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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 | |||||||||||||
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NIH Division of Nutrition Research Coordination Resource Report Resource Website |
NIH Division of Nutrition Research Coordination (RRID:SCR_001469) | DNRC | data or information resource, portal, topical portal, training resource | Coordinates nutritional sciences-related research and research training across the National Institutes of Health (NIH) and among Federal Agencies by providing mechanisms to communicate research, research training, policy, and education initiatives. The DNRC facilitates the exchange of information, coordinates workshops and seminars on critical issues, encourages national and international research collaborations, and serves as the NIH primary point of contact for the Department of Health and Human Services (DHHS) and other agencies, departments, and organizations in matters pertaining to nutritional sciences and physical activity. Through its dedicated efforts to promote scientific policy reviews, innovative research, interagency collaboration, and technical advancements, the DNRC strives to define the increasing roles of nutritional sciences and physical activity in health promotion and disease prevention and treatment. | nutrition, adult human, child, nutritional sciences, physical activity, health promotion, disease prevention, treatment |
is listed by: NIDDK Information Network (dkNET) has parent organization: National Institutes of Health is parent organization of: Human Nutrition Research Information Management |
NIH | Free, Freely Available | nlx_152699 | http://dnrc.nih.gov/ | SCR_001469 | Division of Nutrition Research Coordination | 2026-09-12 12:55:26 | 0 | |||||
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PathCase Pathways Database System Resource Report Resource Website |
PathCase Pathways Database System (RRID:SCR_001835) | analysis service resource, data analysis service, data analysis software, data or information resource, data processing software, data storage software, data visualization software, database, production service resource, service resource, software application, software resource | An integrated software system for storing, managing, analyzing, and querying biological pathways at different levels of genetic, molecular, biochemical and organismal detail. The system contains a pathways database and associated tools to store, compare, query, and visualize metabolic pathways. The aim is to develop an integrated database and the associated tools to support computational analysis and visualization of biochemical pathways. At the computational level, PathCase allows users to visualize pathways in multiple abstraction levels, and to pose predetermined and ad hoc queries using a graphical user interface. Pathways are represented as graphs, and implemented as a relational database. The available functional annotations include the identity of the substrate(s), product(s), cofactors, activators, inhibitors, enzymes or other processing molecules, GO-categories of enzymes (as well as GO hierarchy visualizations two-way-linked to PathCase enzymes), EC number information and the associated links, and synonyms and encoding genes of gene products. | pathway analysis software, pathway analysis, pathway, metabolic, systems function, behavior, visualize pathway, web interface, integrated | NSF DBI 0218061; NSF DBI 0743705; NSF DBI 0849956; NSF CRI 0551603; NIH GM088823 |
PMID:18728044 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-20885, SCR_002104, nif-0000-10398 | http://nashua.cwru.edu/pathways/ | SCR_001835 | PathCase - Metabolic Pathway Database System, PathCase | 2026-09-12 12:55:32 | 0 | ||||||
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Scripps Research Institute Resource Report Resource Website 1+ mentions |
Scripps Research Institute (RRID:SCR_001907) | TSRI | institution | Nonprofit American medical research facility that focuses on research and education in the biomedical sciences. Headquartered in San Diego, California with a sister facility in Jupiter, Florida, the institute has laboratories employing scientists, technicians, graduate students, and administrative and other staff, making it the largest private, non-profit biomedical research organization in the United States and among the largest in the world. | institution, American, medical, research, education, biomedical, private, organization |
