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| Resource Name | Proper Citation | Abbreviations | Resource Type |
Description |
Keywords | Resource Relationships | |||||||||||||
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Harvard - Oxford Cortical Structural Atlas Resource Report Resource Website 100+ mentions |
Harvard - Oxford Cortical Structural Atlas (RRID:SCR_001476) | Atlases | atlas, data or information resource, reference atlas | Probabilistic atlases covering 48 cortical and 21 subcortical structural areas, derived from structural data and segmentations kindly provided by the Harvard Center for Morphometric Analysis. T1-weighted images of 21 healthy male and 16 healthy female subjects (ages 18-50) were individually segmented by the CMA using semi-automated tools developed in-house. The T1-weighted images were affine-registered to MNI152 space using FLIRT (FSL), and the transforms then applied to the individual labels. Finally, these were combined across subjects to form population probability maps for each label. Segmentations used to create these atlases were provided by: David Kennedy and Christian Haselgrove, Centre for Morphometric Analysis, Harvard; Bruce Fischl, the Martinos Center for Biomedical Imaging, MGH; Janis Breeze and Jean Frazier from the Child and Adolescent Neuropsychiatric Research Program, Cambridge Health Alliance; Larry Seidman and Jill Goldstein from the Department of Psychiatry of Harvard Medical School. | male, female, t1-weighted image, cortical, subcortical, neuroanatomy, cortex |
has parent organization: Harvard University; Cambridge; United States is a plug in for: FSL |
Healthy | NCRR R01 RR16594-01A1; NIMH K01 MH01798; NIMH K08 MH01573; NINDS R01 NS052585-01 |
Free, Freely available | nlx_152707 | SCR_001476 | , Harvard Oxford Cortical Structural Atlas, Harvard-Oxford cortical and subcortical structural atlases, Harvard Oxford Atlas | 2026-09-12 01:00:52 | 154 | |||||
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Functional Regression Analysis of DTI Tract Statistics Resource Report Resource Website |
Functional Regression Analysis of DTI Tract Statistics (RRID:SCR_002293) | FRATS | data processing software, image analysis software, software application, software resource | Software for the analysis of multiple diffusion properties along fiber bundle as functions in an infinite dimensional space and their association with a set of covariates of interest, such as age, diagnostic status and gender, in real applications. The resulting analysis pipeline can be used for understanding normal brain development, the neural bases of neuropsychiatric disorders, and the joint effects of environmental and genetic factors on white matter fiber bundles. | computational neuroscience, imaging genomics, magnetic resonance, regression analysis, dti, statistics |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: University of North Carolina at Chapel Hill; North Carolina; USA |
NSF BCS-08-26844; NCRR UL1-RR025747-01; NIMH MH086633; NIA AG033387; NIMH MH064065; NICHD HD053000; NIMH MH070890; NINDS R01NS055754; NIBIB U54 EB005149-01 |
PMID:20335089 | Academic Free License | nlx_155629 | SCR_002293 | Functional Regression Analysis of DTI | 2026-09-12 01:00:53 | 0 | |||||
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Gene Atlas Resource Report Resource Website 10+ mentions |
Gene Atlas (RRID:SCR_008089) | Geneatlas | atlas, data or information resource, database | This website allows visitors to search for genes of interest based on their spatial expression patterns in the Postnatal Day 7 mouse brain. Geneatlas provides two searching tools: A graphical interface for customized spatial queries; A textual interface for querying annotated structures. Geneatlas is the product of a collaboration between researchers at Baylor College of Medicine, Rice University, and University of Houston. | gene, brain, mouse, protein, spatial expression, molecular neuroanatomy resource, FASEB list |
has parent organization: University of Houston; Texas; USA has parent organization: Baylor University; Texas; USA |
Burroughs Wellcome Fund ; NLM 5T15LM07093; NCRR P41RR02250 |
nif-0000-10987 | SCR_008089 | 2026-09-12 01:01:57 | 47 | ||||||||
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3D MRI Atlas of Mouse Development Resource Report Resource Website 1+ mentions |
3D MRI Atlas of Mouse Development (RRID:SCR_008090) | MRI Atlas of Mouse Development, | atlas, data or information resource |
