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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Yanosim Resource Report Resource Website |
Yanosim (RRID:SCR_024363) | Yanosim | simulation software, software resource, software application | Software tool as read simulator for nanopore DRS datasets. | read simulator for nanopore DRS datasets, read simulator, nanopore DRS datasets, | is listed by: Debian | Free, Available for download, Freely available, | https://sources.debian.org/src/yanosim/ | SCR_024363 | yanosim, yet another nanopore simulator | 2026-08-11 09:44:50 | 0 | |||||||
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ASTRAL-Pro Resource Report Resource Website 1+ mentions |
ASTRAL-Pro (RRID:SCR_024520) | simulation software, software resource, software application | Software tool for species tree reconstruction from multi-copy gene family trees.Used for estimating unrooted species tree given set of unrooted gene trees and is statistically consistent under the multi-species coalescent model. ASTRAL-pro extends ASTRAL to allow multi-copy genes. ASTRAL-Pro 2, ultrafast and memory efficient version of ASTRAL-Pro that adopts placement based optimization algorithm for significantly better scalability without sacrificing accuracy. | species tree reconstruction, reconstruction from multi-copy gene family trees | is listed by: SoftCite | PMID:32886770 | Free, Available for download, Freely available | SCR_024520 | ASTRAL for PaRalogs and Orthologs, ASTRAL-Pro 2 | 2026-08-11 09:44:47 | 3 | ||||||||
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Center for the Neural Basis of Cognition Resource Report Resource Website 10+ mentions |
Center for the Neural Basis of Cognition (RRID:SCR_002301) | data or information resource, portal, organization portal | CNBC is joint venture of University of Pittsburgh and Carnegie Mellon University. Our center leverages the strengths of the University of Pittsburgh in basic and clinical neuroscience and those of Carnegie Mellon in cognitive and computational neuroscience to support a coordinated cross-university research and educational program of international stature. In addition to our Ph.D. program in Neural Computation, we sponsor a graduate certificate program in cooperation with a wide variety of affiliated Ph.D. programs. | brain, cognition, cognitive abilities, development, disorders, human, human thought, learning, mind, multidisciplinary, neural activity, neural mechanisms, neurobasis, normal, training | has parent organization: Carnegie Mellon University; Pennsylvania; USA | nif-0000-00370 | SCR_002301 | CNBC | 2026-08-11 09:40:30 | 16 | |||||||||
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Center for Imaging of Neurodegenerative Diseases Resource Report Resource Website |
Center for Imaging of Neurodegenerative Diseases (RRID:SCR_001968) | CIND | data or information resource, portal, organization portal | Biomedical technology research center that develops and validates new imaging methods for detecting brain abnormalities in neurodegenerative diseases, including Alzheimer's disease, vascular dementia, frontotemporal dementia, Parkinson's disease, as well as epilepsy, depression, and other conditions associated with nerve loss in the brain. As people around the globe live longer, the impact of neurodegenerative diseases is expected to increase further with dire social and economical consequences for societies if no effective treatments are developed soon. The development at CIND is aimed to improve magnetic resonance imaging (MRI). The ultimate goal of the scientific program is to identify imaging markers that improve accuracy in diagnosing neurodegenerative diseases at early stages, achieve more reliable prognoses of disease progression, and facilitate the discovery of effective treatment interventions. In addition to addressing the general needs for studying neurodegenerative diseases, another focus of CIND concerns brain diseases associated with military service and war combat, such as post traumatic stress disorder (PTSD), brain trauma, gulf war illness and the long-term effects of these conditions on the mental health of veterans. The symbiosis between CIND and the Veterans Administration Medical Center in San Francisco makes this program uniquely suited to serve military veterans. | Biomedical Technology Research Center, depression, mri, imaging, neuroimaging | has parent organization: University of California at San Francisco; California; USA | Neurodegenerative disease, Alzheimer's disease, Vascular dementia, Frontotemporal dementia, Parkinson's disease, Epilepsy, Depressive Disorder, Post-Traumatic Stress Disorder, Brain injury, Gulf war illness | NIBIB | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10539 | http://www.cind.research.va.gov/index.asp | SCR_001968 | UCSF Center for Imaging of Neurodegenerative Diseases | 2026-08-11 09:40:30 | 0 | ||||