uses: DIRECT2experts is related to: Clinical and Translational Science Awards Consortium is related to: The Pancreatic Beta-Cell Consortium is parent organization of: piCALL is parent organization of: GeneChip Operating Software is parent organization of: TSRI-Yates Lab is parent organization of: BioGPS: The Gene Portal Hub is parent organization of: METLIN is parent organization of: AutoDock Vina is parent organization of: ViReMa is parent organization of: Autopack is parent organization of: Integrative Neuroscience Initiative on Alcoholism is parent organization of: Joint Center for Structural Genomics is parent organization of: Functional Glycomics Research is parent organization of: VIPERdb is parent organization of: GOEx - Gene Ontology Explorer is parent organization of: VIPERdb is parent organization of: Zinc Finger Tools is parent organization of: XCMS is parent organization of: Chemoproteomic identification and therapeutic validation of proteins of metabolic significance is parent organization of: Leginon is parent organization of: outbreak.info is parent organization of: Scripps Research Institute Florida Cell Based High Throughput Screening Core Facility |
NIH | THIS RESOURCE IS NO LONGER IN SERVICE | grid.214007.0, ISNI: 122199231, Wikidata: Q793867, nif-0000-10475 | https://ror.org/02dxx6824 | SCR_001907 | The Scripps Research Institute, Scripps Research | 2026-09-12 12:55:34 | 1 | |||||
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NIH VideoCasting Resource Report Resource Website 1+ mentions |
NIH VideoCasting (RRID:SCR_001885) | VideoCast | data or information resource, narrative resource, podcast, video resource | VideoCasting of special NIH events, seminars, conferences, meetings and lectures available to viewers on the NIH network and the Internet from the VideoCast web site. VideoCasting is the method of electronically streaming digitally encoded video and audio data from a server to a client. VideoCast is often referred to as streaming video. Streaming files are not downloaded, but rather are broadcast in a manner similar to television broadcasts. The videos are processed by a compression program into a streaming format and delivered in a staggered fashion to minimize impact upon the network and maximize the experience of the content for the viewer. When users request a streaming file they will receive an initial burst of data after a short delay (file latency). While content is being viewed, the streaming server machine and software continues to stream data in such a manner that the viewer experiences no break in the content. CIT can broadcast your seminar, conference or meeting live to a world-wide audience over the Internet as a real-time streaming video. The event can be recorded and made available for viewers to watch at their convenience as an on-demand video or a downloadable podcast. CIT can also broadcast NIH-only or HHS-only content. | event, seminar, conference, meeting, lecture, multimedia |
is used by: NIF Data Federation is used by: Integrated Videos has parent organization: National Institutes of Health |
NIH | Public, The community can contribute to this resource | nif-0000-10454 | SCR_001885 | NIH VideoCasts, NIH VideoCasting and Podcasting, NIH VideoCasting Podcasting, NIH VideoCast, NIH Videos | 2026-09-12 12:55:33 | 2 | ||||||
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PubMed Central Resource Report Resource Website 100+ mentions |
PubMed Central (RRID:SCR_004166) | PMC | data or information resource, database, service resource, storage service resource | Collection of full text archive of biomedical and life sciences journal literature at U.S. National Institutes of Health National Library of Medicine (NIH/NLM). With PubMed Central, NCBI is taking lead in preserving and maintaining open access to electronic literature. Value of PubMed Central, in addition to its role as an archive, lies in what can be done when data from diverse sources is stored in common format in single repository. All articles in PMC are free (sometimes on a delayed basis). Some journals go beyond free, to Open Access. | literature, biomedical, life, science, journal, repository, electronic, literature, gold standard |
uses: PubReader is used by: NIH Heal Project is listed by: OMICtools is related to: PubMed is related to: JISC Open Citations is related to: Biotea is related to: NIF Registry Automated Crawl Data is related to: NIF Literature is related to: Europe PubMed Central is related to: PubReader has parent organization: NCBI |
NIH | Free, Some open access - authors retain copyright, | nlx_18862, OMICS_01193 | SCR_004166 | 2026-09-12 12:56:10 | 253 | |||||||
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PDBe - Protein Data Bank in Europe Resource Report Resource Website 50+ mentions |