THIS RESOURCE IS NO LONGER IN SERVICE, documented May 10, 2017. A pilot effort that has developed a centralized, web-based biospecimen locator that presents biospecimens collected and stored at participating Arizona hospitals and biospecimen banks, which are available for acquisition and use by researchers. Researchers may use this site to browse, search and request biospecimens to use in qualified studies. The development of the ABL was guided by the Arizona Biospecimen Consortium (ABC), a consortium of hospitals and medical centers in the Phoenix area, and is now being piloted by this Consortium under the direction of ABRC. You may browse by type (cells, fluid, molecular, tissue) or disease. Common data elements decided by the ABC Standards Committee, based on data elements on the National Cancer Institute''s (NCI''s) Common Biorepository Model (CBM), are displayed. These describe the minimum set of data elements that the NCI determined were most important for a researcher to see about a biospecimen. The ABL currently does not display information on whether or not clinical data is available to accompany the biospecimens. However, a requester has the ability to solicit clinical data in the request. Once a request is approved, the biospecimen provider will contact the requester to discuss the request (and the requester''s questions) before finalizing the invoice and shipment. The ABL is available to the public to browse. In order to request biospecimens from the ABL, the researcher will be required to submit the requested required information. Upon submission of the information, shipment of the requested biospecimen(s) will be dependent on the scientific and institutional review approval. Account required. Registration is open to everyone.. Documented on October, 01, 2019. 3D digital atlas of normal mouse development constructed from magnetic resonance image data. The download is a zipped file containing the six atlases Theiler Stages (ts) 13, 21,23, 24, 25 and 26 and MRI data for an unlabeled ts19 embryo. To view the atlases, download and install MBAT from: http://mbat.loni.ucla.edu Specimens were prepared in aqueous, isotonic solutions to avoid tissue shrinkage. Limited specimen handling minimized physical perturbation of the embryos to ensure accurate geometric representations of developing mouse anatomy. Currently, the atlas contains orthogonal sections through MRI volumes, three stages of embryos that have annotated anatomy, photographs of several stages of development, lineage trees for annotated embryos and a gallery of images and movies derived from the annotations. Anatomical annotations can be viewed by selecting a transverse section and selecting a pixel on the displayed slice. |
embryo, embryogenesis, development, magnetic resonance imaging, mouse, developing, c57bl/6, development, anatomy, embryonic mouse | is related to: Mouse BIRN Atlasing Toolkit | Normal | Human Brain Project ; Biomedical Informatics Research Network ; Beckman Institute at Caltech ; NCRR ; NIBIB |
PMID:10091864 | THIS RESOURCE IS NO LONGER IN SERVICE | nif-0000-10989 | SCR_008090 | Caltech micro MRI Atlas of Mouse Development, microMRI Atlas of Mouse Development, Caltech MRI Atlas of Mouse Development, micro MRI Atlas of Mouse Development | 2026-09-12 01:01:57 | 1 | ||||
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Rhesus Macaque Atlases for Functional and Structural Imaging Studies Resource Report Resource Website 10+ mentions |
Rhesus Macaque Atlases for Functional and Structural Imaging Studies (RRID:SCR_008650) | Rhesus Macaque Atlases | atlas, data or information resource | NO LONGER AVAILABLE. Documented on September 17, 2019. A set of multi-subject atlas templates to facilitate functional and structural imaging studies of the rhesus macaque. These atlases enable alignment of individual scans to improve localization and statistical power of the results, and allow comparison of results between studies and institutions. This population-average MRI-based atlas collection can be used with common brain mapping packages such as SPM or FSL. | magnetic resonance imaging, macaca mulatta, neuroscience, rhesus macaque, structure, neuroimaging, t1-weighted atlas, t2-weighted atlas, mri, brain, neuroanatomy | has parent organization: University of Wisconsin-Madison; Wisconsin; USA | Aging | Intramural Research Program ; NCRR RR000167; NIA AG11915; NIA AG20013; NIGMS GM007507; NCRR RR00163; NIA AG029612 |
PMID:19059346 | NO LONGER AVAILABLE | nif-0000-33003 | SCR_008650 | 2026-09-12 01:02:01 | 10 | |||||
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ArrayQuest Resource Report Resource Website 1+ mentions |
ArrayQuest (RRID:SCR_010935) | ArrayQuest | analysis service resource, data analysis service, production service resource, service resource | A web-accessible program for the analysis of DNA microarray data. ArrayQuest is designed to apply any type of DNA microarray analysis program executable on a Linux system (i.e., Bioconductor statistical and graphical methods written in R as well as BioPerl and C++ based scripts) to DNA microarray data stored in the MUSC DNA Microarray Database, the Gene Expression Omnibus (GEO) or in a password protected private database uploaded to the center point server. ArrayQuest analyses are performed on a computer cluster. |
is listed by: OMICtools is related to: MUSC DNA Microarray Database is related to: Gene Expression Omnibus has parent organization: Medical University of South Carolina; South Carolina; USA |
University Research Resource Foundation ; NCI R24CA095841; NCRR P20RR016434 |
PMID:16321157 | Free, Public | OMICS_00746 | SCR_010935 | ArrayQuest - An On-line DNA Microarray Analysis System | 2026-09-12 01:02:06 | 1 | ||||||
