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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Center for Research in Biological Systems Resource Report Resource Website |
Center for Research in Biological Systems (RRID:SCR_002666) | data or information resource, portal, organization portal | CRBS is a UCSD organized research unit (ORU) that exists to provide human resources, high technology equipment, and administrative services to researchers engaged in fundamental research on cell structure and function relationships in central nervous system processes, cardiovascular networking, and muscular contraction through multiple scales and modalities. CRBS scientists investigate these processes through invention, refinement, and deployment of sophisticated technologies, especially: - High-powered electron microscopes that reveal three-dimensional cell structures - State-of-the-art X-ray crystallography and magnetic resonance analysis that provide detail on protein structures at high-resolution - Laser-scanning and confocal light microscopes that reveal molecules tagged with fluorescent markers as they traffic within cells and pass transfer signals within and between cells - High performance computing and grid-based integration of distributed data CRBS facilitates an interdisciplinary infrastructure in which people from biology, medicine, chemistry, and physics can work with those from computer science and information technologies in collaborative research. Researchers share interests in the study of complex biological systems at many scales, from the structures of enzymes, proteins, and the body's chemical communications network at atomic and molecular levels, to an organism's physiology, strength, and support at cellular and tissue levels. The CRBS infrastructure integrates resources for high-performance computing, visualization, and database technologies, and the grid-integration of large amounts of archival storage data. The California Institute for Telecommunications and Information Technology (Cal-IT2) and the San Diego Supercomputer Center (SDSC) are collaborators in simulating the activity of biological systems, analyzing the results, and organizing the growing storehouse of biological information. CRBS is an entity evolving as research evolves. It forges interactions with biotechnology and biocomputing companies for technology transfer. Interaction, collaboration, and multiscale research produce new perspectives, reveal fruitful research topics, lead to the development of new technologies and drugs, and train a new generation of researchers in biological systems. Sponsors: CRBS is supported by the University of California at San Diego. | drug, electron microscope, enzyme, fluorescent, administrative, atomic, biocomputing, biological system, biology, biotechnology, cardiovascular, cell, central nervous system, chemistry, computer science, computing, confocal light microscope, contraction, database, grid-based integration, high technology equipment, human, laser-scanning microscope, magnetic resonance analysis, marker, medicine, molecule, muscular, networking, organism, physics, physiology, process, protein, research, resolution, signal transfer, structure, technology, three-dimensional, tissue, traffic, visualization, x-ray crystallography |
is listed by: DataCite has parent organization: University of California at San Diego; California; USA has parent organization: University of California; California; USA |
Restricted | nif-0000-23293 | https://api.datacite.org/dois?prefix=10.7295 | SCR_002666 | CRBS | 2026-02-17 10:00:01 | 0 | |||||||
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NIH Human Pluripotent Stem Cell Registry Resource Report Resource Website 1+ mentions |
NIH Human Pluripotent Stem Cell Registry (RRID:SCR_003149) | NIH Human Embryonic Stem Cell Registry | biomaterial supply resource, cell repository, material resource | A listing of human embryonic cell lines that are eligible for use in NIH funded research. Those lines that carry disease-specific mutations are noted as such under the line name. Total Eligible Lines = 200. The purpose of the Registry is to provide investigators with: # a unique NIH Code for each cell line that must be used when applying for NIH funding and # contact information to facilitate investigators' acquisition of stem cells. Before submitting a new grant application and supporting materials for consideration of a human embryonic stem cell line, scientists may wish to see what lines are already under consideration: * Human embryonic stem cell lines submitted to NIH that are being reviewed to determine if they may be used in NIH-supported research, http://grants.nih.gov/stem_cells/registry/pending.htm President George W. Bush required that the name of the registry be changed in his Executive Order #13435, issued on June 20, 2007. As a result of this Executive Order, the former National Institutes of Health Human Embryonic Stem Cell Registry will now be called the National Institutes of Health Human Pluripotent Stem Cell Registry. The registry will now include both human embryonic stem cells that were derived consistent with the President's policy of August 9, 2001 and human pluripotent stem cells derived from non-embryonic sources. | embryonic, cell, human, registry, stem cell, embryonic stem cell, cell line, human embryonic stem cell line, human pluripotent stem cell, adult, fetal, mutation |