PDBe - Protein Data Bank in Europe (RRID:SCR_004312) | PDBe | data or information resource, data repository, database, service resource, storage service resource | The European resource for the collection, organization and dissemination of data on biological macromolecular structures. In collaboration with the other worldwide Protein Data Bank (wwPDB) partners - the Research Collaboratory for Structural Bioinformatics (RCSB) and BioMagResBank (BMRB) in the USA and the Protein Data Bank of Japan (PDBj) - they work to collate, maintain and provide access to the global repository of macromolecular structure data. The main objectives of the work at PDBe are: * to provide an integrated resource of high-quality macromolecular structures and related data and make it available to the biomedical community via intuitive user interfaces. * to maintain in-house expertise in all the major structure-determination techniques (X-ray, NMR and EM) in order to stay abreast of technical and methodological developments in these fields, and to work with the community on issues of mutual interest (such as data representation, harvesting, formats and standards, or validation of structural data). * to provide high-quality deposition and annotation facilities for structural data as one of the wwPDB deposition sites. Several sophisticated tools are also available for the structural analysis of macromolecules. | x-ray, nmr, cryo-em, hybrid method, dna, protein, rna, sugar, ligand, virus, compound, fold, enzyme, 3d spatial image, structure, macromolecule, protein-protein interaction, gold standard, bio.tools |
is recommended by: NIDDK Information Network (dkNET) is recommended by: NIDDK - National Institute of Diabetes and Digestive and Kidney Diseases is listed by: re3data.org is listed by: bio.tools is listed by: Debian is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) is related to: DNA DataBank of Japan (DDBJ) is related to: EMDataResource.org is related to: Worldwide Protein Data Bank (wwPDB) is related to: Biological Magnetic Resonance Data Bank (BMRB) is related to: DNA DataBank of Japan (DDBJ) is related to: Worldwide Protein Data Bank (wwPDB) is related to: PDBj - Protein Data Bank Japan is related to: Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB) has parent organization: European Bioinformatics Institute is parent organization of: Electron Microscopy Data Bank at PDBe (MSD-EBI) works with: MOLEonline |
European Molecular Biology Laboratory; Heidelberg; Germany ; Wellcome Trust ; BBSRC ; NIH ; European Union ; MRC ; CCP4 |
PMID:21045060 PMID:21460450 PMID:19858099 |
r3d100012791, biotools:pdbe, nlx_32372 | https://bio.tools/pdbe, https://doi.org/10.17616/R3J226 | SCR_004312 | Protein DataBank Europe, Protein DataBank in Europe, PDBe, Protein Data Bank in Europe, Protein Data Bank Europe, Macromolecular Structure Database | 2026-09-12 12:56:11 | 55 | |||||
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Feinstein Institute for Medical Research Resource Report Resource Website |
Feinstein Institute for Medical Research (RRID:SCR_004470) | Feinstein Institute | institution | The Feinstein Institute for Medical Research is the research branch of the North Shore-Long Island Jewish Health System. Biomedical research has been a vital aspect of its two academic medical centers North Shore University Hospital and Long Island Jewish Medical Center since their establishment in the early 1950''s. Through its connection to the hospital system, the Institute bridges the gap between biomedical research and patient care, accessing hundreds of thousands of patients in the health system''s 15 hospitals, four long-term care facilities, three trauma centers, six home health agencies and dozens of outpatient facilities. Institute scientists collaborate with clinicians throughout the system to shed light on basic biological processes underlying disease. This knowledge is used to develop new therapies and diagnostics. Currently, more than 800 scientists and investigators are conducting research in oncology, immunology and inflammation, genetics, psychiatry, neurology, pediatrics, surgery, urology, obstetrics/gynecology and many other specialties. In 2008, the Feinstein received funding from the National Institutes of Health in excess of $28 million, and an additional $10 million from other federal sources. Total annual research funding from all sources exceeded $44 million in 2008. We stand at the threshold of an extraordinary time in medicine. Over the last 100 years, biomedical science has progressed very rapidly. Advances coming from the integration of genomics, proteomics and bioinformatics into the biomedical toolkit hold the promise that this transformation will continue well into the 21st century. The Feinstein Institute for Medical Research is a growing force in research innovation, education and progress. | biomedical research, research |
is related to: Biomarkers of Anti-TNF Treatment Efficacy in Rheumatoid Arthritis - Unresponsive Populations is parent organization of: Feinstein Biorepository is parent organization of: Biomarkers of Anti-TNF Treatment Efficacy in Rheumatoid Arthritis - Unresponsive Populations is parent organization of: Genetic Analysis Software |