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Addiction Research GPCR Assay Bank Resource Report Resource Website 1+ mentions |
Addiction Research GPCR Assay Bank (RRID:SCR_002895) | biomaterial supply resource, cell repository, material resource | Describes data from and access to permanent cell lines containing beta-arrestin fluorescent protein biosensors. This assay Bank provides plasmids, cells lines, and resulting data to the NIDA/NIH funded research community in order to better understand and combat addiction. | fluorescent, addiction, assay, beta-arrstin, biology, biosensor, cell, data, g protein, g-protein coupled receptor, ligand, plasmid, protein, receptor, catalog, protein supplier, supplier |
is listed by: One Mind Biospecimen Bank Listing has parent organization: Duke University; North Carolina; USA |
Addiction | NIDA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-25722 | SCR_002895 | GPCR Assay Bank | 2026-08-11 09:40:46 | 1 | ||||||
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Islet Cell Resource Centers Resource Report Resource Website 100+ mentions |
Islet Cell Resource Centers (RRID:SCR_002806) | ICR | biomaterial supply resource, cell repository, material resource | Group of 10 academic laboratories provide pancreatic islets of cGMP-quality to eligible investigators for use in FDA approved, IRB-approved transplantation protocols in which isolated human islets are transplanted into qualified patients afflicted with type 1 diabetes mellitus; optimize the harvest, purification, function, storage, and shipment of islets while developing tests that characterize the quality and predict the effectiveness of islets transplanted into patients with diabetes mellitus; and provide pancreatic islets for basic science studies. The centers are electronically linked through an Administrative and Bioinformatics Coordinating Center (ABCC). The ABCC manages a system with objectively defined criteria that establishes the order of priority for islet distribution. It also provides database and other informatics to track the utilization of pancreata and all distributed clinical grade islets for transplant and basic research, and supports the Islet Cell Resource Centers Consortium so that the research community has a single entry point to the program. Qualified researchers from domestic institutions may request islets by submitting a written application to the director of the ABCC. The ICRs will distribute Islets as appropriate for either clinical or basic science protocol use to eligible investigators who have received a favorable review and subsequent approval by the ICR Steering Committee (SC). The Administrative and Bioinformatics Coordinating Center (ABCC) manages the distribution according to a priority list. The ABCC will give preference to investigators who have peer-reviewed, NIH-funded research support. | pancreatic islet, clinical |
is listed by: One Mind Biospecimen Bank Listing is related to: One Mind Biospecimen Bank Listing is related to: NIDDK Information Network (dkNET) |
Type 1 diabetes, Diabetes | NIDDK ; Juvenile Diabetes Research Foundation International ; NCRR 1 U42 RR17673 |
Free, Freely available, Available for download | nif-0000-25418 | SCR_002806 | 2026-08-11 09:40:37 | 123 | ||||||
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Plant Metabolic Network Resource Report Resource Website 100+ mentions |
Plant Metabolic Network (RRID:SCR_002888) | data or information resource, project portal, portal | Collaborative project to bring together biochemical pathway databases and research communities focused on plant metabolism. Used to build broad network of plant metabolic pathway databases. Central feature of PMN is PlantCyc, comprehensive plant biochemical pathway database, containing curated information from literature and computational analyses about genes, enzymes, compounds, reactions, and pathways involved in primary and secondary metabolism. | e. coli, gene, arabidopsis, barley, coffee, database, genome, grass, homolog, maize, medicago, oats, pathway, pepper, plant, potato, rice, rye, sorghum, species, taxonomy, tomato, wheat, ontology | lists: PlantCyc | nif-0000-25602, SCR_003778, nlx_15806 | SCR_002888 | Plant Biochemical Pathway Databases | 2026-08-11 09:40:46 | 162 | |||||||||
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Tissue Engineering Resource Center Resource Report Resource Website 1+ mentions |