is listed by: One Mind Biospecimen Bank Listing is related to: One Mind Biospecimen Bank Listing is related to: Wisconsin International Stem Cell Bank is related to: National Stem Cell Bank is related to: NIF Data Federation is related to: Integrated Cell Lines has parent organization: National Institutes of Health |
NIH ; NIH Blueprint for Neuroscience Research |
Free, Freely available | nif-0000-00565 | SCR_003149 | NIH Human Embryonic Stem Cell Registry, National Institutes of Health Human Pluripotent Stem Cell Registry | 2026-02-17 10:00:12 | 7 | ||||||
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Spatially unbiased atlas template of the cerebellum and brainstem Resource Report Resource Website 10+ mentions |
Spatially unbiased atlas template of the cerebellum and brainstem (RRID:SCR_004969) | SUIT | data or information resource, reference atlas, software resource, atlas | High-resolution atlas template of the human cerebellum and brainstem, based on the anatomy of 20 young healthy individuals. The atlas is spatially unbiased, i.e. the location of each structure is equal to the expected location of that structure across individuals in MNI space. At the same time, the new template preserves the anatomical detail of cerebellar structures through a nonlinear atlas-generation algorithm. By using automated nonlinear normalization methods, a more accurate intersubject-alignment than current whole-brain methods can be achieved. The toolbox allows you to: * Automatically isolate cerebellar structures from the cerebral cortex based on an anatomical image * Achieve accurate anatomical normalization of cerebellar structures * Normalize functional imaging data for fMRI group analysis * Normalize focal cerebellar lesions for lesion-symptom mapping * Use Voxel-based morphometry (VBM) to determine patterns of cerebellar degeneration or growth * Use a probabilisitc atlas in SUIT space to assign locations to different cerebellar lobuli in an unbiased and informed way * Automatically define ROIs for specific cerebellar lobuli and summarize function and anatomical data * Improve normalization of the deep cerebellar nuclei using an ROI-driven normalization. The suit-toolbox requires Matlab (Version 6.5 and higher) and SPM. The newest version only supports SPM8, although it likely runs under SPM2 or 5 as well. A standalone version for the suit-toolbox is not planned. Usage of the isolation or normalization functions, however, does not require that the analysis is conducted under SPM. | human, cerebellum, brainstem | has parent organization: UCL Motor Control Group | Healthy | PMID:20965257 PMID:16904911 |
The template and software are freely available as an Open unspecified license SPM-toolbox. | nlx_144300 | SCR_004969 | Spatially unbiased atlas template of the cerebellum brainstem, A spatially unbiased atlas template of the cerebellum brainstem (SUIT), A spatially unbiased atlas template of the cerebellum and brainstem, A spatially unbiased atlas template of the cerebellum and brainstem (SUIT), A spatially unbiased atlas template of the cerebellum brainstem | 2026-02-17 10:00:42 | 28 | |||||
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McConnell Brain Imaging Center Resource Report Resource Website 100+ mentions |
McConnell Brain Imaging Center (RRID:SCR_008364) | BIC | data or information resource, portal, organization portal | Center dedicated to understanding and treatment of neurological diseases by creating and using imaging methods to study human nervous system. Dedicated to research imaging of human brain. Brain structure is imaged using anatomical Magnetic Resonance Imaging (aMRI) while brain physiology is imaged using Positron Emission Tomography (PET), Magnetic Resonance Spectroscopy (MRS), functional MRI (fMRI) and magnetoencephalography (MEG). BIC maintains linkages with clinical, clinical research and basic research communities within Montreal Neurological Institute (MNI), McGill University and has collaborations across Quebec, Canada, USA and internationally. | emission, engineering, environment, fmri, functional mri, 3-dimensional, amri, anatomical, biomedical, brain, chemistry, clinical, computational, computer science, disease, disorder, human, imaging, magnetic, magnetoencephalography, medical, mri, mrs, nervous system, neurological, neurology, neuroscience, neurosurgery, pet, physics, physiology, positron, psychiatric, psychology, research, resonance, scanner, software, spectroscopy, spectrum, technology, tomography, treatment, neuroimaging, meg, atlas, database, data visualization software, data analysis software, data processing software |
