina to operates at high spatial and temporal resolution over more than 7 orders of magnitude, to detect the direction of motion, to blank and then recover after saccades, to generate at least a dozen different abstract representations of the visual world. How is all of this, and much more, possible in this tissuepaper-thin array of neurons? Videos and images describing this include: * The retinal hypercircuit. * How the Retina Works * Take a Tour through the Retina * Cartoon of the retina showing layering of neurons * Directional Selectivity * Feedback and Crossover inhibition * Multiple Representations of the Visual Scene ** Pseudo Array Recording Methods ** Multiple Representations of the Visual World ** Regions of Frequency Space * Regions of space/time frequency * Space-time rasters for ON and OFF cells * Patching a neuron in a retinal slice * Targeting Retinal Neuron Subregions with Arficial Rhodopsins | retina, hypercircuit, neuron, ganglion | has parent organization: University of California at Berkeley; Berkeley; USA | nlx_144274 | SCR_005251 | Werblin Lab: Division of Neurobiology; Department of Molecular and Cell Biology | 2026-09-12 12:56:23 | 0 | ||||||||
|
St. Louis University Alzheimer's Brain Bank Resource Report Resource Website |
St. Louis University Alzheimer's Brain Bank (RRID:SCR_005132) | biomaterial supply resource, brain bank, material resource, tissue bank | A brain bank which provides brain tissue for interdisciplinary research in neurochemical, anatomical, epidemiological and clinical aspects of Alzheimer's disease. It provides brain tissue from Alzheimer's patients and healthy elderly brain donors to investigators who are helping further the understanding of Alzheimer's disease through research. It also gives family members of Alzheimer's patients the opportunity to obtain a confirmed diagnosis through brain autopsy. Through this program, families of individuals with either a clinical diagnosis, or those with suspected Alzheimer's disease, grant permission for a brain autopsy to be performed immediately after death. | brain bank, alzheimer's disease, normal control, dementia, brain tissue, autopsy, healthy donor, material storage repository |
is listed by: One Mind Biospecimen Bank Listing has parent organization: St. Louis University Department of Neurology and Psychiatry has parent organization: Saint Louis University School of Medicine; Missouri; USA |
Alzheimer's disease, Dementia | alz.org | Public, Available to the research community | nlx_144152 | SCR_005132 | SLU Brain Bank, Saint Louis University Alzheimer’s Brain Bank, Saint Louis University Medical Center Alzheimer's Disease Brain Bank | 2026-09-12 12:56:21 | 0 | ||||||
|
Gene Map Annotator and Pathway Profiler Resource Report Resource Website 100+ mentions |
Gene Map Annotator and Pathway Profiler (RRID:SCR_005094) | data processing software, data visualization software, software application, software resource | GenMAPP is a free computer application designed to visualize gene expression and other genomic data on maps representing biological pathways and groupings of genes. Integrated with GenMAPP are programs to perform a global analysis of gene expression or genomic data in the context of hundreds of pathway MAPPs and thousands of Gene Ontology Terms (MAPPFinder), import lists of genes/proteins to build new MAPPs (MAPPBuilder), and export archives of MAPPs and expression/genomic data to the web. The main features underlying GenMAPP are: *Draw pathways with easy to use graphics tools *Color genes on MAPP files based on user-imported genomic data *Query data against MAPPs and the GeneOntology Enhanced features include the simultaneous view of multiple color sets, expanded species-specific gene databases and custom database options. | expression, gene, analysis, biological, mapping, microarray, network, pathway, protein, visualization, ontology, proteomics, FASEB list |
has parent organization: University of California at San Francisco; California; USA is parent organization of: MAPPFinder |
Agilent Foundation ; BayGenomics ; NIGMS |
PMID:17588266 | nif-0000-00244 | SCR_005094 | GenMAPP | 2026-09-12 12:56:21 | 212 | |||||||
|
Cereal Plant Development Ontology Resource Report Resource Website |
Cereal Plant Development Ontology (RRID:SCR_005095) | GRO-CPD | controlled vocabulary, data or information resource, ontology | A structured controlled vocabulary for describing cereal plant development and growth stages. Please note that this ontology has now been superseded by the Plant Ontology. | obo |
is listed by: BioPortal is related to: Plant Ontology has parent organization: Gramene |
nlx_157358 | http://www.gramene.org/plant_ontology/ | SCR_005095 | 2026-09-12 12:56:21 | 0 | ||||||||
