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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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MICe - Mouse Imaging Centre Resource Report Resource Website 1+ mentions |
MICe - Mouse Imaging Centre (RRID:SCR_006145) | MICe | reference atlas, portal, data or information resource, production service resource, 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) | 2026-02-14 02:01:15 | 3 | ||||||
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ResearchMatch Resource Report Resource Website 100+ mentions |
ResearchMatch (RRID:SCR_006387) | ResearchMatch | community building portal, people resource, portal, data or information resource, patient registry | 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 | 2026-02-14 02:01:16 | 180 | |||||
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Jobs(at)NIH Resource Report Resource Website |
Jobs(at)NIH (RRID:SCR_006471) | Jobs(at)NIH | training resource, postdoctoral program resource, job 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 | 2026-02-14 02:01:19 | 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 | 2026-02-14 02:01:11 | 11 | ||||||||
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Adult Mouse Anatomy Ontology Resource Report Resource Website 1+ mentions |
Adult Mouse Anatomy Ontology (RRID:SCR_006568) | MA | data or information resource, ontology, controlled vocabulary |
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 | 2026-02-14 02:01:19 | 3 | |||||
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Wien Center For Alzheimer's Disease and Memory Disorders Resource Report Resource Website |
Wien Center For Alzheimer's Disease and Memory Disorders (RRID:SCR_008755) | portal, data or information resource, research forum portal, disease-related portal, topical portal | A joint program between Mount Sinai Medical Center and the University of Miami Department of Psychiatry that seeks an end to Alzheimer's disease and similar disorders through research, diagnosis, education and treatment. The goals are to improve memory and mental responsiveness of Alzheimer's patients, delay the onset of the disease and, ultimately, find a cure. The Wien Center typically conducts multidisciplinary initiatives utilizing clinical trials. | alzheimer's disease, memory disorder, dementia, clinical, diagnosis, treatment, late adult human |
has parent organization: University of Miami; Florida; USA is parent organization of: Florida Brain Bank |
Aging | NIH | Public | nlx_143957 | SCR_008755 | Wien Center for Alzheimer's Disease and Memory Disorders | 2026-02-14 02:01:45 | 0 | ||||||
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Molecular Libraries Program Resource Report Resource Website 10+ mentions |
Molecular Libraries Program (RRID:SCR_008847) | MLP | portal, analysis service resource, material analysis service, data or information resource, production service resource, organization portal, service resource, topical portal | High throughput screening services to identify small molecules that can be optimized as chemical probes to study the functions of genes, cells, and biochemical pathways, along with medicinal chemistry and informatics. This will lead to new ways to explore the functions of genes and signaling pathways in health and disease. The NIH Molecular Libraries Initiative NIH is designed to discover small molecules that interact with biologically important proteins and pathways and to provide open access to the bioassay and chemical data generated by its research centers. This will lead to new ways to explore the functions of genes and signaling pathways in health and disease. As these HTS Technologies were not previously available to the public sector, many investigators may not be familiar with the components and requirements of high throughput screening. A key challenge is to identify small molecules effective at modulating a given biological process or disease state. The Molecular Libraries Roadmap, through one of its components, the Molecular Libraries Probe Production Centers Network (MLPCN), offers biomedical researchers access to the large-scale screening capacity, along with medicinal chemistry and informatics necessary to identify chemical probes to study the functions of genes, cells, and biochemical pathways. This will lead to new ways to explore the functions of genes and signaling pathways in health and disease. There are two kinds of data that are available to the scientific community through a dedicated database: Chemical Compounds and Bioassay Results (NCBI). Various types of data, including informative records on substances, compound structures, and biologically active properties of small molecules are housed respectively within PubChem''''s three primary databases: PCSubstance, PCCompound, and PCBioAssay. To date, PubChem contains over 11 million substance records, details about approximately 5.5 million unique compound structures with links to bioassay descriptions, relevant literature, references, and assay data points and over 250 bioassays, a good percentage of which were contributed by the pilot phase of the MLP. The deposition will continue during the current MLPCN phase. NIH anticipates that these projects will also facilitate the development of new drugs, by providing early stage chemical compounds that will enable researchers in the public and private sectors to validate new drug targets, which could then move into the drug-development pipeline. This is particularly true for rare diseases, which may not be attractive for development by the private sector. Funding opportunities are available through the site. | molecule, compound, probe, small molecule, high throughput screening, gene, cell, biochemical pathway, drug development, protein, pathway |