is related to: MINC/Atlases has parent organization: McGill University; Montreal; Canada is parent organization of: MINC Example files is parent organization of: MINC is parent organization of: MNI N3 is parent organization of: McConnell Brain Imaging Center MNI Macaque Atlas is parent organization of: McConnell Brain Imaging Center MNI Rhesus Macaque Atlas is parent organization of: McConnell Brain Imaging Center MNI Cynomolgus Macaque Atlas is parent organization of: NIHPD Objective 1 atlases (4.5 - 18.5y) is parent organization of: NIHPD Objective 2 atlases (birth - 4.5 years) is parent organization of: ICBM 152 Nonlinear atlases version 2009 |
McConnell Family Foundation | nif-0000-25551 | https://www.mcgill.ca/bic/resources/brain-atlases/ovine-brain-atlas https://www.mcgill.ca/bic/resources/brain-atlases/human https://www.mcgill.ca/bic/resources/brain-atlases/non-human-primate |
SCR_008364 | McConnell Brain Imaging Center, McConnell Brain Imaging Centre, BIC | 2026-02-17 10:01:21 | 129 | ||||||
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Candidate Genes to Inherited Diseases Resource Report Resource Website 1+ mentions |
Candidate Genes to Inherited Diseases (RRID:SCR_008190) | G2D | data or information resource, production service resource, analysis service resource, database, service resource, data analysis service | THIS RESOURCE IS NO LONGER IN SERVICE, documented August 22, 2016. A database of candidate genes for mapped inherited human diseases. Candidate priorities are automatically established by a data mining algorithm that extracts putative genes in the chromosomal region where the disease is mapped, and evaluates their possible relation to the disease based on the phenotype of the disorder. Data analysis uses a scoring system developed for the possible functional relations of human genes to genetically inherited diseases that have been mapped onto chromosomal regions without assignment of a particular gene. Methodology can be divided in two parts: the association of genes to phenotypic features, and the identification of candidate genes on a chromosonal region by homology. This is an analysis of relations between phenotypic features and chemical objects, and from chemical objects to protein function terms, based on the whole MEDLINE and RefSeq databases. | function, gene, genetic, chromosome, disease, disorder, genome, homology, human, phenotype, protein, region, candidate gene, database, data warehouse, data set, bio.tools |
is listed by: 3DVC is listed by: Gene Ontology Tools is listed by: Debian is listed by: bio.tools is related to: Gene Ontology has parent organization: European Molecular Biology Laboratory has parent organization: EMBL - Bork Group |
PMID:16115313 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-21162, biotools:g2d | http://www.bork.embl-heidelberg.de/g2d/ http://www.ogic.ca/projects/g2d_2/ https://bio.tools/g2d |
SCR_008190 | G2D - Candidate Genes to Inherited Diseases, Genes2Diseases | 2026-02-17 10:01:11 | 2 | |||||
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NEIBank Resource Report Resource Website 10+ mentions |
NEIBank (RRID:SCR_007294) | NEIBank | data or information resource, production service resource, analysis service resource, database, service resource, data analysis service | An integrated resource for genomics and bioinformatics in vision research including expressed sequence tag (EST) data and sequence-verified cDNA clones for multiple eye tissues of several species, web-based access to human eye-specific SAGE data through EyeSAGE, and comprehensive, annotated databases of known human eye disease genes and candidate disease gene loci. All expression- and disease-related data are integrated in EyeBrowse, an eye-centric genome browser. NEIBank provides a comprehensive overview of current knowledge of the transcriptional repertoires of eye tissues and their relation to pathology. The data can be interrogated in several ways. Specific gene names can be entered into the search window. Alternatively, regions of the genome can be displayed. For example, entering two STS markers separated by a semicolon (e.g. RH18061;RH80175) allows the display of the entire chromosomal region associated with the mapping of a specific disease locus. ESTs for each tissue can then be displayed to help in the selection of candidate genes. In addition, sequences can be entered into a BLAST search and rapidly aligned on the genome, again showing eye derived ESTs for the same region. To see the same region at the full UCSC site, cut and paste the location from the position window of the genome browser. EyeBrowse includes a custom track display SAGE data for human eye tissues derived from the EyeSAGE project. The track shows the normalized sum of SAGE tag counts from all published eye-related SAGE