NIH | ISNI: 0000 0000 9566 0634, Wikidata: Q7733638, grid.250903.d, nlx_143748 | https://ror.org/05dnene97 | SCR_004470 | Feinstein Institute | 2026-09-12 12:56:13 | 0 | ||||||
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Maryland Brain Collection Resource Report Resource Website 1+ mentions |
Maryland Brain Collection (RRID:SCR_004384) | MBC | biomaterial supply resource, brain bank, material resource, tissue bank | The Maryland Brain Collection (MBC), a resource of the Maryland Psychiatric Research Center (MPRC), is dedicated to promoting research with brain tissue obtained post-mortem from individuals with schizophrenia or related disorders. The primary goal of the MBC is to provide high-quality tissue, along with comprehensive clinical information, for hypothesis-driven research. The MBC is not conceptualized as a Brain Bank with open access but is maintained and funded through collaborative research. The Maryland Brain Collection is managed by researchers at the Maryland Psychiatric Research Center (MPRC). MPRC scientists are dedicated to understanding the causes and improving the treatment of mental illness. The Maryland Brain Collection is associated with the Office of the Chief Medical Examiner for the State of Maryland and other donor sources. MPRC scientists collaborate with scientists from around the world to understand how abnormalities in brain tissue relate to mental illness. The purpose of the MBC is to study the following: Schizophrenia, Bipolar Disorder, Depression, Suicide/Teen suicide, Substance Abuse. |
is listed by: One Mind Biospecimen Bank Listing has parent organization: University of Maryland School of Medicine; Maryland; USA |
University of Maryland; Maryland; USA ; private donations individuals and foundations ; NIH |
nlx_39828 | http://medschool.umaryland.edu/MPRC/mbc.asp | SCR_004384 | 2026-09-12 12:56:12 | 2 | ||||||||
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Rare Diseases Clinical Research Network Resource Report Resource Website |
Rare Diseases Clinical Research Network (RRID:SCR_004372) | RDCRN | community building portal, data or information resource, disease-related portal, patient-support portal, portal, topical portal | The Rare Diseases Clinical Research Network (RDCRN) was created to facilitate collaboration among experts in many different types of rare diseases. Our goal is to contribute to the research and treatment of rare diseases by working together to identify biomarkers for disease risk, disease severity and activity, and clinical outcome, while also encouraging development of new approaches to diagnosis, prevention, and treatment. The Rare Diseases Clinical Research Network (RDCRN) is made up of 19 distinctive consortia that are working in concert to improve availability of rare disease information, treatment, clinical studies, and general awareness for both patients and the medical community. The RDCRN also aims to provide up-to-date information for patients and to assist in connecting patients with advocacy groups, expert doctors, and clinical research opportunities. | rare disease, disease, disorder, angelman syndrome, rett syndrome, prader-willi syndrome, autonomic rare disease, clinical research, brain vascular malformation, neurologic channelopathy, spinocerebellar ataxia, chronic graft versus host disease, dystonia, genetic disorder, mucociliary clearance, inherited neuropathy, lysosomal disease, bone marrow failure, cholestatic liver disease, rare genetic steroid disorder, nephrotic syndrome, mitochondrial disease, porphyrias, primary immune deficiency treatment, rare kidney stone, salivary gland carcinoma, sterol and isoprenoid disease, urea cycle disorder, vasculitis, rare lung disease, rare thrombotic disease |
has parent organization: University of South Florida; Florida; USA is parent organization of: Sterol and Isoprenoid Research Consortium |
Office of Rare Diseases Research ; NIH |
nlx_143707 | SCR_004372 | 2026-09-12 12:56:12 | 0 | ||||||||
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USIDNET: US Immunodeficiency Network Resource Report Resource Website 1+ mentions |