is used by: LINCS Information Framework is related to: BARD is related to: NIH Clinical Collection is related to: PubChem has parent organization: National Institutes of Health |
NIH | nlx_146246 | SCR_008847 | Molecular Libraries, Molecular Libraries Initiative | 2026-02-14 02:01:39 | 15 | |||||||
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OHSU Brain Institute Resource Report Resource Website |
OHSU Brain Institute (RRID:SCR_008932) | OBI | service resource, data or information resource, portal, topical portal | A clinical care and research center for neurological conditions such as Alzheimer's, dementia and seizure disorders. It provides a dynamic setting for training healthcare professionals and neuroscience researchers to develop and implement evidence-based treatment. | alzheimer's disease, clinical care, research center, neurological condition, dementia, training | has parent organization: Oregon Health and Science University School of Medicine; Oregon; USA | Alzheimer's disease, Memory disorder, Arteriovenous malformations, Brain aneurysm, Brain trauma, Spinal Cord Trauma, Cerebrovascular disorder, Concussion, Head injury, Ischemic stroke, Hemorrhagic stroke, Stroke, Epilepsy, Seizure disorder, Parkinson's disease, Pituitary disorder, Mood disorder, Multiple Sclerosis, Neuropathic pain, Spine surgery, Surgical pain management, Traumatic brain injury, Trigeminal neuralgia, Brain disorder, Central nervous system disorder, Neurological disease, Neurodegenerative disorder, Neuromuscular disorder, Movement disorder, Metabolic disorder, Eating disorder, Diabetes, Neurodevelopmental disorder, Pain, Sensory failure, Brain injury, Spinal Cord Injury, Sleep disorder, Neuropsychiatric disorder, Amyotrophic Lateral Sclerosis, Aging, Brain tumor, Central nervous system tumor, Peripheral nerve disorder, Pituitary disorder, Mental disease | NIH | Public | nlx_151799 | SCR_008932 | Oregon Health and Science University Brain Institute | 2026-02-14 02:01:47 | 0 | |||||
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CBFBIRN Resource Report Resource Website 1+ mentions |
CBFBIRN (RRID:SCR_009543) | CBFBIRN | data repository, storage service resource, data set, data or information resource, service resource |
THIS RESOURCE IS NO LONGER IN SERVICE. Documented August 23, 2017. A web based central repository for individual and group analysis of Arterial Spin Labeling (ASL) data sets and ASL pulse sequences developed at CMFRI UCSD for MRI researchers. This resource currently hosts more 1300 ASL data sets from 22 projects and consists of mainly two main tools 1) The Cerebral Blood Flow Database and Analysis Pipeline (CBFDAP) is a web enabled data and workflow management system extended from the HID codebase on NITRC specialized for Arterial Spin Labeling data management and analysis (including group analysis) in a centralized manner. 2) Pulse Sequence Distribution System (PSDS) for managing dissamination of ASL pulse sequences developed at the UCSD CFMRI. This resource also includes web and video tutorials for end users. |
java, javascript, matlab, magnetic resonance, os independent, web environment, arterial spin labeling, mri |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: Cerebral Blood Flow Database and Analysis Pipeline has parent organization: University of California at San Diego; California; USA |
NIH | PMID:24151465 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_155722 | http://www.nitrc.org/projects/cbfbirn | SCR_009543 | Cerebral Blood Flow Biomedical Informatics Research Network | 2026-02-14 02:01:52 | 3 | ||||
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GEISHA - Gallus Expression in Situ Hybridization Analysis: A Chicken Embryo Gene Expression Database Resource Report Resource Website 1+ mentions |
GEISHA - Gallus Expression in Situ Hybridization Analysis: A Chicken Embryo Gene Expression Database (RRID:SCR_007440) | GEISHA | experimental protocol, data repository, storage service resource, data or information resource, atlas, service resource, narrative resource, database | Online repository for chicken in situ hybridization information. This site presents whole mount in situ hybridization images and corresponding probe and genomic information for genes expressed in chicken embryos in Hamburger Hamilton stages 1-25 (0.5-5 days). The GEISHA project began in 1998 to investigate using high throughput whole mount in situ hybridization to identify novel, differentially expressed genes in chicken embryos. An initial expression screen of approximately 900 genes demonstrated feasibility of the approach, and also highlighted the need for a centralized repository of in situ hybridization expression data. Objectives: The goals of the GEISHA project are to obtain whole mount in situ hybridization expression information for all differentially expressed genes in the chicken embryo between HH stages 1-25, to integrate expression data with the chicken genome browsers, and to offer this information through a user-friendly graphical user interface. In situ hybridization images are obtained from three sources: 1. In house high throughput in situ hybridization screening: cDNAs obtained from several embryonic cDNA libraries or from EST repositories are screened for expression using high throughput in situ hybridization approaches. 