datasets centered on the position of each identifiable Unigene cluster. This indicates relative activity of each gene locus in eye. Clicking on the vertical count bar for a particular location will bring up a display listing gene details and linking to specific SAGE counts for each eye SAGE library and comparisons with normalized sums for neural and non-neural tissues. To view or alter settings for the EyeSAGE track on EyeBrowse, click on the vertical gray bar at the left of the display. Other custom tracks display known eye disease genes and mapped intervals for candidate loci for retinal disease, cataract, myopia and cornea disease. These link back to further information at NEIBank. | ear, taste, genetics, cdna, chicken, ciliary body, cornea, fovea, dog, guinea pig, human, iris, lacrimal gland, lens, mouse, ocular surface system, optic nerve, rabbit, rat, retina, rpe, choroid, sequence data, trabecular meshwork, whole eye, zebrafish, library, vision, eye, gene, library, disease, loci, ocular genomics, cdna library, expressed sequence tag, blast, cataract, cornea, glaucoma, myopia, retinal disease, genomics, eye tracking device | has parent organization: National Eye Institute (NEI) Commons | Eye disease, Cataract, Glaucoma, Myopia, Retinal disease | NIH Blueprint for Neuroscience Research ; NEI R01 EY13315; NEI R01 EY11286; NEI P30EY0054722 |
PMID:18648525 | nif-0000-00097 | SCR_007294 | NEI Bank | 2026-02-17 10:01:02 | 15 | |||||
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Human Islet Research Network (HIRN) Resource Report Resource Website 100+ mentions |
Human Islet Research Network (HIRN) (RRID:SCR_014393) | HIRN | data or information resource, topical portal, portal, disease-related portal | Network helps to organize and support collaborative research related to loss of functional beta cell mass in Type 1 Diabetes (T1D). Project consists of four independent research initiatives: Consortium on Beta Cell Death and Survival (CBDS), Consortium on Human Islet Biomimetics (CHIB), Consortium on Modeling Autoimmune Interactions (CMAI), Consortium on Targeting and Regeneration (CTAR), and Human Pancreas Analysis Program (HPAP). | islet, human, consortia, functional loss, beta cell, research network, funding resource |
is used by: Hypothesis Center is listed by: NIDDK Information Network (dkNET) is related to: Pancreatlas is related to: scPancMeta App is related to: PANC-DB has organization facet: HIRN Consortium on Beta Cell Death and Survival has organization facet: HIRN Consortium on Human Islet Biomimetics has organization facet: HIRN Consortium on Modeling Autoimmune Interactions has organization facet: HIRN Consortium on Targeting and Regeneration has organization facet: HIRN Human Pancreas Analysis Program has organization facet: HIRN Bioinformatics Center has organization facet: HIRN Coordinating Center has organization facet: HIRN Human Pancreas Analysis Consortium |
Type 1 diabetes, Diabetes | NIDDK | SCR_014393 | Human Islet Research Network | 2026-02-17 10:02:47 | 222 | |||||||
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Vietnam Era Twin Registry Resource Report Resource Website 1+ mentions |
Vietnam Era Twin Registry (RRID:SCR_008807) | VET Registry | data or information resource, topical portal, people resource, patient registry, portal | The Vietnam Era Twin (VET) Registry is a closed cohort composed of approximately 7,000 middle-aged male-male twin pairs both of whom served in the military during the time of the Vietnam conflict (1964-1975). The Registry is a United States Department of Veterans Affairs (VA) resource that was originally constructed from military records; the Registry has been in existence for almost 20 years. It is one of the largest national twin registries in the US and currently has members living in all 50 states. Initially formed to address questions about the long-term health effects of service in Vietnam, the Registry has evolved into a resource for genetic epidemiological studies of mental and physical health conditions. Several waves of mail and telephone surveys have collected a wealth of health-related information on Registry twins, referred to as members. In addition to twins, selected adult offspring of twins and the mothers of those offspring are also VET Registry members. More recent data collection efforts have focused on specific sets of twin pairs and have conducted detailed clinical or laboratory testing. Selected Vietnam Era Registry Research Studies: * Veteran Health Study * VETSA 2: A Longitudinal Study of Cognitive Aging * Alcoholism Course thought Midlife: A Twin Family Study and Offspring of Twins: G, E and GxE Risk for Alcoholism * GE: Offspring of Twins with Substance Use Disorder * Mechanisms Linking Depression to Cardiovascular Risk (Twins Heart Study 2) * Post-traumatic Stress Disorder and Cardiovascular Disease * Biological Markers for Post-traumatic Stress Disorder (T3) * Memory and the Hippocampus in Vietnam-era Twins with PTSD (Time 3) | twin, male, adult, gene, genetic, post-traumatic stress disorder, cardiovascular disease, child, mother, human, substance-related disorder, depressive disorder, memory, hippocampus, mental health, physical health, epidemiology |