Tissue Engineering Resource Center (RRID:SCR_000103) | TERC | data or information resource, portal, organization portal | Biomedical technology research center designed to advance basis and clinical aspects of tissue engineering, to provide training for investigators and dissemination of scientific findings and new techniques. Expertise and facilities are focused on research, problem solving and training for biomedical community through integrated systems approach to challenges in tissue engineering. Mission for TERC is to engineer human tissues for medical impact. Includes Functional human tissue grafts: human tissues for application in regenerative medicine;Human disease models in vitro: in vitro models of human disease to provide new experimental tools to understand progression of disease, effects and mechanisms of drug action; Biological materials research: bioengineering tools for cell biology studies in context of tissue development, regeneration and disease. | tissue engineering, stem cell, tissue graft, tissue development, regeneration, human disease, regenerative medicine, in vitro, disease model, bioengineering |
is listed by: National Institute of Biomedical Imaging and Bioengineering has parent organization: Tufts University; Massachusetts; USA has parent organization: Columbia University; New York; USA |
nlx_152637 | SCR_000103 | TERC: Tissue Engineering Resource Center | 2026-08-11 09:40:06 | 8 | ||||||||
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Ontario Ministry of Research and Innovation; Ontario; Canada Resource Report Resource Website 1+ mentions |
Ontario Ministry of Research and Innovation; Ontario; Canada (RRID:SCR_000989) | ORFAB | funding resource, regional funding resource | Ministry that supports research, commercialization and innovation taking place across Ontario through a range of programs and services like the Ontario Research Fund, Innovation Demonstration Fund and Ontario Venture Capital Fund. | is parent organization of: Ontario Centres of Excellence | nlx_157929 | https://www.ontario.ca/ministry-research-innovation | SCR_000989 | Ontario Ministry of Research and Innovation | 2026-08-11 09:40:15 | 2 | ||||||||
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Helen Wills Neuroscience Institute Resource Report Resource Website |
Helen Wills Neuroscience Institute (RRID:SCR_001991) | data or information resource, portal, graduate program resource | Portal for UC Berkeley's neuroscience research center. The group focuses on interdisciplinary collaboration between neuroscientists and members of UC Berkeley programs in engineering, chemistry, statistics, and computation. It also runs the neuroscience PhD program. | neuroscience, graduate, phd, research | has parent organization: University of California at Berkeley; Berkeley; USA | nif-0000-10720 | SCR_001991 | 2026-08-11 09:40:30 | 0 | ||||||||||
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Project Halo Resource Report Resource Website 1+ mentions |
Project Halo (RRID:SCR_000136) | Project Halo | data or information resource, portal, organization portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. Project Halo is a staged, long-range research effort by Vulcan Inc. towards the development of a Digital Aristotlea reasoning system capable of answering novel questions and solving advanced problems in a broad range of scientific disciplines and related human affairs. The project focuses on creating two primary functions: a tutor capable of instructing and assessing students in those subjects, and a research assistant with broad, interdisciplinary skills to help scientists and others in their work. Vulcan began work towards this ambitious vision in 2003 with the Halo Pilot a six-month effort to investigate the feasibility of creating a scientific knowledge base capable of answering novel questions from the AP (1st year college level) chemistry test. Three teams SRI International, Cycorp, and Ontoprise developed knowledge bases, for a limited section of an AP-chemistry syllabus, that were able to correctly answer 40 to 50 percent of the associated questions from the AP test. Since 2004, Project Halo has worked to improve these systems, with an emphasis on enabling knowledge entry by domain experts, instead of specialists in artificial intelligence software. In 2004, Vulcan began the development of Automated User-Centered Reasoning and Acquisition System (AURA), by SRI, that enables domain experts (graduate students in Biology, Chemistry, and Physics) to enter knowledge from introductory science textbooks. In 2006, an evaluation of AURA showed that students could create AURA knowledge