|
Regions Hospital Alzheimer's Research Center Resource Report Resource Website |
Regions Hospital Alzheimer's Research Center (RRID:SCR_005128) | data or information resource, disease-related portal, portal, topical portal | A national research center that conducts research for Alzheimer's disease, stroke and other nervous system disorders. The mission of the Center is to improve the treatment and prevention of Alzheimer's disease and other neurologic disorders by advancing scientific knowledge through creative and collaborative research. | alzheimer's disease, stroke, nervous system disease, neurodegenerative disease | is parent organization of: Dementia Brain Bank Research Program | Alzheimer's disease, Nervous system disorders | Charitable gifts | Public | nlx_144135 | SCR_005128 | MN Alzheimer's Research Center, Minnesota Alzheimer's Research Center | 2026-09-12 12:56:21 | 0 | ||||||
|
PhenoMan Resource Report Resource Website 1+ mentions |
PhenoMan (RRID:SCR_005249) | PhenoMan | software resource | An interactive software program that integrates phenotypic data exploration, selection, management and quality control using a unified platform for association studies of rare and common variants. | phenotype, quality control, statistical genetics, association study, python, bio.tools |
is listed by: OMICtools is listed by: bio.tools is listed by: Debian has parent organization: Google Code has parent organization: Baylor University; Texas; USA |
GNU General Public License, v3 | biotools:phenoman, OMICS_00301 | https://bio.tools/phenoman | SCR_005249 | phenoman - Phenotypic data exploration selection management and quality control for association studies of rare and common variants | 2026-09-12 12:56:23 | 1 | ||||||
|
MJ Murdock Charitable Trust Resource Report Resource Website 1+ mentions |
MJ Murdock Charitable Trust (RRID:SCR_005122) | Murdock Trust | institution | The M. J. Murdock Charitable Trust seeks to enrich the quality of life in the Pacific Northwest by providing grants and enrichment programs to non-profit organizations that seek to strengthen the region''s educational, spiritual, and cultural base in creative and sustainable ways. In addition to a special interest in education and scientific research, the Trust partners with a wide variety of organizations that serve the arts, public affairs, health and medicine, human services, leadership development, and persons with disabilities. Eligibility for scientific research grants is limited. Select public research universities and medical institutes located within the five-state region (Pacific Northwest: Alaska, Washington, Oregon, Idaho, Montana) are typically considered for funding. The Trust prefers requests for projects in the natural sciences where the main objective is the acquisition of new knowledge. However, requests for research in engineering and medicine are also eligible. Training students in conducting research is an important consideration. | grant, enrichment program, life science, research, natural science | grid.453269.f, Crossref funder ID: 100000937, nlx_144130 | https://ror.org/02hxgd925 | SCR_005122 | Murdock Charitable Trust, Murdock Trust | 2026-09-12 12:56:21 | 9 | ||||||||
|
National Academy of Sciences Podcasts Resource Report Resource Website |
National Academy of Sciences Podcasts (RRID:SCR_005124) | NAS Podcasts | data or information resource, narrative resource, podcast | Subscribe to the National Academy of Sciences podcasts to learn more about scientists and their work, the latest in research, and key findings of National Research Council reports. * InterViews: InterViews provides first-person accounts of the lives and work of National Academy of Sciences members. In this series of one-on-one conversations, scientists talk about what inspired them to pursue the careers they chose and describe some of the most fascinating aspects of their research. * Science Sessions: The Proceedings of the National Academy of Sciences offers brief, 5-minute, nontechnical conversations with cutting-edge researchers, including members of the National Academy of Sciences, and policymakers as they discuss topics relevant to today''s scientific community. Learn the behind-the-scenes story of work published in PNAS, plus a broad range of scientific news about discoveries that affect the world around us. * News from the National Academies: Listen to the latest news conferences and public briefings on National Research Council and Institute of Medicine reports. * Sounds of Science: This informative and entertaining series puts a spotlight on the high-impact work of the National Research Council. Focusing on a wide range of critical issues in science, engineering, and medicine, these short episodes are