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Eagle I Resource Report Resource Website 10+ mentions |
Eagle I (RRID:SCR_013153) | eagle-i, eagle i, eaglei | data or information resource, database | Web application to discover resources available at participating networked universities. This distributed platform for creating and sharing semantically rich data is built around semantic web technologies and follows linked open data principles. | ontology, semantic web, rdf, sparql endpoint, linked open data, distributed platform, protocol |
lists: BWH Partners Tissue and Blood Repository lists: MSU Subzero Science and Engineering Research Core Facility lists: OHSU MRI Support Core Laboratory lists: Penn Cell and Developmental Biology Zebrafish Core lists: Penn Clinical Research Computing Unit lists: Penn Community Outreach Using Health System Informatics Core lists: UPR Medical Mycology Laboratory lists: Vanderbilt Bradykinin Core Laboratory lists: BWH Surgical Planning Laboratory lists: Children's Hospital Informatics Program lists: DF/HCC Health Communication Core lists: DF/HCC Specialized Histopathology Services Core lists: Dartmouth College Clinical Pharmacology Shared Resource Core Facility lists: Dartmouth Geospatial Shared Resource lists: FAMU Drug Discovery Core Facility lists: FAMU Flow cytometry laboratory lists: HMS NERCE FACSCalibur Flow Cytometer Resource lists: Harvard HSCI iPS Cell Core Facility lists: Harvard NeuroDiscovery Center - Biomarker Study lists: Harvard Partners HealthCare Center for Personalized Genetic Medicine Bioinformatics Core Facility lists: Hunter NMR Spectroscopy Facility lists: JSU Environmental Toxicology Core Lab lists: MGH Center for Morphometric Analysis lists: MGH Vector Development and Production Core Facility lists: MSU Magnetic Resonance Core Laboratory lists: Penn Diabetes Research Center Mouse Phenotyping Physiology and Metabolism Core lists: Penn Research Instrumentation Shop lists: Penn Small Animal Imaging Facility: PET/SPECT/CT Sub-Core lists: Penn Translational Biomarker Core lists: UH Manoa Insect Museum lists: UTEP BSL 3 Laboratory lists: UTSA Engineering Core lists: Vanderbilt Flow Cytometry Core Laboratory lists: Vanderbilt Diabetes Research and Training Center Islet Procurement and Analysis Core lists: Vanderbilt X-Ray Photoelectron Spectroscopy Lab lists: Wyss Institute Imaging Core lists: XULA Materials Research - Shared Instrumentation Facilities lists: Hunter Genomic Facility lists: UPR Analysis Resource Center Confocal Microscopy Core Laboratory lists: UPR Conrado F. Asenjo Library lists: UPR Confocal Microscope Facility lists: UPR Department of Environmental Health Core Laboratory lists: HSPH Trace Metals Laboratory lists: Dartmouth Science Division Electronics Shop lists: Arnold Arboretum of Harvard University: Weld Hill Microscopy Lab lists: Arnold Arboretum of Harvard University: Weld Hill Molecular Lab lists: BWH Cell Culture and Microscopy Core lists: Hunter Nanoscale Analytical Facility lists: Dartmouth SYNERGY Clinical Research Unit lists: Dartmouth Shared Instruments Core Laboratory lists: Vanderbilt Energy Balance Core Laboratory lists: BWH Circulating Tumor Cell Core lists: University of Pennsylvania School of Medicine Penn Diabetes Research Center Pancreatic Islet Cell Biology Core Facility lists: HSPH Molecular Analysis Facility lists: HSPH Organic Chemistry Laboratory lists: Boston Area Diabetes Endocrinology Research Center Metabolic Physiology and Energy Balance Core Facility lists: Harvard FAS Magnetic Resonance Laboratory lists: Howard Flow Cytometry Core lists: CAU CCRTD-Histology Core lists: Penn Laser Confocal Microscope Core lists: Vanderbilt Free Radicals in Medicine Core lists: UAF Alaska Stable Isotope Facility lists: CDU Cancer Research and Training Core Facility lists: CHB Ultrasound lists: Penn Automated Claims and Medical Record Databases lists: Arnold Arboretum of Harvard University: Weld Hill Growth Facilities lists: BIDMC Biomedical Research Informatics Core Laboratory lists: BIDMC CVVR Flow Cytometry Core lists: BIDMC Cardiac Physiology Core Laboratory lists: BIDMC Clinical Research Coordinator Core Laboratory lists: BIDMC DNA Sequencing Core lists: HMS Flow Cytometry Facility lists: Beth Israel Deaconess Medical Center Genomics Proteomics Bioinformatics and Systems Biology Center lists: BIDMC Longwood Small Animal Imaging Core Facility lists: CHB Cellular Imaging Core lists: BIDMC Mass Spectrometry Core lists: BIDMC Multi-Gene Transcriptional Profiling Core lists: BIDMC Preclinical Murine Pharmacogenetics Core lists: BIDMC Real-Time PCR Core lists: BIDMC Transgenic Core Facility lists: BIDMC X-ray Crystallography Core lists: BIDMC eData Collection Core lists: BWH Biostatistics Center lists: BWH CytoGenomics lists: BWH DNA Sequencing Core lists: BWH Flow Cytometry Core Laboratory lists: BWH Sleep and EEG Core lists: BWH Specialty Assay Research Core Laboratory lists: CAU CCRTD-Proteomics lists: BWH Transgenic Core Facility lists: BWH-BRI Antibody Core Facility lists: Broad Genetic Analysis Platform lists: CAU CCRTD-Cell Biology lists: CAU