bases that correctly answered 40 percent of the questions on a limited AP exam. In 2008, the next evaluation demonstrated an improvement of that score to 70 percent correct. In parallel, Project Halo has sponsored Ontoprise to develop semantic extensions to MediaWiki, the software that Wikipedia runs on. Ontoprise has developed a set of Semantic MediaWiki (SMW)+ extensions to MediaWiki that provide a community-based environment for authoring ontologies and creating semantically enhanced wikis. SMW+ has been widely used and is being applied in project management, enterprise collaboration and knowledge management, business intelligence, and the management of large terminology sets. In 2007, Vulcan began a new effort, Halo Advanced Research (HalAR), to address the difficult knowledge representation and reasoning (KR) challenges that prevent the realization of Digital Aristotle. This effort has produced a new semantic rule language and reasoning system, Semantic Inferencing on Large Knowledge (SILK), which includes major advances, including for default and higher-order reasoning over the web. | project, tutor, research assistant, science, knowledge-base, semantic mediawiki, ontology, textbook, book, training material, digital book, data mining, biology | has parent organization: Stanford Research Institute International | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_144483 | SCR_000136 | 2026-08-11 09:40:06 | 1 | ||||||||
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EuMMCR Resource Report Resource Website 10+ mentions |
EuMMCR (RRID:SCR_001506) | EuMMCR | biomaterial supply resource, cell repository, material resource | Embryonic stem cell distribution unit that distributes material arising within European Conditional Mouse Mutagenesis Program consortium, currently targeting vectors and ES cells. Upon user request EUCOMM grow targeting vectors from glycerol stocks and prepare vector DNA. Identity of vector is verified by restriction mapping. Upon user request EUCOMM thaw, expand and re-freeze several aliquots of desired ES cell clone. Standard controls include PCR based assay. Upon additional request EuMMCR unit develops genotyping PCR, which can be used to genotype chimeric mice that may be generated using those ES cell clones. | embryonic stem cell, vector, experimental protocol, male, dna, genotype |
is used by: EUCOMMTOOLS is listed by: One Mind Biospecimen Bank Listing is related to: European Conditional Mouse Mutagenesis Program has parent organization: Helmholtz Center Munich |
Free, Freely available | nlx_152805 | http://www.eummcr.org/ | SCR_001506 | EuMMCR - European Mouse Mutant Cell Repository, European Mouse Mutant Cell Repository | 2026-08-11 09:40:22 | 24 | ||||||
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NIDDK Inflammatory Bowel Disease Genetics Consortium Resource Report Resource Website 1+ mentions |
NIDDK Inflammatory Bowel Disease Genetics Consortium (RRID:SCR_001461) | IBDGC, NIDDKIBDGC | biomaterial supply resource, cell repository, material resource | Repository of biospecimen and phenotype data collected from Crohn's disease and ulcerative colitis cases and controls recruited at six sites throughout North America that are available to the scientific community. Phenotyping is performed using a standardized protocol, and lymphoblastoid cell lines are established for each subject. Phenotype data for each subject are collected by the Consortium's Data Coordinating Center (DCC), and phenotype data for all subjects with DNA samples are available. The resulting DNA samples have already been utilized by the Consortium to complete various association studies, including genome-wide association studies using dense genotyping arrays. Researchers can obtain DNA samples and phenotype, genotype, and pedigree data through the Data Repository. GWAS data must be requested through dbGAP. The IBDGC is involved with independent genetic research studies and actively works with members of the IBD and genetic communities on collaborative projects. They are also members of the International IBD Genetics Consortium. Phenotype Tools: The Consortium Phenotype Committee, led by Dr. Hillary Steinhart designed and validated paper forms to collect extensive phenotype data on Crohn's Disease and ulcerative colitis. Consortium phenotype tools are available for use by non-Consortium members. | dna, cell line, serum, lymphocyte, lymphoblastoid cell line, gene, loci, genetic analysis, blood, phenotype, genome-wide association study, genotype, pedigree, metadata standard, genotyping array |