USIDNET: US Immunodeficiency Network (RRID:SCR_004672) | USIDNET | data or information resource, patient registry, people resource, portal, topical portal | Research consortium to advance scientific research in the primary immune deficiency diseases (PIDD) and: * Assemble and maintain a registry of patients with primary immunodeficiency diseases to provide a minimum estimate of the prevalence of each disorder in the United States. Provide a comprehensive clinical picture of each disorder and act as a resource for clinical and laboratory research. * Establish a multifaceted mentoring program to introduce new investigators into the field and stimulate interest and research in primary immune deficiency diseases. * Establish an advisory/review committee to maintain a cell/DNA Repository of biologic material from well-characterized PIDD patients for the advancement of scientific research USIDNET operates a large database of patient information for your use. The purpose and scope of this project is to assemble and maintain a registry of residents with primary immunodeficiency diseases. The project was started with the Registry of U.S. Residents with Chronic Granulomatous Disease. Since then, the registry has been expanded and now collects data on all primary immunodeficiency disorders. The following are just a few of the diseases housed in the registry: Chronic Granulomatous Disease, Common Variable Immunodeficiency Disease, DiGeorge Anomaly, Hyper IgM Syndrome, Leukocyte Adhesion Defect, Severe Combined Immunodeficiency Disease, Wiskott-Aldrich Syndrome, X-Linked Agammaglobulinemia Physicians who would like to register their patients or access the registry are encouraged to contact Onika Davis or Lamar Hamilton, USIDNET team, at odavis (at) primaryimmune.org, or lhamilton (at) primaryimmune.org | patient information, primary immunodeficiency disease, immunodeficiency disease, disease, immune deficiency disease, clinical trail, clinical, primary immune deficiency disease |
has parent organization: Immune Deficiency Foundation is parent organization of: USIDNET DNA and Cell Repository |
Primary immune deficiency disease, Chronic Granulomatous Disease, Common Variable Immunodeficiency Disease, DiGeorge Anomaly, Hyper IgM Syndrome, Leukocyte Adhesion Defect, Severe Combined Immunodeficiency Disease, Wiskott-Aldrich Syndrome, X-Linked Agammaglobulinemia | Immune Deficiency Foundation ; NIH ; NIAID |
The community can contribute to this resource | nlx_143859 | SCR_004672 | United States Immunodeficiency Network, US Immunodeficiency Network | 2026-09-12 12:56:15 | 2 | |||||
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ProTECT Resource Report Resource Website 500+ mentions |
ProTECT (RRID:SCR_004531) | ProTECT | data or information resource, disease-related portal, portal, research forum portal, topical portal | Recently, our team completed an NINDS-funded, Phase IIa double-blinded, placebo-controlled pilot clinical trial that examined the pharmacokinetics, safety, and activity of progesterone, a steroid found to have powerful neuroprotective effects in multiple animal models of brain injury. Our pilot study demonstrated a 50% reduction in death among severe TBI patients and less disability among moderate TBI patients treated with progesterone. Based on these promising results and supportive preclinical data, we are conducting a large, phase III clinical trial (ProTECT III) to definitively assess the safety and efficacy of this treatment for adults with moderate to severe acute TBI. The study is slated to begin August 2008. WHY Progesterone: Although progresterone is widely considered a sex steroid, it is also a potent neurosteroid. Progesterone is naturally synthesized in the CNS. A large and growing body of animal studies indicate that early administration of progesterone after TBI reduces cerebral edema, neuronal loss, and behavioral deficits in laboratory animals. Certain properties of progesterone make it an ideal therapeutic candidate. First, in contrast to most drugs tested to date, progesterone rapidly enters the brain and reaches equilibrium with the plasma within an hour of administration. Second, unlike other experimental agents, progesterone has a long history of safe use in humans. Finally, the findings of our pilot clinical trial (presented in the Preliminary Data Section, below) indicate that progesterone has consistent and predictable pharmacokinetic properties, is unlikely to produce harm, and may be efficacious for treating acute TBI in humans. | traumatic brain injury, progesterone, clinical trial, neuroprotection, one mind tbi | has parent organization: Emory University; Georgia; USA | NIH | PMID:22033509 PMID:17011666 |
nlx_143806 | SCR_004531 | ProTECT III - Progesterone for Traumatic Brain Injury: Experimental Clinical Treatment: Phase III Clinical Trial | 2026-09-12 12:56:14 | 603 | ||||||
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Hippocampus 3D Model Resource Report Resource Website 1+ mentions |