has parent organization: U.S. Department of Veterans Affairs is parent organization of: Vietnam Era Twin Registry Biospecimen Repository |
Aging | nlx_144388 | SCR_008807 | 2026-02-17 10:01:24 | 2 | ||||||||
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Center for Comparative Medicine and Translational Research Resource Report Resource Website |
Center for Comparative Medicine and Translational Research (RRID:SCR_008299) | CCMTR | data or information resource, department portal, portal, organization portal | The mission of the CCMTR is to promote scientific discovery and facilitate its clinical application to achieve the goal of improving the health of animals and humans. The needs of the patients direct the emphasis of basic research, patient samples provide the critical resource to investigate the basis of disease, and patient participation in clinical studies is required to generate the evidence needed to apply new drugs, vaccines and technology to the broader patient population. Initiatives at the Center are designed to develop the multidisciplinary teams necessary to bring an idea from the lab to the patient. The Center is home to service cores that provide advanced technology, collect and store clinical patient samples, and perform clinical trials to validate new medical interventions. North Carolina State University''s College of Veterinary Medicine (CVM) is a dynamic community whose members are dedicated to preparing veterinarians and veterinarian scientists while advancing animal and human health from the cellular level through entire ecosystems. | drug, ecosystem, clinical, discovery, disease, health, human, patient, research, scientific, technology, vaccine, veterinary | has parent organization: North Carolina State University; North Carolina; USA | nif-0000-24380 | http://cvm.ncsu.edu/ccmtr/index.htm | SCR_008299 | 2026-02-17 10:01:20 | 0 | ||||||||
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Intramural Research Program Resource Report Resource Website 500+ mentions |
Intramural Research Program (RRID:SCR_012734) | NIA IRP | data or information resource, portal, organization portal | A research program of the NIA which focuses on neuroscience, aging biology, and translational gerontology. The central focus of the program's research is understanding age-related changes in physiology and the ability to adapt to environmental stress, and using that understanding to develop insight about the pathophysiology of age-related diseases. The IRP webpage provides access to other NIH resources such as the Biological Biochemical Image Database, the Bioinformatics Portal, and the Baltimore Longitudinal Study of Aging., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | endocrinology, epidemiology, genetics, behavioral science, biochemistry, biomedical, cancer, cardiology, cell biology, clinical research, cognition, collaboration, gerontology, healthy, hematology, human, immunology, molecular biology, neurobiology, neurogenetics, neuroscience, oncology, osteoarthritis, pathophysiology, physiology, psychology, psychophysiology, research, rheumatology, age-related disease, healthy aging, alzheimer's disease, parkinson's disease, stroke, atherosclerosis, osteoarthritis, diabetes, cancer |
has parent organization: National Institute on Aging is parent organization of: NIA Mouse cDNA Project Home Page is parent organization of: Biological Biochemical Image Database is parent organization of: GERON is parent organization of: Baltimore Longitudinal Study of Aging (BLSA) |
Aging, Age-related disease, Healthy aging, Alzheimer's disease, Parkinson's disease, Atherosclerosis, Osteoarthritis, Cancer, Diabetes, Stroke | NIA | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-09468 | SCR_012734 | National Institute on Aging Intramural Research Program, Intramural Research Program in the NIA, Intramural Research Program in the National Institute on Aging, NIA Intramural Research Program, Intramural Research Program of the National Institute on Aging | 2026-02-17 10:01:54 | 919 | |||||
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Human Genome Epidemiology Network Resource Report Resource Website 10+ mentions |