uses: NCBI database of Genotypes and Phenotypes (dbGap) is listed by: One Mind Biospecimen Bank Listing is listed by: NIDDK Information Network (dkNET) has parent organization: Yale School of Medicine; Connecticut; USA |
Inflammatory Bowel Disease, Crohn's disease, Ulcerative colitis, Control, Family member | NIDDK U01 DK062429 | Free, Freely Available | nlx_152706 | http://medicine.yale.edu/intmed/ibdgc/ | SCR_001461 | IBD Genetics Consortium, NIDDKIBD Genetics Consortium, Inflammatory Bowel Disease Genetic Consortium | 2026-08-11 09:40:21 | 3 | ||||
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Polar Geospatial Center Resource Report Resource Website |
Polar Geospatial Center (RRID:SCR_000402) | PGC | data or information resource, portal, organization portal | Portal as data resource, map repository, and GIS service provider for federally-funded scientists conducting research in the Arctic and Antarctic. The PGC holds an extensive collection of satellite imagery and aerial photography at varying resolutions. | arctic, antarctic, geospatial, polar, mapping, gis, remote sensing, cartography, map, image collection, satellite imagery, aerial photography |
is listed by: CINERGI has parent organization: University of Minnesota Twin Cities; Minnesota; USA |
NSF | Free, Freely available | nlx_154743 | SCR_000402 | 2026-08-11 09:40:09 | 0 | |||||||
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UKU Neuroscience and Neurology Links Resource Report Resource Website |
UKU Neuroscience and Neurology Links (RRID:SCR_001733) | data or information resource, portal, information resource | Portal of neuroscience and neurology resources pertaining to the University of Eastern Finland. | neuroscience, neurology, university of eastern finland, public university |
has parent organization: University of Eastern Finland at Kuopio; Kuopio; Finland has parent organization: University of Eastern Finland; Eastern Finland; Finland |
Free | nif-0000-00099 | SCR_001733 | UKU Neuroscience Links, UKU Neurology Links | 2026-08-11 09:40:26 | 0 | ||||||||
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International Gene Trap Consortium Resource Report Resource Website 10+ mentions |
International Gene Trap Consortium (RRID:SCR_002305) | IGTC | biomaterial supply resource, cell repository, material resource | Consortium represents all publicly available gene trap cell lines, which are available on non-collaborative basis for nominal handling fees. Researchers can search and browse IGTC database for cell lines of interest using accession numbers or IDs, keywords, sequence data, tissue expression profiles and biological pathways, can find trapped genes of interest on IGTC website, and order cell lines for generation of mutant mice through blastocyst injection. Consortium members include: BayGenomics (USA), Centre for Modelling Human Disease (Toronto, Canada), Embryonic Stem Cell Database (University of Manitoba, Canada), Exchangeable Gene Trap Clones (Kumamoto University, Japan), German Gene Trap Consortium provider (Germany), Sanger Institute Gene Trap Resource (Cambridge, UK), Soriano Lab Gene Trap Resource (Mount Sinai School of Medicine, New York, USA), Texas Institute for Genomic Medicine - TIGM (USA), TIGEM-IRBM Gene Trap (Naples, Italy). | embryo, embryonic, gene, genome, allele, analysis, assay, bioinformatics, blastocyst, cell, colony, consortium, genotyping, hybridization, in situ, international, knockout, murine, mutant, mutation, probe, qpcr, researcher, scientist, sequence, stem cell, tagging, trap, vector, cell line, embryonic stem cell line, FASEB list |
is listed by: One Mind Biospecimen Bank Listing is related to: Centre for Modeling Human Disease Gene Trap Resource has parent organization: University of California at San Francisco; California; USA is parent organization of: International Gene Trap Consortium Pathways |
NCRR P41 RR01081 | PMID:16381950 | Restricted | nif-0000-00036 | https://igtc.org/ | SCR_002305 | International Gene Trap Consortium | 2026-08-11 09:40:35 | 43 | ||||
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National University of Singapore, Computational Bioengineering Laboratory Resource Report Resource Website |