CCRTD-Molecular Biology lists: HSDM Micro CT Core lists: CAU CCRTD-Structural Biology lists: Clark Atlanta University Collaborative Center for Cancer Genomics and Bioinformatics Core Facility lists: CCNY Fluorescence Activated Cell Sorting lists: CCNY Microscopy Facility lists: CCNY RCMI Core Facility lists: CDU AXIS Biomedical Informatics function lists: CDU Exercise Physiology Laboratory lists: CDU Metabolic and Oxidative Stress Core Laboratory lists: CDU Morphometry and Stereology Laboratory lists: CDU Vivarium lists: CHB Advanced Fetal Care Center lists: CHB Cell Sorter Core lists: CHB Transgenic Core Laboratory lists: CHB Cellular Neuroscience Core Laboratory lists: CHB Computational Radiology Laboratory lists: CHB Computed Tomography Core Imaging Facilities lists: CHB Diagnostic Radiology Core lists: CHB Epithelial Cell Biology Core lists: Massachusetts Host-Microbiome Center lists: CHB Magnetic Resonance Imaging lists: CHB Molecular Genetics Core Facility lists: CHB Molecular and Cellular Biochemistry Core lists: CHB Nuclear Medicine and Molecular Imaging lists: CHB Radiopharmaceutical Chemistry Laboratory lists: CHB Small Animal Imaging Core Laboratory lists: CHOP Biostatistics and Data Management Core lists: CHOP CTRC Behavioral Neurosciences Core lists: CHOP CTRC Cardiovascular Imaging Core lists: CHOP CTRC Nutrition Core Nutrition Assessment lists: CHOP CTRC Ophthalmology Core lists: CHOP Clinical Trials Office lists: CHOP Human Embryonic stem cell/induced pluripotent stem cell Core lists: CHOP Nucleic Acid/Protein Core lists: CHOP Pathology Core Laboratories lists: DF/HCC Biostatistics Core Facility lists: DF/HCC Cancer Pharmacology Core lists: Dana Farber and Harvard Cancer Center Cancer Proteomics Center lists: DF/HCC Cell Manipulation Core Facility lists: DF/HCC Community Practice Research Core lists: DF/HCC High-Throughput Polymorphism Detection Core lists: Dartmouth Department of Physics: Apparatus Shop Core Laboratory lists: DF/HCC Monoclonal Antibody Core lists: DF/HCC Pathology Specimen Locator lists: DF/HCC Rodent Histopathology Core Facility lists: DF/HCC Tissue Microarray and Imaging Core Facility lists: DF/HCC Tumor Imaging Metrics Core Facility lists: DFCI Animal Resources Facility lists: DFCI Biohazard Containment Core Facility lists: DFCI Biospecimen Repository Core Facility lists: DFCI Blais Proteomics Center lists: DFCI Clinical Research Laboratory lists: DFCI Survey and Data Management Core lists: DFCI Flow Cytometry Core Facility lists: DFCI Medical Arts Core Facility lists: DFCI Microarray Core Facility lists: Dana-Farber Cancer Institute Molecular Biology Core Facility lists: DFCI RNA Interference Screening Facility lists: DFCI Shannon McCormack Advanced Molecular Diagnostics Laboratory lists: DartMouse - Speed Congenics lists: Dartmouth-Hitchcock Bioinformatics Shared Resource lists: Dartmouth Biomedical NMR Research Center lists: Dartmouth Biostatistics Shared Resource lists: Dartmouth Cigarette Smoke Exposure Analysis Laboratory lists: Dartmouth Electron Microscope Facility lists: Dartmouth Genomics Shared Resource lists: Dartmouth Institute for Health Policy and Clinical Practice: Data and Analytic Core lists: Dartmouth Media Research Lab Shared Resource lists: Dartmouth Molecular Biology Shared Resource lists: Dartmouth Multi-Photon Imaging lists: Dartmouth SYNERGY: Recruitment and Retention Core lists: Dartmouth SYNERGY: Research Design and Epidemiology Core lists: Dartmouth SYNERGY: Biomedical Informatics Core lists: Dartmouth SYNERGY: Bioregistry lists: Dartmouth SYNERGY: Biostatistics Consultation Core lists: Dartmouth SYNERGY: Ethics Consultation Core lists: Dartmouth Trace Element Analysis Core Facility lists: Dartmouth Translational Research Animal Core lists: FAMU Animal care facility lists: FAMU Molecular biology research laboratory lists: FAMU Neurodegeneration laboratory lists: FAMU Proteomics Laboratory lists: Forsyth Institute Bioinformatics Core Facility lists: Forsyth Biostatistics Core Facility lists: Forsyth Institute Flow Cytometry Core Facility lists: HSPH Inorganic Chemistry Laboratory lists: Forsyth Human Microbe Identification Microarray Core lists: Forsyth Imaging Services Core Facility lists: Forsyth Micro Computed Tomography lists: Forsyth Mineralized Tissue Analysis Core Facility lists: HMS BADERC Flow Cytometry Core lists: HMS Drosophila RNAi Screening Center lists: HMS East Quad NMR Core Facility lists: HMS Genetically Modified NOD Mouse Core Facility lists: HMS Human Sample Procurement Core Facility lists: Harvard Medical School ICCB-Longwood Screening Core Facility lists: HMS Image and Data Analysis Core lists: HMS Microbiology and Immunobiology Biological Chemistry Mass Spec Facility lists: HMS Microfluidics Core Facility lists: HMS Molecular Electron Microscopy Facility lists: HMS NERCE Biomolecule Production Core Laboratory lists: HMS NERCE Confocal Microscope Resource lists: HMS NERCE Live-cell Imaging Core lists: HMS NERCE Microbiology and Animal Resources Core lists: HMS Nikon Imaging Center lists: HMS SBGrid Core lists: HMS Systems Biology Quad Machine Shop lists: HMS Taplin