Hippocampus 3D Model (RRID:SCR_005083) | Hippocampus 3D Model | data or information resource, data set, image collection, video resource | Data files for a high resolution three dimensional (3D) structure of the rat hippocampus reconstructed from histological sections. The data files (supplementary data for Ropireddy et al., Neurosci., 2012 Mar 15;205:91-111) are being shared on the Windows Live cloud space provided by Microsoft. Downloadable data files include the Nissl histological images, the hippocampus layer tracings that can be visualized alone or superimposed to the corresponding Nissl images, the voxel database coordinates, and the surface rendering VRML files. * Hippocampus Nissl Images: The high resolution histological Nissl images obtained at 16 micrometer inter-slice distance for the Long-Evans rat hippocampus can be downloaded or directly viewed in a browser. This dataset consists of 230 jpeg images that cover the hippocampus from rostral to caudal poles. This image dataset is uploaded in seven parts as rar files. * Hippocampus Layer Tracings: The seven hippocampus layers ''ML, ''GC'', ''HILUS'' in DG and ''LM'', ''RAD'', ''PC'', ''OR'' in CA were segmented (traced) using the Reconstruct tool which can be downloaded from Synapse web. This tool outputs all the tracings for each image in XML format. The XML tracing files for all these seven layers for each of the above Nissl images are zipped into one file and can be downloaded. * Hippocampus VoxelDB: The 3D hippocampus reconstructed is volumetrically transformed into 16 micrometer sized voxels for all the seven layers. Each voxel is reported according to multiple coordinate systems, namely in Cartesian, along the natural hippocampal dimensions, and in reference to the canonical brain planes. The voxel database file is created in ascii format. The single voxel database file was split into three rar archive files. Please note that the three rar archive files should be downloaded and decompressed in a single directory in order to obtain the single voxel data file (Hippocampus-VoxelDB.txt). * 3D Surface Renderings: This is a rar archive file with a single VRML file containing the surface rendering of DG and CA layers. This VRML file can be opened and visualized in any VRML viewer, e.g. the open source software view3dscene. * 3D Hippocampus Movie: This movie contains visualization of the 3D surface renderings of CA (blue) and DG (red) inner and outer boundaries; neuronal embeddings of DG granule and CA pyramidal dendritic arbors; potential synapses between CA3b interneuron axon and pyramidal dendrite, and between CA2 pyramidal axon and CA pyramidal dendrites. | rat, hippocampus, long evans rat, nissl, reconstruction, model, nissl staining, histology, tracing, voxel, surface rendering | has parent organization: Computational Neuroanatomy Group | NIH ; Office of Naval Research MURI N00014-10-1-0198; NINDS NS39600; NINDS NS058816 |
PMID:22245503 | nlx_144141 | SCR_005083 | 2026-09-12 12:56:20 | 2 | |||||||
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Neurogrid Resource Report Resource Website 10+ mentions |
Neurogrid (RRID:SCR_005024) | Neurogrid | instrument resource | A specialized hardware platform that will perform cortex-scale emulations while offering software-like flexibility. With sixteen 12x14 sq-mm chips (Neurocores) assembled on a 6.5x7.5 sq-in circuit board that can model a slab of cortex with up to 16x256x256 neurons - over a million! The chips are interconnected in a binary tree by 80M spike/sec links. An on-chip RAM (in each Neurocore) and an off-chip RAM (on a daughterboard, not shown) softwire vertical and horizontcal cortical connections, respectively. It provides an affordable option for brain simulations that uses analog computation to emulate ion-channel activity and uses digital communication to softwire synaptic connections. These technologies impose different constraints, because they operate in parallel and in serial, respectively. Analog computation constrains the number of distinct ion-channel populations that can be simulatedunlike digital computation, which simply takes longer to run bigger simulations. Digital communication constrains the number of synaptic connections that can be activated per secondunlike analog communication, which simply sums additional inputs onto the same wire. Working within these constraints, Neurogrid achieves its goal of simulating multiple cortical areas in real-time by making judicious choices. | simulation, neuron, cortex, synapse, analog vlsi, instrument, equipment, hardware | has parent organization: Stanford University; Stanford; California | NSF ; NIH |
PMID:17959490 | nlx_97879 | SCR_005024 | 2026-09-12 12:56:19 | 14 | |||||||
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MICe - Mouse Imaging Centre Resource Report Resource Website 1+ mentions |