2. Literature curation: Agreements with journals permit posting of published in situ hybridization images and related information on the GEISHA site. 3. Unpublished in situ hybridization information from other laboratories: laboratories generally publish only a small fraction of their in situ hybridization data. High quality images for which probe identity can be verified are welcome additions to GEISHA. | expression data, expression pattern, gene, gene expression, genome, chicken, chicken embryo, genomic, in situ hybridization, mapping, microarray, microrna, model organism, oligo, probe, stage, image, molecular neuroanatomy resource, embryo, embryonic chicken | has parent organization: University of Arizona; Arizona; USA | NIH ; NICHD R01HD044767 |
nif-0000-01251, r3d100012509 | https://doi.org/10.17616/R3RB6B | SCR_007440 | Gallus Expression in Situ Hybridization Analysis, GEISHA - Gallus Expression in Situ Hybridization Analysis | 2026-02-14 02:01:26 | 2 | ||||||
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Gene3D Resource Report Resource Website 100+ mentions |
Gene3D (RRID:SCR_007672) | Gene3D | data repository, storage service resource, web service, data or information resource, service resource, data access protocol, software resource, database | A large database of CATH protein domain assignments for ENSEMBL genomes and Uniprot sequences. Gene3D is a resource of form studying proteins and the component domains. Gene3D takes CATH domains from Protein Databank (PDB) structures and assigns them to the millions of protein sequences with no PDB structures using Hidden Markov models. Assigning a CATH superfamily to a region of a protein sequence gives information on the gross 3D structure of that region of the protein. CATH superfamilies have a limited set of functions and so the domain assignment provides some functional insights. Furthermore most proteins have several different domains in a specific order, so looking for proteins with a similar domain organization provides further functional insights. Strict confidence cut-offs are used to ensure the reliability of the domain assignments. Gene3D imports functional information from sources such as UNIPROT, and KEGG. They also import experimental datasets on request to help researchers integrate there data with the corpus of the literature. The website allows users to view descriptions for both single proteins and genes and large protein sets, such as superfamilies or genomes. Subsets can then be selected for detailed investigation or associated functions and interactions can be used to expand explorations to new proteins. The Gene3D web services provide programmatic access to the CATH-Gene3D annotation resources and in-house software tools. These services include Gene3DScan for identifying structural domains within protein sequences, access to pre-calculated annotations for the major sequence databases, and linked functional annotation from UniProt, GO and KEGG., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025. | protein domain, protein, protein superfamily, hidden markov model, structural domain, genome, sequence, domain assignments, protein structure, bio.tools, FASEB list |
is listed by: bio.tools is listed by: Debian has parent organization: University College London; London; United Kingdom |
NIH ; Wellcome Trust ; European Union FP6 ENFIN LSHG-CT-2003-503265; European Union FP6 ENFIN LSHG-CT-2004-512092; European Union FP6 ENFIN LSHG-CT-2005-518254; DOE DE-AC02-065CH11357 |
PMID:19906693 PMID:18032434 |
THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-02877, biotools:gene3d | https://bio.tools/gene3d | SCR_007672 | Gene3D - Structures assigned to Genomes | 2026-02-14 02:01:25 | 272 | ||||
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Adaptive Poisson-Boltzmann Solver Resource Report Resource Website 50+ mentions |
Adaptive Poisson-Boltzmann Solver (RRID:SCR_008387) | APBS | software resource | APBS is a software package for modeling biomolecular solvation through solution of the Poisson-Boltzmann equation (PBE), one of the most popular continuum models for describing electrostatic interactions between molecular solutes in salty, aqueous media. APBS was designed to efficiently evaluate electrostatic properties for such simulations for a wide range of length scales to enable the investigation of molecules with tens to millions of atoms. It also provides implicit solvent models of nonpolar solvation which accurately account for both repulsive and attractive solute-solvent interactions. APBS uses FEtk (the Finite Element ToolKit) to solve the Poisson-Boltzmann equation numerically. FEtk is a portable collection of finite element modeling class libraries written in an object-oriented version of C. It is designed to solve general coupled systems of nonlinear partial differential equations using adaptive finite element methods, inexact Newton methods, and algebraic multilevel methods. | software package, modeling, biomolecular, electrostatic, molecular, dynamics, binding energy, equilibrium, protein, ligand, solvation, kinetics, simulation, finite element |