Mass Spectrometry Core Facility lists: HMS West Quad Computing Group lists: HSCI Humanized Neonatal Mouse Center lists: HSCI and BIDMC Flow Cytometry Core Facility lists: HSPH Biological Analysis Service Facility lists: HSPH Biomedical Imaging Facility lists: HSPH Electron Microscopy Facility lists: HSPH Environmental Genomics Service Facility lists: HSPH Environmental Microbiology Lab lists: Harvard School of Public Health Environmental Statistics and Bioinformatics Core Facility lists: HSPH Exposure and Environmental Analysis Service lists: HSPH Flow Cytometry Facility lists: Harvard Bioinformatics Core at Joslin Diabetes Center lists: Harvard CNS Imaging and Analysis Facility lists: Harvard CNS NNIN/C Computational Facility lists: MSU Paleohistology Core Laboratory lists: Harvard CNS Nanofabrication Facility lists: Harvard CNS Nanomaterial Facility lists: Harvard Center for Biological Imaging lists: Harvard Digestive Diseases Center Biomedical CORE B: Microscopy and Histopathology lists: Harvard FAS Bauer Core: Mass Spectrometry and Proteomics Core Laboratory lists: Harvard FAS Center for Brain Science - Electron Microscopy Core Facility lists: Harvard PCMM Flow and Imaging Cytometry Resource lists: Harvard FAS Center for Brain Science - Imaging Core Facility lists: Harvard FAS Center for Brain Science - Neuroengineering Core Facility lists: Harvard FAS Center for Brain Science - Neuroimaging Core Facility lists: Harvard FAS Center for Crystallographic Studies lists: Harvard FAS Research Computing Core lists: Harvard FAS Small Molecule Mass Spectrometry Facility lists: Harvard PCPGM Genotyping Facility lists: Harvard Forsyth Center for Clinical and Translational Research lists: Harvard Gene Therapy Initiative Core lists: Harvard Genome Modification Facility Harvard University lists: Harvard NeuroDiscovery Center - Biostatistics Consultation lists: UCC Common Instrumentation Area and Services lists: Harvard NeuroDiscovery Center - Cell-based Assays Core lists: Harvard PCMM Optical Microscopy Core lists: Harvard PCPGM Biorepository for Medical Discovery lists: Harvard PCPGM Biosample Services Facility lists: Howard Imaging Core Facility: Molecular Imaging Laboratory lists: Harvard PCPGM DNA Sequencing Facility lists: Harvard PCPGM Microarray Facility lists: Harvard Partners Research Computing Core lists: Howard Biobehavioral Core Laboratory lists: Howard Biostatistics Core lists: Howard University Center for Computational Biology and Bioinformatics Core Facility lists: Howard Molecular Genetics Core lists: Penn/CHOP CTRC Informatics Services Core lists: Howard Nanoscale Science and Engineering Facility lists: Howard RCMI Proteomics Facility lists: Hunter Bio-Imaging Facility lists: Hunter Flow Cytometry Facility lists: Hunter X-ray Diffraction Facility lists: Joslin Diabetes Center Advanced Genomics and Genetics Core Facility lists: Joslin Diabetes Center Advanced Microscopy Core Facility lists: Joslin Diabetes Center Animal Physiology Core Facility lists: JDC Computer Resource lists: Joslin Diabetes Center Flow Cytometry Core Facility lists: JDC Genetics Core lists: JDC Media Core lists: Joslin Diabets Center Proteomics Core Facility lists: JDC Specialized Assay Core lists: JSU Analytical Core Laboratory lists: JSU Animal Core Facility lists: MGH Flow Cytometry Core Facility lists: JSU BSU-RCMI Biostatistics Core Laboratory lists: JSU Cellomics and Toxicogenomics Research Core Laboratory lists: Jacksonville State University Center for Bioinformatics and Computational Biology lists: JSU Computational Modeling Core Laboratory lists: JSU Electron Microscope Core Laboratory lists: JSU Molecular Magnetic Resonance Core Laboratory lists: LCRC Proteomics Core Facility lists: LCRC Biospecimen Core lists: JSU Molecular and Cellular Biology Core Laboratory lists: JSU RCMI Translational Research Data Coordinating Center lists: JSU Remote Sensing Core Laboratory lists: JSU Visualization Laboratory lists: MGH CCIB DNA Synthesis Core lists: Jackson Heart Study lists: LCRC Adult Stem Cell Core lists: LCRC Cell Analysis and Immunology Core Facility lists: LCRC Genomics Core Facility lists: LCRC Microarray Core lists: LCRC Morphology and Imaging Core lists: Layton Aging and Alzheimers Disease Center Education Core lists: Layton Alzheimers Disease Center Biomarkers and Genetics Core Lab lists: Layton Alzheimers Disease Center Clinical Core lists: MGH Biostatistics Center lists: MGH CCIB Automation Core lists: MGH CCIB DNA Sequencing Core lists: MGH CHGR Chromosome Substitution Strain Resource lists: MGH CHGR Clinical Genetic Research Facility lists: MGH CHGR DNA and Tissue Culture Resource lists: MGH CHGR Genotyping Resource lists: MGH Cell Tissue and Organ Resource Core lists: MGH Confocal Microscope Core lists: Puerto Rico Clinical and Translational Research Consortium Core Laboratory lists: MGH HSCI-CRM Flow Cytometry Core Facility lists: MGH High Resolution Peripheral Quantitative Computed Tomography Core Facility lists: MGH Mouse Imaging Program lists: MGH Musculoskeletal Imaging Research Core lists: MGH PET Core lists: MGH PMB Microscopy Core lists: MSM DNA Sequencing Laboratory lists: MSM Gene Variation Core Laboratory lists: MGH Recombinant Protein Expression and Purification Core lists: MGH Transgenic and Gene Targeting Facility lists: MSM Analytical Chemistry and Protein Profiling Core lists: Morehouse School of Medicine Biomedical Informatics Unit lists: MSM Center of Laboratory Animal Resources lists: MSU Animal Resource Center lists: Montana State University Bioinformatics Core Facility lists: MSU FACS Core Laboratory lists: Montana State University Functional Genomics Core Facility lists: MSU Imaging and Chemical Analysis Core Laboratory lists: MSU Large animal BSL-2 lists: MSU Metabolomics Core Facility lists: MSU Microscopy Core Facility lists: MSU Proteomics Core Laboratory lists: MSU Research Computing Group lists: MSU Transmission Electron Microscopy Core Laboratory lists: MSU X-ray Crystallography Core Laboratory lists: McLean Translational Imaging Laboratory lists: Meharry Endocrine core lists: Meharry Flow Cytometry and BSL3 Core lists: OHSU Investigator Support and Integration Services lists: Meharry Human Tissue Acquistion and Pathology Core lists: Meharry Molecular Biology Core Facility lists: Meharry Morphology Core lists: Monell Behavioral and Physiological Phenotyping Core lists: Monell Chemosensory Receptor Signaling Core lists: Monell Genotyping and DNA/RNA Analysis Core lists: Monell Histology and Cellular Localization Core lists: OHSU Advanced Computing Center Core Facility lists: OHSU Advanced Imaging Research Center Core Facility lists: OHSU Advanced Light Microscopy Core Facility lists: OHSU Assisted Reproductive Technologies and Embryonic Stem Cell Laboratory lists: OHSU Bioanalytical Shared Resource Pharmacokinetics Core Facility lists: OHSU Biochemical Genetics Laboratory lists: Oregon Clinical and Translational Research Institute Biomedical Informatics Program lists: OHSU Biomedical Informatics Shared Resource lists: OHSU Clinical Cytogenetics Laboratory lists: OHSU DNA Services Core Facility lists: Oregon Health and Science University Multiscale Microscopy Core Facility lists: Puerto Rico Clinical and Translational Research Consortium Nursing Services lists: OHSU Electronics and Instrumentation Design Core Resource lists: OHSU Endocrine Technology Support Core Laboratory lists: OHSU Gene Profiling Shared Resource Core Facility lists: OHSU Lipid-Atherosclerosis Laboratory lists: OHSU Histopathology Shared Resource Core Facility lists: OHSU Imaging and Morphology Support Core Laboratory lists: OHSU Immuno Electron Microscopy Core lists: OHSU Immunology Support Core Cellular Immunology Unit lists: OHSU Immunology Support Core Flow Cytometry Unit lists: OHSU In Vivo Optical Imaging Center lists: OHSU Massively Parallel Sequencing Shared Resource Core Facility lists: OHSU Methamphetamine Abuse Research Center Animal Core Component lists: OHSU Molecular and Cellular Biology Core Laboratory lists: OHSU Monoclonal Antibody Core Laboratory lists: OHSU Neuropathology Core lists: OHSU Nuclear Magnetic Resonance Core Facility lists: Penn Mass Spectrometry Molecular Profiling Core lists: OHSU Proteomics Shared Resource Core Facility lists: OHSU Research Cytogenetics Core Laboratory lists: OHSU Animal Model Support Core Facility lists: Oregon Clinical and Translational Research Institute Bionutrition Unit lists: OHSU Oregon Clinical and Translational Research Center Core Facility lists: Oregon Stem Cell Center Monoclonal Antibody Core lists: Penn BioMechanics Core Facility lists: Penn Biological Chemistry Resource Center lists: Penn Cancer Histology Core lists: Penn Cell Center Services Facility lists: Penn Cell Center Stockroom lists: Penn Cell and Developmental Biology Microscopy Core lists: Penn Chemistry NMR Facility lists: Penn Clinical Cell and Vaccine Production Facility lists: Penn Community Engagement and Research Core lists: Penn/CHOP CTRC Bionutrition Research Core Dietary Assessment lists: Penn Electron Microscopy Resource Laboratory lists: Penn Flow Cytometry and Cell Sorting Resource Laboratory lists: Penn Investigational Drug Service lists: Penn Gene Targeting Service lists: University of Pennsylvania Molecular Profiling Facility lists: Penn High-Throughput Sequencing Facility lists: University of Pennsylvania High-performance Computing lists: Penn Histology and Gene Expression Core lists: Penn Human Immunology Core lists: Penn Interventional Radiology Animal Catheter Lab lists: Penn Mass Spectrometry Facility lists: University of Pennsylvania Molecular Profiling Facility Bioinformatics lists: Penn NBIC Probe Facility lists: Penn Neurobehavior Testing Core lists: Penn Next-Generation Sequencing Core lists: Penn Proteomics and Systems Biology Core lists: Penn Diabetes Research Center Radioimmunoassay and Biomarkers Core Facility lists: Penn Regional Nanotechnology Facility lists: Penn Small Animal Imaging Facility lists: Penn Small Animal Imaging Facility: MRI/MRS Sub-Core lists: Penn Small Animal Imaging Facility: Optical/Bioluminescence Sub-Core lists: Penn Small Animal Imaging Facility: Ultrasound Sub-Core lists: Pennsylvania University Perelman