MICe - Mouse Imaging Centre (RRID:SCR_006145) | MICe | atlas, data or information resource, portal, production service resource, reference atlas, service resource, topical portal | A unique resource and comprehensive imaging facility combining the latest state-of-the-art digital medical imaging technologies for the characterization of mouse functional genomics. The goals of the Mouse Imaging Centre are: * To provide a variety of medical imaging technologies adapted to studying genetically modified mice. These technologies include magnetic resonance (MR) imaging, micro computed tomography (micro-CT), ultrasound biomicroscopy (UBM), and optical projection tomography (OPT). * To screen large numbers of mice for models of human diseases. * To image an individual mouse over time to observe development, disease progression and responses to experimental treatment. * To develop an exciting team of investigators with expertise in imaging techniques, computer science, engineering, imaging processing, developmental biology and mouse pathology. * To work by collaboration with researchers throughout the world. When we look for human diseases in the human population, we make extensive use of medical imaging. Therefore, it makes sense to have available the same imaging capabilities as we investigate mice for models of human disease. The Mouse Imaging Centre (MICe) has developed high field magnetic resonance imaging microscopy, ultrasound biomicroscopy, micro computed tomography, and optical techniques. With these imaging tools, MICe is screening randomly mutagenized mice to look for phenotypes that represent human diseases and is taking established human disease models in mice and using imaging to follow the progression of disease and response to treatment over time. It is clear that imaging has a major contribution to make to phenotyping genetic variants and to characterizing mouse models. MICe is staffed by an exciting new team of about 30 investigators with expertise in imaging techniques, computer science, engineering, imaging processing, developmental biology and mouse pathology. The Mouse Imaging Centre (MICe) is not a fee-for-service facility but works through collaborations. Services include: * Projects involving MicroCT are available as a fee for service. * We will eventually move to the same model above with MRI. * Ultrasound Biomicroscopy is used for cardiac, embryo and cancer studies and is available as fee for service at $100 per study or in some cases on a collaborative basis. * Optical Projection Tomography has only limited availability on a collaborative basis. Mouse Atlas As our images are inherently three-dimensional, we will be able to make quantitative measures of size and volume. With this in mind, we are developing a mouse atlas showing the normal deviation of organ sizes. This atlas is an important resource for biologists as it has the potential to eliminate the need to sacrifice as many controls when making comparisons with mutants. Mouse Atlas Examples: * Variational Mouse Brain Atlas * Cerebral Vascular Atlas of the CBA Mouse * Neuroanatomy Atlas of the C57Bl/6j Mouse * Vascular Atlas of the Developing Mouse Embryo * Micro-CT E15.5 Mouse Embryo Atlas | imaging, functional genomics, mutant mouse, mri, micro computed tomography, ultrasound biomicroscopy, optical projection tomography, phenotype, genetic variant, brain, image | has parent organization: Toronto Centre for Phenogenomics | Human disease | Burroughs Wellcome Fund ; Canada Foundation for Innovation ; Canada Research Chairs ; Canadian Institutes of Health Research ; National Cancer Institute of Canada ; NIH ; Ontario Innovation Trust ; Ontario Research and Development Challenge Fund ; commercial partners |
nlx_151635 | SCR_006145 | Mouse Imaging Centre, Mouse Imaging Center, Mouse Imaging Centre (MICe) | 2026-09-12 12:56:36 | 3 | ||||||
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ResearchMatch Resource Report Resource Website 100+ mentions |
ResearchMatch (RRID:SCR_006387) | ResearchMatch | community building portal, data or information resource, patient registry, people resource, portal | Free and secure registry to bring together two groups of people who are looking for one another: (1) people who are trying to find research studies, and (2) researchers who are looking for people to participate in their studies. It has been developed by major academic institutions across the country who want to involve you in the mission of helping today''''s studies make a real difference for everyone''''s health in the future. Anyone can join ResearchMatch. Many studies are looking for healthy people of all ages, while some are looking for people with specific health conditions. ResearchMatch can help ''''match'''' you with any type of research study, ranging from surveys to clinical trials, always giving you the choice to decide what studies may interest you. | recruit, volunteer, clinical research, clinical, recruitment registry, registry, patient, clinical study, clinical trial, survey |
is related to: Clinical and Translational Science Awards Consortium has parent organization: Vanderbilt University; Tennessee; USA |
Healthy, Specific health condition | NIH ; NCATS UL1TR000445; NCRR 1U54RR032646-01 |