National University of Singapore, Computational Bioengineering Laboratory (RRID:SCR_000284) | data or information resource, portal, organization portal | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on July 31,2025. Computational Bioengineering Laboratory in the Division of Bioengineering at the National University of Singapore has expertise in mathematical modeling, software and algorithm development, numerical techniques such as finite element analysis, computer simulation and visualization, signal and image processing plus an understanding of the biological systems that drive our efforts. The following are the main themes underlying the Computational Bioengineering Laboratory projects: - Computational Biology - Computational Physiology - Biosignal & Bioimage Processing - Integrated Physiology & the Physiome Project | finite element, algorithm, bioengineering, bioimage, biological, biosignal, computational, development, laboratory, mathematical, modeling, physiome, psysiology, signal, simulation, software, system, technique, visualization, image | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10369 | SCR_000284 | NUS CompBioLab | 2026-08-11 09:40:07 | 0 | |||||||||
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MNI brain and the Talairach atlas Resource Report Resource Website 50+ mentions |
MNI brain and the Talairach atlas (RRID:SCR_000434) | mni2tal | data or information resource, project portal, portal | Resource that discusses MNI brain, and the difference between the MNI brain and the brain in the Talairach atlas. Approaches to converting MNI coordinates to Talairach coordinates and a few other methods for locating your activation are also presented.Matlab function that transforms MNI coordinates to Talaraich coordinates. The inverse function, tal2mni is also available. | mni coordinate, mri, matlab, talaraich, coordinate |
is used by: Sleuth has parent organization: CBU Imaging Wiki has parent organization: Washington University School of Medicine in St. Louis; Missouri; USA |
Free, Freely available | SciRes_000110, SCR_001965, nif-0000-10537 | SCR_000434 | 2026-08-11 09:40:09 | 86 | ||||||||
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Japan Society for the Promotion of Science Resource Report Resource Website 10+ mentions |
Japan Society for the Promotion of Science (RRID:SCR_001085) | JSPS | funding resource, regional funding resource, group | Research and outreach organization dedicated to promoting science, research and education. The society has four main objectives, including building international cooperative networks, enhancing education and research at universities, building evidence-based science-promotion systems and creating diverse world level knowledge. | research, science, promotion, japan, education | nlx_151882 | SCR_001085 | 2026-08-11 09:40:16 | 49 | ||||||||||
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BacPac Resources Center Resource Report Resource Website 100+ mentions |
BacPac Resources Center (RRID:SCR_001520) | BPRC | reagent supplier, material resource | It is the distribution arm of their academic laboratory. They operate on a cost-recovery mechanism in order to make the resources generated in their laboratory available to the academic scientific community. While clones and screening services are widely available, library arrays are primarily available to researchers with a scientific need to analyze most clones in the library. This site contains information on currently available BAC and PAC genomic DNA libraries, BAC Clones, PAC Clones, Fosmid Clones, cDNA collections, high-density colony hybridization filters, and BAC and PAC cloning vectors. Protocols used in our laboratory for the hybridization-based screening of colony filters, purification of BAC and PAC DNA, and end-sequencing methodologies, are also provided. BPRC does not list clones, for two reasons: 1)most clones have not been characterized and lack specific data. 2)all clones are part of libraries and all clones from a particular library share common characteristics. Hence, to find out if BPRC has a particular clone, one needs either use Automatic Clone Validation or else find out if the clone is compatible with the range of clone names for a corresponding clone library. Typically (although not always), clone names are derived from the library name. BPRC uses the NCBI-recommended clone nomenclature & library nomenclature. Most arrayed libraries are available in frozen microtiter dish format to academic and non-academic users provided that there is a scientific need for complete-library access. (for instance to annotate, modify or analyze all BAC clones as part of a genome project). | clones and screening services, library arrays, genomic DNA libraries, BAC Clones, PAC Clones, Fosmid Clones, cDNA collections, BAC and PAC cloning vectors | has parent organization: Childrens Hospital Oakland Research Institute | Free, Freely available | nif-0000-09578, SCR_007215, nlx_152819 | http://bacpac.chori.org/ | SCR_001520 | BacPac Resources Center: BAC Clones Distribution Center, BAC Clones Distribution Center, BACPAC Resources Center | 2026-08-11 09:40:22 | 459 |
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