a quick and easy way to tune in our key findings and important recommendations. * Cultural Programs: The Cultural Programs of the National Academy of Sciences presents public exhibitions, lectures, and other programs exploring the intersections of art, science, and culture. The podcast features audio recordings of past lectures and other events. * Engineering Innovation: This weekly podcast from the National Academy of Engineering highlights exciting developments in engineering and provides technical context to stories in the news. The 40-second episodes demonstrate how engineers are making an impactin energy, health, the environment, sports, and more. | science, culture, research, engineering, medicine, news, interview |
is used by: NIF Data Federation is related to: Integrated Podcasts has parent organization: National Academy of Sciences |
nlx_144132 | SCR_005124 | 2026-09-12 12:56:21 | 0 | |||||||||
|
California Academy of Sciences Family Science Resource Report Resource Website |
California Academy of Sciences Family Science (RRID:SCR_005241) | CAS Family Science | blog, data or information resource, narrative resource, outreach program, training resource | Family Science - Fun activities to do at home, on the web, in the Academy and more. The program serves San Francisco''s fourth and fifth grade teachers, students and their families. The Rock Program We are excited to welcome you, your students and their families to the Enhanced Museum Visits for Students Program. Generously funded by Arthur and Toni Rembe Rock, this program is open to all 4th and 5th grade classes within San Francisco County lines. Each of the following FREE features are built into the field trip program to support and enrich the museum experience for teachers, students and families: * Bus transportation - if needed * Teacher workshops that highlight exhibit themes and educational resources (required for first time participants, optional for repeat teachers) * Educational programs designed to enhance the museum visit fieldtrip for your students * A student pass entitling each student unlimited free admission through August * A one-time free family pass with a science activity book for each student valid through the end of August. | k-12, teacher, family, science, california, san francisco | has parent organization: California Academy of Sciences | Arthur and Toni Rembe Rock Fund | nlx_144244 | SCR_005241 | Family Science | 2026-09-12 12:56:23 | 0 | |||||||
|
FusionMap Resource Report Resource Website 50+ mentions |
FusionMap (RRID:SCR_005242) | FusionMap | software resource | An efficient fusion aligner which aligns reads spanning fusion junctions directly to the genome without prior knowledge of potential fusion regions. It detects and characterizes fusion junctions at base-pair resolution. FusionMap can be applied to detect fusion junctions in both single- and paired-end dataset from either gDNA-Seq or RNA-Seq studies. FusionMap runs under both Windows and Linux (requiring MONO) environments. Although it can run on 32 bit machine, it is recommended to run on 64-bit machine with 8GB RAM or more. If you have an ArrayStudio License, you can run the fusion detection easily through its GUI. | windows, linux, c#, fusion gene, next-generation sequencing, gene, reference indexing, read filtering, fusion alignment, reporting, alignment, bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools |
PMID:21593131 | Free, Non-commercial | biotools:fusionmap, OMICS_00316 | https://bio.tools/fusionmap | SCR_005242 | 2026-09-12 12:56:23 | 89 | ||||||
|
Traph Resource Report Resource Website 1+ mentions |
Traph (RRID:SCR_005119) | Traph | software resource | A software tool for transcript identification and quantification with RNA-Seq. The method has a two-fold advantage: on the one hand, it translates the problem as an established one in the field of network flows, which can be solved in polynomial time, with different existing solvers; on the other hand, it is general enough to encompass many of the previous proposals under the least sum of squares model. |
is listed by: OMICtools has parent organization: University of Helsinki; Helsinki; Finland |
PMID:23734627 | Acknowledgement requested | OMICS_01295 | SCR_005119 | Transcripts in gRAPHs - Traph: A tool for transcript identification and quantification with RNA-Seq, Transcripts in gRAPHs | 2026-09-12 12:56:21 | 3 | |||||||
|
New Scientist Jobs Resource Report Resource Website |