Human Genome Epidemiology Network (RRID:SCR_013117) | data or information resource, portal, organization portal | Human Genome Epidemiology Network, or HuGENet, is a global collaboration of individuals and organizations committed to the assessment of the impact of human genome variation on population health and how genetic information can be used to improve health and prevent disease. Its goals include: establishing an information exchange that promotes global collaboration in developing peer-reviewed information on the relationship between human genomic variation and health and on the quality of genetic tests for screening and prevention; providing training and technical assistance to researchers and practitioners interested in assessing the role of human genomic variation on population health and how such information can be used in practice; developing an updated and accessible knowledge base on the World Wide Web; and promoting the use of this knowledge base by health care providers, researchers, industry, government, and the public for making decisions involving the use of genetic information for disease prevention and health promotion. HuGENet collaborators come from multiple disciplines such as epidemiology, genetics, clinical medicine, policy, public health, education, and biomedical sciences. Currently, there are 4 HuGENet Coordinating Centers for the implementation of HuGENet activities: CDC''s Office of Public Health Genomics, Atlanta, Georgia; HuGENet UK Coordinating Center, Cambridge, UK; University of Ioannina, Greece; University of Ottawa , Ottawa, Canada. HuGENet includes: HuGE e-Journal Club: The HuGE e-Journal Club is an electronic discussion forum where new human genome epidemiologic (HuGE) findings, published in the scientific literature in the CDC''s Office of Public Health Genomics Weekly Update, will be abstracted, summarized, presented, and discussed via a newly created HuGENet listserv. HuGE Reviews: A HuGE Review identifies human genetic variations at one or more loci, and describes what is known about the frequency of these variants in different populations, identifies diseases that these variants are associated with and summarizes the magnitude of risks and associated risk factors, and evaluates associated genetic tests. Reviews point to gaps in existing epidemiologic and clinical knowledge, thus stimulating further research in these areas. HuGE Fact Sheets: HuGE Fact Sheets summarize information about a particular gene, its variants, and associated diseases. HuGE Case Studies: An on-line presentation designed to sharpen your epidemiological skills and enhance your knowledge on genomic variation and human diseases. Its purpose is to train health professionals in the practical application of human genome epidemiology (HuGE), which translates gene discoveries to disease prevention by integrating population-based data on gene-disease relationships and interventions. Students will acquire conceptual and practical tools for critically evaluating the growing scientific literature in specific disease areas. HUGENet Publications: Articles related to the HuGENet movement written by our HuGENet collaborators. HuGE Navigator: An integrated, searchable knowledge base of genetic associations and human genome epidemiology, including information on population prevalence of genetic variants, gene-disease associations, gene-gene and gene- environment interactions, and evaluation of genetic tests. HuGE Workshops: HuGENet has sponsored meetings and workshops with national and international partners since 2001. Available are detailed summaries, agendas or the ability to download speaker slides. HuGE Book: Human Genome Epidemiology: A Scientific Foundation for Using Genetic Information to Improve Health and Prevent Disease. (The findings and conclusions in this book are those of the author(s) and do not necessarily represent the views of the funding agency.) HuGENet Collaborators: HuGENet is interested in establishing collaborations with individuals and organizations working on population based research involving genetic information. HuGE Funding: Funding opportunities for specific population-based genetic epidemiology research projects are available. Research initiatives whose aims include assessing the prevalence of human genetic variation, the association between genetic variants and human diseases, the measurement of gene-gene or gene-environment interaction, and the evaluation of genetic tests for screening and prevention are compiled to create a posted listing. Additional information and application details can be found by clicking on the respective links. | epidemiology, gene, genetic, genetic variants, genome, articles, collaboration, disease, disease prevention, genomics, health promotion, human, human diseases | has parent organization: Centers for Disease Control and Prevention | nif-0000-00574 | SCR_013117 | HuGENet | 2026-02-17 10:02:20 | 25 | |||||||||
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Human Microbiome Project Resource Report Resource Website 100+ mentions |
Human Microbiome Project (RRID:SCR_012956) | HMP, NIH HMP, HMP1 | data or information resource, project portal, portal | NIH Project to generate resources to characterize the human microbiota and to analyze its role in human health and disease at several different sites on the human body, including nasal passages, oral cavities, skin, gastrointestinal tract, and urogenital tract using metagenomic and traditional approach to genomic DNA sequencing studies.HMP was supported by the Common Fund from 2007 to 2016. | generate, resource, human, body, microbiota, analyze, health, disease, metagenomic, DNA, sequesncing, data |