is listed by: 3DVC is related to: Finite Element Toolkit has parent organization: Washington University in St. Louis; Missouri; USA |
IBM/American Chemical Society ; NPACI/San Diego Supercomputer Center ; W. M. Keck Foundation ; National Biomedical Computation Resource ; NSF ; NIH |
nif-0000-30035 | SCR_008387 | 2026-02-14 02:01:33 | 50 | ||||||||
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Caenorhabditis Genetics Center Resource Report Resource Website 1000+ mentions |
Caenorhabditis Genetics Center (RRID:SCR_007341) | CGC | biomaterial supply resource, organism supplier, cell repository, material resource | Center that acquires, maintains, and distributes genetic stocks and information about stocks of the small free-living nematode Caenorhabditis elegans for use by investigators initiating or continuing research on this genetic model organism. A searchable strain database, general information about C. elegans, and links to key Web sites of use to scientists, including WormBase, WormAtlas, and WormBook are available. | non-human animal, caenorhabditis elegans, chromosome, database, model, mutant, nematode, nomenclature, model organism, protein, transgenic, web accessible database, genetic stock, germplasm, genotype, FASEB list |
is used by: NIF Data Federation is listed by: One Mind Biospecimen Bank Listing is related to: C. elegans Gene Knockout Consortium is related to: Expression Patterns for C. elegans promoter GFP fusions has parent organization: University of Minnesota Twin Cities; Minnesota; USA |
NIH OD010440 | nif-0000-00240 | https://orip.nih.gov/comparative-medicine/programs/invertebrate-models http://www.cbs.umn.edu/research/resources/cgc |
http://biosci.umn.edu/CGC/, http://www.cgc.cbs.umn.edu | SCR_007341 | 2026-02-14 02:01:24 | 3842 | ||||||
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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 | 2026-02-14 02:01:08 | 595 | ||||||
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WebArrayDB Resource Report Resource Website 1+ mentions |
WebArrayDB (RRID:SCR_005577) | WebArrayDB | data repository, storage service resource, data analysis service, analysis service resource, data or information resource, production service resource, service resource, software resource, database | 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 | 2026-02-14 02:01:09 | 8 | |||||||
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NYU Bioinformatics Group Resource Report Resource Website 1+ mentions |
NYU Bioinformatics Group (RRID:SCR_005697) | NYU Bioinformatics Lab | laboratory portal, data or information resource, organization portal, portal | NYU Bioinformatics group applies algorithmic, statistical, and mathematical techniques to solve problems of interest to biology, biotechnology and biomedicine. The group focuses on bioinformatics, computational biology and systems biology with many active projects in areas ranging from single molecules to entire populations: Analysis of Single-Molecule/Single-Cell Data, SPM-based Transcriptomic Profiling, Whole-Genome Haplotype Sequencing using SMASH (Single Molecule Approaches to Haplotype Sequencing), SUTTA (Scoring and Unfolding Trimmed Tree Assembler) assembly algorithm, Analysis of Spatio-Temporal Data, Model Checking and Model Building for Systems Biology, GOALIE-based Phenomenological Models and their Verification, Causality Analysis, Causal Models and their Verification, Analysis of EHR (Electronic Health Record Data) and Disease Models (e.g., Chronic Fatigue Syndrome, Congestive Heart Failure, Deep Vein Thrombosis, etc.), Models of Cancer, Applications to Pancreatic Cancer, Polymorphisms and Biomarkers, Strategies for Group Testing, Epidemiological and Bio-Warfare Models, Planning with Large Agent Networks against Catastrophes (PLAN C), Population Genomics, and Genome Wide Association Studies (GWAS). The group has received its funding from Air Force, Army, CCPR, DARPA, NIH, NIST, NSF, NYSTAR, etc. and various other governmental and commercial entities. Currently, the group is part of an NSF funded Expedition in Computing project (CMACS: Center for Modeling and Analysis of Complex Systems at CMU) and collaborates widely, both nationally and internationally. The group is highly multi-disciplinary, attracting researchers and students from mathematics, statistics, computer science, and biology who team up with physicians, physicists, and chemists as well as professionals in their own disciplines. This group is led by Prof. Bud Mishra, a professor of computer science and mathematics at NYU''s Courant Institute of Mathematical Sciences. |
has parent organization: New York University; New York; USA is parent organization of: GOALIE |
U.S. Air Force ; U.S. Army ; CCPR ; DARPA ; NIH ; NIST ; NSF ; NYSTAR |
nlx_149146 | http://bioinformatics.nyu.edu/wordpress/ | SCR_005697 | NYU Bioinformatics Lab - Courant Institute of Mathematical Sciences | 2026-02-14 02:00:57 | 1 | |||||||
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Childrens Hospital Oakland Research Institute Resource Report Resource Website 10+ mentions |