School of Medicine Stem Cell and Xenograft Core Facility lists: Penn Diabetes Research Center Transgenic and Chimeric Mouse Core Facility lists: UH Manoa RCMI Magnetic Resonance Image Processing Core lists: University of Pennsylvania Center for Molecular Therapy for Cystic Fibrosis Vector Core Facility lists: Penn/CHOP CTRC Research Nurse Core lists: Penn/CHOP CTRC Sleep Core lists: UH Manoa RCMI Microarray Core Facility lists: Penn/CHOP CTRC Study Design and Biostatistics Core lists: Penn/CHOP CTRC Translational Core Laboratories lists: Puerto Rico Clinical and Translational Research Consortium Patients Coordinator Services lists: Penn/CHOP Office of Human Subject Recruitment and Protection lists: Ponce School of Medicine and Health Sciences AIDS Research Infrastructure Core lists: Ponce School of Medicine and Health Sciences Behavioral Core Facility lists: Ponce School of Medicine and Health Sciences Molecular Biology Core Laboratory lists: UH Manoa Microscopy and Imaging Core lists: Proteomics Center at Childrens Hospital Boston lists: Puerto Rico Clinical and Translational Research Consortium Biostatistic Core Laboratory lists: Puerto Rico Clinical and Translational Research Consortium Research Subject Advocate lists: Ragon Institute Biostatistics Core lists: Ragon Institute Imaging Core Flow Cytometry lists: UAF Animal Quarters Core Laboratory lists: Ragon Institute Imaging Core Microscopy lists: SERI Flow Cytometry Core Facility lists: TSU Biosensor Biomarker and Environmental Toxicology Core Facility lists: TSU Environmental Research and Technology Transfer Center lists: TSU Molecular Biology Core Laboratory lists: Tuskegee Center for Biomedical Research - Digital Imaging lists: Tuskegee Center for Biomedical Research Shared Instrumentation Core lists: Tuskegee University Computational Biology and Bioinformatics - Biomedical Information Management Services lists: UAF Community Engagement and Clinical Support Core lists: UAF DNA Core Laboratory lists: UAF Epidemiology and Biostatistics Core Laboratory lists: UAF Nutrition and Physical Activity Core lists: UAF Optical and Tissue Culture Core lists: UCC Behavioral Testing Facility lists: UCC Biomedical Proteomic Facility lists: UCC Data Management and Statistical Research Support Unit lists: UCC HIV and Substance of Abuse Laboratory Core lists: UCC Immunocytochemistry Laboratory lists: UCC Neuronal Glia Culture Facility lists: UCC Optical Imaging Facility lists: UCC Protein and Nucleic Acid Core Facility lists: UCC Transmission Electron Microscopy Laboratory lists: UH Manoa NMR Lab lists: UH Manoa Analytical Biochemistry Shared Resource lists: UH Manoa Biological Electron Microscope Facility lists: UH Manoa Biostatistics Shared Resources lists: University of Hawaii at Manoa Centers of Biomedical Research Excellence Bioinformatics Core Facility lists: UH Manoa COBRE Genomics Core lists: UH Manoa RCMI Molecular Pathology Core lists: UH Manoa COBRE Mouse Phenotyping Core lists: UH Manoa COBRE Transgenic Core lists: UH Manoa HURL Submersible Facility lists: University of Hawaii at Manoa INBRE Bioinformatics Core Facility lists: University of Hawaii at Manoa Informatics Shared Resource lists: UH Manoa Laboratory Support Shared Resources lists: UH Manoa Nutrition Support Shared Resource lists: UH Manoa PBRC Computer Network Support Facility lists: UH Manoa Pathology Shared Resources lists: UH Manoa RCMI Biostatistics and Data Management Facility lists: UH Manoa RCMI Histology and Imaging Core Facility lists: UH Manoa RCMI Pathogen Reference and Reagent Core lists: UPR Animal Resources Center lists: UH Manoa SOEST Engineering Support Facility lists: UH Manoa Sequencing Facility lists: UPR AABRE Program: Functional Genomics Research Center lists: UPR AABRE Program: Human Genetics Center lists: UPR AABRE Program: Protein Mass Spectrometry Facility lists: UPR AABRE Program: Sequencing and Genotyping Facility lists: University of Puerto Rico Biomedical Informatics Research Core lists: UPR Cayo Santiago Caribbean Primate Research Center lists: UPR Center for Drug Information and Research lists: UPR Center for Genomics in Health Disparities and Rare Disorders lists: UPR Center for Information Technologies and Telecommunications lists: UPR Central Electron Microscopy Unit lists: UPR Flow Cytometry Unit lists: UPR Infectious and Global Diseases Program lists: UPR MBRS-SCORE Research Facility lists: UPR Macromolecular X-ray Crystallography Core Facility lists: UPR Maternal Infant Study Center lists: UPR Pharmaceutical Science Research Support Unit lists: UPR RCMI Program Shared Instrumentation Laboratories lists: UPR RCMI Translational Proteomics Center lists: UPR Sabana Seca Field Station Caribbean Primate Research Center lists: UPR Translational Neurosciences Program lists: UPR Virology Laboratory lists: University of Texas El Paso Analytical Cytology Core Facility lists: University of Texas El Paso Bioinformatics Computing Laboratory lists: UTEP Biomolecule Analysis Core Facility lists: UTEP Cell Culture and High Throughput Screening Core Facility lists: UTEP DNA Analysis Core Facility lists: UTEP