lists: Pathogen Portal lists: DNACLUST lists: QIIME lists: mothur lists: Greengenes lists: Ribosomal Database Project lists: DeconSeq lists: FragGeneScan lists: MetAMOS lists: MetaPhlAn lists: MetaPhyler lists: METAREP lists: PRINSEQ lists: TagCleaner lists: BioCyc lists: MG-RAST lists: Core Gene Evaluation Script lists: IMG System lists: RAST Server lists: GINGKO lists: inVUE lists: LEfSe lists: Metastats lists: MicrobiomeUtilities lists: Hypothesis Testing and Power Calculations for Comparing Metagenomic Samples from HMP lists: HMPTrees lists: Simrank lists: speciateIT lists: Unifrac lists: Fast-Unifrac lists: SitePainter lists: BMTagger lists: HUMAnN lists: Metapath lists: IMG System is related to: biobakery is related to: Integrative Human Microbiome Project is related to: MicrobiomeDB is related to: Broad Institute Genomics Platform has parent organization: National Institutes of Health is parent organization of: HMP Data Analysis and Coordination Center |
NIH | nif-0000-25316 | https://www.hmpdacc.org/ihmp/ https://www.hmpdacc.org/hmp |
http://nihroadmap.nih.gov/hmp/ | SCR_012956 | Human Microbiome Project, NIH HMP, HMP1, HMP, NIH Human Microbiome Project | 2026-02-17 10:02:20 | 385 | |||||
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mirDIP Resource Report Resource Website 100+ mentions |
mirDIP (RRID:SCR_016770) | data or information resource, portal, database | microRNA data integration portal to find microRNAs that target a gene, or genes targeted by a microRNA, in Homo sapiens. Software to integrate prediction databases to elucidate accurate microRNA:target relationships. Used for human microRNA prediction studies. | data, integral, portal, DIP, collect, predict, microRNA, gene, human | Krembil Foundation ; Ontario Research Fund ; Canadian Cancer Society Research Institute ; Natural Sciences Research Council ; Canada Foundation for Innovation |
PMID:29194489 | Free, Download available, Freely available, email address required to download, Acknowledgement requested | SCR_016770 | mirDIP 4.1, mirDIP, microRNA Data Integration Portal | 2026-02-17 10:02:45 | 187 | ||||||||
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GENCODE Resource Report Resource Website 5000+ mentions Rating or validation data |
GENCODE (RRID:SCR_014966) | data or information resource, project portal, portal, dataset | Human and mouse genome annotation project which aims to identify all gene features in the human genome using computational analysis, manual annotation, and experimental validation. | human, mouse, genome, annotation, sequence, gene features, bio.tools |
is listed by: Debian is listed by: bio.tools is affiliated with: ENCODE |
NHGRI 5U54HG004555; Wellcome Trust WT098051 |
PMID:22955987 | Free | biotools:GENCODE | https://bio.tools/GENCODE | SCR_014966 | ENCODE | 2026-02-17 10:02:45 | 7700 | |||||
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AcceGen Biotech Resource Report Resource Website 1+ mentions |
AcceGen Biotech (RRID:SCR_017274) | biomaterial supply resource, cell repository, material resource | AcceGen offers most complete human and animal cell products and cell/molecular biology services for life science researchers worldwide. Cell line collections include primary cells, tumor cell lines, transfected stable cell lines, stem cells and immortalized cell lines. miRNA agomir/antagomir, nucleic acid kits, enzymes and custom cell/molecular biology services. | Company, AcceGen, human, animal, cell, cell lines, product, service, cell culture | SCR_017274 | 2026-02-17 10:03:33 | 1 | ||||||||||||
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Allen Brain Atlas Resource Report Resource Website 100+ mentions |
Allen Brain Atlas (RRID:SCR_017001) | data or information resource, project portal, portal, atlas | Portal provides access to data and web based applications created for benefit of global research community by Allen Institute for Brain Science. Projects to ombine genomics with neuroanatomy by creating gene expression maps for mouse and human brain. Mouse Brain Atlas, Human Brain Atlas, Developing Mouse Brain Atlas, Developing Human Brain Atlas, Mouse Connectivity Atlas, Non-Human Primate Atlas, and Mouse Spinal Cord Atlas and three related projects Glioblastoma, Mouse Diversity, and Sleep data banks, are used to advance various fields of science especially in neurobiological diseases. | genomic, data, neuroanatomy, gene, expression, map, mouse, human, brain, atlas, neurobiology |