Childrens Hospital Oakland Research Institute (RRID:SCR_005582) | CHORI | data or information resource, organization portal, portal, training resource | CHORI is the internationally renowned biomedical research institute of Children''s Hospital and Research Center at Oakland. With world-class scientists and research centers known both nationally and internationally in multiple fields, CHORI is 5th in the nation for National Institutes of Health pediatric research funding. Bridging basic science and clinical research in the treatment and prevention of human disease, CHORI is a leader in translational research, providing cures for blood diseases, developing new vaccines for infectious diseases, and discovering new treatment protocols for previously fatal or debilitating conditions. Striving to provide the highest standard of excellence and innovation, CHORI brings together a multidisciplinary collaborative of distinguished investigators in six different Centers of Research: The Center for Cancer Research, The Center for Genetics, The Center for Immunobiology & Vaccine Development, The Center for Nutrition & Metabolism, The Center for Prevention of Obesity, Cardiovascular Disease & Diabetes, and The Center for Sickle Cell Disease & Thalassemia. Within these major areas of focus, CHORI pushes the frontiers of science and of excellence beyond their borders. Among the leading biotech enterprises in the Bay Area, CHORI produced 25 patents in the last 5 years alone. In addition to providing world-class research, CHORI is also a teaching institute, offering unique educational opportunities to high school, college, doctoral and post-doctoral students. | pediatric, research, young human, cancer, genetics, immunobiology, vaccine, nutrition, metabolism, obesity, cardiovascular disease, diabetes, sickle cell disease, thalassemia |
is parent organization of: BacPac Resources Center is parent organization of: Knockout Mouse Project Repository |
NIH | nlx_146206 | SCR_005582 | Children''s Hospital Oakland Research Institute, Children''s Hospital Oakland Research Institute (CHORI) | 2026-02-14 02:01:07 | 13 | |||||||
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NA-MIC Kit Resource Report Resource Website |
NA-MIC Kit (RRID:SCR_005616) | NA-MIC Kit | software resource | A free open source software platform consisting of the 3D Slicer application software, a number of tools and toolkits such as VTK and ITK, and a software engineering methodology that enables multiplatform implementations. It also draws on other best practices from the community to support automatic testing for quality assurance. The NA-MIC kit uses a modular approach, where the individual components can be used by themselves or together. The NA-MIC kit is fully-compatible with local installation (behind institutional firewalls) and installation as an internet service. Significant effort has been invested to ensure compatibility with standard file formats and interoperability with a large number of external applications. Users of the NAMIC Kit will typically use a combination of its many modular components. * 3D Slicer is a general purpose application. Biomedical researchers will typically use this software tool to load, view, analyze, process and save image data. Slicer has been implemented to interoperate with many other tools, including XNAT, which is an open source image database. * Slicer modules, which are dynamically loaded by Slicer at run-time, can be used to extend Slicer''''s core functionality including defining graphical user interfaces. Modules are typically used by algorithms and application developers. * Application and algorithms developers may also use NA-MIC Kit toolkits and libraries. For example, the Insight Segmentation and Registration Toolkit ITK can be used to develop slicer modules for medical image analysis. The Visualization Toolkit can be used to process, visualize and graphically interact with data. KWWidgets is a 2D graphical user interface toolset that can be used to build applications. Teem is a library of general purpose command-line tools that are useful for processing data. Finally, those individuals wishing to create and manage complex software, the NAMIC-Kit software process is available as embodied in CMake, CTest, CPack, DART and the various documentation, bug tracking and communication tools. | platform, image analysis, visualization, segmentation, registration |
is related to: 3D Slicer is related to: Insight Segmentation and Registration Toolkit is related to: XNAT - The Extensible Neuroimaging Archive Toolkit has parent organization: National Alliance for Medical Image Computing |
NIH | BSD-style license | nlx_146255 | SCR_005616 | NA-MIC-Kit | 2026-02-14 02:01:09 | 0 | ||||||
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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 | 2026-02-14 02:00:04 | 0 | |||||
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PathCase Pathways Database System Resource Report Resource Website |
PathCase Pathways Database System (RRID:SCR_001835) | data visualization software, data processing software, data analysis service, analysis service resource, data storage software, data or information resource, production service resource, data analysis software, service resource, software application, software resource, database | 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 | 2026-02-14 02:00:19 | 0 |
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