PMID:22104055 | nlx_152168 | SCR_006387 | Research Match | 2026-09-12 12:56:39 | 214 | |||||
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Jobs(at)NIH Resource Report Resource Website |
Jobs(at)NIH (RRID:SCR_006471) | Jobs(at)NIH | job resource, postdoctoral program resource, training resource | A listing of all current openings across the NIH. You may search for NIH Jobs, browse job descriptions, view all descriptions or use the quick links. | employment, job, career, science, administrative, non-citizen, fellowship, student, graduate, executive | has parent organization: National Institutes of Health | NIH | nlx_143689 | SCR_006471 | Jobs at NIH, Jobs (at) NIH, NIH Jobs, Jobs_at_NIH | 2026-09-12 12:56:40 | 0 | |||||||
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ConceptMapper Resource Report Resource Website 10+ mentions |
ConceptMapper (RRID:SCR_006548) | Concept Mapper | software resource | Software tool that stores definitions of views of data, along with the ontology concepts they represent. This is a part of the Neuroscience Information Framework (NIF) code stack. | resource:google refine | has parent organization: Neuroscience Information Framework | NIH | nlx_157720 | SCR_006548 | 2026-09-12 12:56:41 | 11 | ||||||||
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Adult Mouse Anatomy Ontology Resource Report Resource Website 1+ mentions |
Adult Mouse Anatomy Ontology (RRID:SCR_006568) | MA | controlled vocabulary, data or information resource, ontology |
Ontology that organizes anatomical structures for the adult mouse (Theiler stage 28) spatially and functionally, using ''is a'' and ''part of'' relationships. The ontology is used to describe expression data for the adult mouse and phenotype data pertinent to anatomy in standardized ways. The browser can be used to view anatomical terms and their relationships in a hierarchical display. |
functionally, adult mouse, anatomical, anatomy, phenotype, postnatal, structure, theiler stage 28, obo, gene expression |
is listed by: BioPortal is related to: Bgee: dataBase for Gene Expression Evolution has parent organization: Gene Expression Database |
NIH ; NICHD HD33745; NICHD F32 HD08435-01; NHGRI F32 HG00215-01 |
Acknowledgement requested | nif-0000-10300 | http://purl.bioontology.org/ontology/MA | SCR_006568 | Adult Mouse Anatomy Browser, MGI Adult Mouse Anatomical Dictionary Browser, Adult Mouse Anatomical Dictionary Browser, Mouse Adult Gross Anatomy Ontology, Anatomical Dictionary for the Adult Mouse | 2026-09-12 12:56:42 | 3 | |||||
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Consed Resource Report Resource Website 500+ mentions |
Consed (RRID:SCR_005650) | Consed | software resource | A graphical tool for sequence finishing (BAM File Viewer, Assembly Editor, Autofinish, Autoreport, Autoedit, and Align Reads To Reference Sequence) | next-generation sequencing, graphical editor, linux, macosx, solaris, c++ |
is listed by: OMICtools has parent organization: University of Washington; Seattle; USA |
NIH ; NHGRI R01HG005710 |
PMID:23995391 PMID:9521923 |
Free for academic use, Free for non-profit use, Commercial license | OMICS_00879 | SCR_005650 | 2026-09-12 12:56:29 | 600 | ||||||
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WebArrayDB Resource Report Resource Website 1+ mentions |
WebArrayDB (RRID:SCR_005577) | WebArrayDB | analysis service resource, data analysis service, data or information resource, data repository, database, production service resource, service resource, software resource, storage service resource | An open source integrated microarray database and analysis suite that features convenient uploading of data for storage in a MIAME (Minimal Information about a Microarray Experiment) compliant fashion. It allows data to be mined with a large variety of R-based tools, including data analysis across multiple platforms. Different methods for probe alignment, normalization and statistical analysis are included to account for systematic bias. Student's t-test, moderated t-tests, non-parametric tests and analysis of variance or covariance (ANOVA/ANCOVA) are among the choices of algorithms for differential analysis of data. Users also have the flexibility to define new factors and create new analysis models to fit complex experimental designs. All data can be queried or browsed through a web browser. The computations can be performed in parallel on symmetric multiprocessing (SMP) systems or Linux clusters. | is listed by: OMICtools | Prostate Cancer Foundation ; Mary Kay Ash Foundation ; NIH ; NIAI R01AI034829; NIAI R01AI052237; NCI R01CA68822; NCI U01CA114810 |
PMID:19602526 | Open source, Account required, The software package is available for the use on a public web server or can be downloaded | OMICS_00782 | SCR_005577 | 2026-09-12 12:56:28 | 8 |
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