is related to: Allen Software Development Kit is related to: Common Cell Type Nomenclature has parent organization: Allen Institute has parent organization: Allen Institute for Brain Science is parent organization of: Allen Mouse Brain Reference Atlas is parent organization of: Allen Human Brain Atlas is parent organization of: Allen Developing Mouse Brain Atlas is parent organization of: Allen Mouse Brain Connectivity Atlas is parent organization of: Allen Mouse Spinal Cord Atlas is parent organization of: CellTax vignette is parent organization of: Allen Brain Atlas expression map of Cre and other drivers provides: ABA Mouse Brain: Atlas works with: Transcriptomics Explorer works with: Kinase Associated Neural Phospho Signaling |
Free, Freely available | SCR_017530 | SCR_017001 | Allen Brain Atlas, Brain Atlases, Allen Mouse Brain Atlas, The Allen Brain Atlas, Allen Human Brain Atlas | 2026-02-17 10:02:47 | 195 | ||||||||
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International Human Epigenome Consortium Resource Report Resource Website 10+ mentions |
International Human Epigenome Consortium (RRID:SCR_016937) | IHEC | data or information resource, portal, organization portal, consortium | Consortium to coordinate epigenome mapping and characterization worldwide to avoid redundant research effort, to implement high data quality standards, to coordinate data storage, management and analysis and to provide free access to the high resolution reference human epigenome maps for normal and disease cell types to the research community. Promotes data sharing. You may view, search and download the data already released by the different IHEC associated projects via the IHEC Data Portal. | reference, human, epigenome, map, normal, disease, cell, data, quality, standard, sharing |
is related to: 4D Nucleome is related to: Canadian Epigenetics, Environment and Health Research Consortium Network is parent organization of: International Human Epigenome Consortium Data Portal |
Free access to the research community, Open and controlled access to datasets according to policies and guidelines | https://epigenomesportal.ca/ihec/ | SCR_016937 | International Human Epigenome Consortium, IHEC | 2026-02-17 10:02:46 | 26 | |||||||
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Discovar assembler Resource Report Resource Website 10+ mentions |
Discovar assembler (RRID:SCR_016755) | Discovar | software application, data processing software, data analysis software, software resource, sequence analysis software | Software tool for variant calling with reference and de novo assembly of genomes. The heart of DISCOVAR is a de novo genome assembler which can generate de novo assemblies for both large and small genomes. | variant, calling, reference, de novo, assembly, genome, genetic, human, sequence, analysis |
is listed by: OMICtools has parent organization: Broad Institute |
NHGRI R01 HG003474; NHGRI U54 HG003067; NIAID HHSN272200900018C |
PMID:25326702 | Free, Available for download, Freely available | SCR_016755 | Discovar de novo, Discovar | 2026-02-17 10:03:05 | 20 | ||||||
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PyMINEr Resource Report Resource Website 1+ mentions |
PyMINEr (RRID:SCR_016990) | data analysis software, software application, data processing software, software resource | Software tool to automate cell type identification, cell type-specific pathway analyses, graph theory-based analysis of gene regulation, and detection of autocrine-paracrine signaling networks. Finds Gene and Autocrine-Paracrine Networks from Human Islet scRNA-Seq. | automate, cell, type, identification, pathway, analysis, gene, regulation, autocrine, paracrine, signaling, network, human, islet, scRNA-seq, dataset | NIDDK R24 DK096518; NHLBI R24 HL123482; NIDDK R01 DK115791; Fraternal Order of Eagles Diabetes Research Center ; University of Iowa Center for Gene Therapy ; Carver Chair in Molecular Medicine ; NIGMS T32 GM082729 |
PMID:30759402 | Free, Available for download, Freely available, Tutorial available | SCR_016990 | 2026-02-17 10:03:31 | 5 | |||||||||
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ValIdated Systematic IntegratiON of epigenomic data Resource Report Resource Website 1+ mentions |
ValIdated Systematic IntegratiON of epigenomic data (RRID:SCR_016921) | VISION | data or information resource, catalog, project portal, database, portal | International project to analyze mouse and human hematopoiesis, and provide a tractable system with clear clinical significance and importance to NIDDK. Collection of information from the flood of epigenomic data on hematopoietic cells as catalogs of validated regulatory modules, quantitative models for gene regulation, and a guide for translation of research insights from mouse to human. | analyze, mouse, human, hematopoietic, cell, blood, component, collection, epigenomic, data, catalog, gene, regulation | is listed by: NIDDK Information Network (dkNET) | National Institute for Diabetes and Digestive Diseases ; NIH ; NIDDK |
SCR_016921 | ValIdated Systematic IntegratiON of epigenomic data, ValIdated Systematic IntegratiON | 2026-02-17 10:02:46 | 9 |
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