New Scientist Jobs (RRID:SCR_005155) | New Scientist Jobs | job resource, postdoctoral program resource, training resource | At New Scientist Jobs you can search our database for hundreds of Science and Technology jobs from across the globe. Registration is free and you can upload your resume, set up email job alerts, subscribe to RSS feeds and apply for Science and Technology jobs online. Employers can post jobs. We also work in partnership with the science and academic community to help them recruit the right Science and Technology candidates for their vacancies online. | employment, career, job seeker, employer, science, technology, biochemistry, biotechnology, biostatistics, biophysics, botany, plant science, cancer research, oncology, cardiology, life science, cell biology, computational biology, developmental biology, drug development, drug discovery, ecology, epidemiology, evolutionary biology, food sciences, nutrition, forensics, genetics, genomics, gerontology/aging, immunology, informatics, marine biology, medicine, metabolism, microbiology, molecular biology, nanotechnology, neuroscience, pathology, pharmacology, physiology, proteomics, psychology, psychiatry, stem cell research, toxicology, vascular biology, veterinary medicine, virology, zoology, database, data storage repository |
is used by: NIF Data Federation is related to: Integrated Jobs |
nlx_144176 | SCR_005155 | NewScientist Jobs | 2026-09-12 12:56:22 | 0 | ||||||||
|
rQuant Resource Report Resource Website 1+ mentions |
rQuant (RRID:SCR_005150) | rQuant | software resource | Software for quantitative detection of alternative transcripts with RNA-Seq data. The method, based on quadratic programming, estimates biases introduced by experimental settings and is thus a powerful tool to reveal and quantify novel (alternative) transcripts. | bio.tools |
is listed by: OMICtools is listed by: Debian is listed by: bio.tools is related to: Galaxy |
PMID:20551130 | biotools:rquant.web, OMICS_01286 | https://bio.tools/rquant.web | SCR_005150 | rQuant: quantitative detection of alternative transcripts with RNA-Seq data | 2026-09-12 12:56:22 | 1 | ||||||
|
UMKC Neuroscience Brain Tissue Bank and Research Laboratory Resource Report Resource Website |
UMKC Neuroscience Brain Tissue Bank and Research Laboratory (RRID:SCR_005148) | UMKC Brain Tissue Bank | biomaterial supply resource, brain bank, material resource, tissue bank | THIS RESOURCE IS NO LONGER IN SERVICE, documented August 31, 2016. The UMKC Neuroscience Brain Tissue Bank and Research Laboratory has been established to obtain, process, and distribute human brain tissue to qualified scientists and clinicians dedicated to neuroscience research. No other living organ approaches the human brain in complexity or capacity. Healthy, it astounds and inspires miracles. Diseased, it confounds and diminishes hope. The use of human brain tissue for research will provide insight into the anatomical and neurochemical aspects of diseased and non-diseased brains. While animal models are helpful and necessary in understanding disease, certain disorders can be more efficiently studied using human brain tissue. Also, modern research techniques are often best applied to human tissue. We also need samples of brain tissue that have not been affected by disease. They help us to compare a 'normal' brain with a diseased one. Also, we have a critical need for brain donations from relatives who have genetically inherited disorders. Tissue preparation consists of fresh quick-frozen tissue blocks or coronal slices (nitrogen vapor frozen; custom dissection of specific anatomic regions) or formalin-fixed coronal slices (custom dissection of specific anatomic regions). | brain tissue, brain, tissue, fresh quick-frozen, block, nitrogen vapor frozen, frozen, formalin-fixed, disease, normal, genetically inherited disorder, normal control, matched control, neuroscience, post-mortem, coronal slice |
is listed by: One Mind Biospecimen Bank Listing has parent organization: University of Missouri-Kansas City School of Medicine; Missouri; USA |
Disease, Normal, Genetically inherited disorder, Normal control, Matched control | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_144161 | SCR_005148 | UMKC Neuroscience Brain Tissue Bank Research Laboratory, University of Missouri-Kansas City Neuroscience Brain Tissue Bank & Research Laboratory, UMKC Neuroscience Brain Tissue Bank & Research Laboratory | 2026-09-12 12:56:21 | 0 | ||||||
|
RLS Foundation Resource Report Resource Website 1+ mentions |
RLS Foundation (RRID:SCR_005144) | RLS Foundation | data or information resource, disease-related portal, funding resource, portal, topical portal | Non-profit organization providing the latest information about Restless Legs Syndrome (RLS). Its goals are to increase awareness, improve treatments, and through research, find a cure for RLS, a condition which severely affects the lives of millions of individuals. By educating healthcare providers about RLS symptoms, diagnosis, and treatment, the RLS Foundation helps patients receive the quality care they both need and deserve. In recent years the Foundation has provided information to healthcare providers at many exhibit meetings, including the American Academy of Neurology, the American College of Obstetricians and Gynecologists, and the American Academy of Nurse Practitioners. The Foundation continually strives to be the most reputable source of information on RLS. Their renowned Medical Advisory Board, composed of leading RLS experts from all over the world, has written several publications on the diagnosis and treatment of RLS. These include our comprehensive RLS Medical Bulletin, their patient brochure, and their brochures on special topics including concerns for surgery, depression, pregnancy, and children. The Foundation has taken giant strides to further RLS research, funding grants for 27 research projects. Among the most distinguished research projects the Foundation has put its resources behind is the ongoing Stanford Epidemiology Project. Although it is still underway, the Foundation recognizes that the highly anticipated results of the Stanford Epidemiology Project, including the creation of a world standard questionnaire used to accurately diagnose RLS, could be spectacular. Eventually this questionnaire may help researchers understand the health consequences of RLS and identify other conditions and diseases that are associated with or exacerbated by RLS. In addition, the RLS Foundation helped fund a study led by Dr. David Rye and deCODE Genetics in Iceland which recently announced the discovery of a gene for RLS. | restless legs syndrome | is parent organization of: RLS Foundation Brain Bank | Restless Legs Syndrome | nlx_144148 | SCR_005144 | Restless Legs Syndrome Foundation | 2026-09-12 12:56:21 | 2 | |||||||
|
WU Knight ADRC Multimedia Presentations Resource Report Resource Website 1+ mentions |
WU Knight ADRC Multimedia Presentations (RRID:SCR_005147) | data or information resource, narrative resource, video resource | Videos of Knight ADRC related events for educational and informational purposes. A link to additional Center produced media is provided to access the Knight ADRC YouTube Channel. Videos are in HTML5 mp4 format and are available in 1080p or 4K resolution. | alzheimer's disease, video, podcast, nonprofit, educational |
has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA has parent organization: Washington University Knight Alzheimer's Disease Research Center |
Public, For nonprofit educational use only | nlx_144155 | SCR_005147 | Washington University Knight Alzheimer's Disease Research Center Multimedia Presentations, Knight ADRC Multimedia Presentations | 2026-09-12 12:56:21 | 2 | ||||||||
|
University of Eastern Finland at Kuopio; Kuopio; Finland Resource Report Resource Website |
University of Eastern Finland at Kuopio; Kuopio; Finland (RRID:SCR_005214) | university | University of Eastern Finland was formed through merger of two formerly independent universities, the University of Joensuu and the University of Kuopio.Public University of Eastern Finland Kuopio Campus is located in the Savilahti area. |
is related to: AddNeuroMed is parent organization of: UKU Neuroscience and Neurology Links |
nlx_14711 | http://www.uku.fi/english/ | SCR_005214 | 2026-09-12 12:56:22 | 0 |
Can't find your Tool?
We recommend that you click next to the search bar to check some helpful tips on searches and refine your search firstly. Alternatively, please register your tool with the SciCrunch Registry by adding a little information to a web form, logging in will enable users to create a provisional RRID, but it not required to submit.
Welcome to the RRID Resources search. From here you can search through a compilation of resources used by RRID and see how data is organized within our community.
You are currently on the Community Resources tab looking through categories and sources that RRID has compiled. You can navigate through those categories from here or change to a different tab to execute your search through. Each tab gives a different perspective on data.
If you have an account on RRID then you can log in from here to get additional features in RRID such as Collections, Saved Searches, and managing Resources.
Here is the search term that is being executed, you can type in anything you want to search for. Some tips to help searching:
If you are logged into RRID you can add data records to your collections to create custom spreadsheets across multiple sources of data.
Here are the facets that you can filter the data by.
If you have any further questions please check out our FAQs Page to ask questions and see our tutorials. Click this button to view this tutorial again.