Statistical Consulting Laboratory lists: UTSA Biophysics Facility lists: UTSA Cellular and Tissue Engineering Laboratory lists: UTSA Computational Biology Initiative lists: UTSA Kleberg Advanced Microscopy Laboratory lists: UTSA RCMI Computational Systems Biology Core lists: UTSA RCMI Nanotechnology and Human Health Core lists: UTSA SNRP Image Analysis Core lists: UTSA SNRP Neurostatistics Core lists: UTSA X-ray Crystallography Laboratory lists: VANTAGE lists: VICC Research Informatics lists: Vanderbilt Antibody and Protein Resource lists: Vanderbilt Automation and Informatics Core lists: Vanderbilt Biomolecular NMR Facility lists: Vanderbilt Biophysical Instrumentation Core Facility lists: Vanderbilt Biospecimen Shared Resource lists: Vanderbilt Biostatistics Collaboration Center lists: Vanderbilt Cardiovascular Translational and Clinical Research Core lists: Vanderbilt Diabetes Research and Training Center Cell Imaging Shared Resource Core Facility lists: Vanderbilt Center for Molecular Neuroscience Cores lists: Vanderbilt Chemical Synthesis Core Laboratory lists: Vanderbilt Clinical Research Center lists: Vanderbilt Clinical Trials Center lists: Vanderbilt Clinical Trials Shared Resource lists: Vanderbilt University Center for Human Genetics Research Computational Genomics Core lists: Vanderbilt Cooperative Human Tissue Network lists: Vanderbilt DNA Databank lists: Vanderbilt DNA Resources Core lists: Vanderbilt Eicosanoid Core Laboratory lists: Vanderbilt Genetic Studies Ascertainment Core lists: Vanderbilt High Throughput Screening Facility lists: Vanderbilt Diabetes Research and Training Center Hormone Assay and Analytical Services Core Facility lists: Vanderbilt Human Immunology Core Laboratory lists: Vanderbilt Innovative Translational Research Shared Resource lists: Vanderbilt Institute for Integrative Biosystems Research and Education Automated Biosystems Core Laboratory lists: Vanderbilt Institute for Integrative Biosystems Research and Education Microfabrication Core lists: Vanderbilt Institute of Nanoscale Science and Engineering lists: Vanderbilt Lipidomics Core Laboratory lists: Vanderbilt Mass Spectrometry Core Lab lists: Vanderbilt Mass Spectrometry Research Center Proteomics Laboratory lists: Vanderbilt Diabetes Research and Training Center Vanderbilt Diet Body Composition and Metabolism Core Facility lists: Vanderbilt Mouse Kidney Histology and Morphometry Core lists: Vanderbilt Mouse Kidney Physiology Core Lab lists: Vanderbilt Neurochemistry Core Laboratory lists: Wistar Flow Cytometry Core Facility lists: Vanderbilt Rat Neurobehavioral Laboratory lists: Vanderbilt Sleep Research Core lists: Vanderbilt Survey Research Shared Resource lists: Vanderbilt Tissue Core Laboratory lists: Vanderbilt Transgenic Mouse/Embryonic Stem Cell Shared Resource lists: Vanderbilt Translational Pathology Shared Resource lists: Vanderbilt Zebrafish Aquatic Facility lists: Wistar Bioinformatics Core Facility lists: Wistar Genomics Core Facility lists: Wistar Histotechnology Core Facility lists: Wistar Imaging Core Facility lists: Wistar Molecular Screening Facility lists: XULA Major Instrumentation Core lists: Wistar Protein Expression Facility lists: Wistar Proteomics and Metabolomics Core Facility lists: Wyss Institute Machine Shop / 3D Prototyping Core lists: Wyss Institute Materials Characterization Core lists: XULA Animal Care Facility lists: XULA Center for Nanomedicine and Drug Delivery lists: XULA RCMI Cell and Molecular Biology Core lists: XULA RCMI Molecular Structure and Modeling Core lists: Harvard FAS Bauer Core Laboratory lists: BWH Research Imaging Core lists: Penn Induced Pluripotent Stem Cell Core Facility lists: HNDC Enhanced NeuroImaging Core lists: University of Pennsylvania Genomics Analysis Core lists: Meharry Proteomics Core lists: Meharry Microarray and Bioinformatics Core lists: Dartmouth DartLab lists: MGH NextGen Sequencing Core lists: Joslin Diabetes Center Islet Isolation Core lists: MGH Psychiatric and Neurodevelopmental Genetics Unit Core Lab lists: HMS Research Imaging Solutions lists: Harvard SERI Graphic Services Core lists: DFCI Confocal and Light Microscopy Core Facility lists: BWH Specimen Bank lists: MGH Martinos Center for Biomedical Imaging Core Facility lists: HNDC NeuroBehavior Laboratory Core lists: Harvard Chan Bioinformatics Core lists: HNDC Advanced Tissue Resource Center lists: DF/HCC DNA Resource Core lists: HNDC Drug Discovery in Neurodegeneration lists: DFCI Center for Cancer Computational Biology lists: HMS Systems Biology Flow Cytometry Facility lists: OHSU Molecular Virology Support Core is listed by: FORCE11 is related to: CTSAconnect is related to: Clinical and Translational Science Awards Consortium has parent organization: Harvard University; Cambridge; United States has parent organization: Oregon Health and Science University; Oregon; USA is parent organization of: eagle-i research resource ontology |
ARRA ; NCRR U24 RR029825 |
PMID:22434835 | Available to external user, The community can contribute to this resource | r3d100011564, nlx_143592 | https://www.eagle-i.org/, https://www.force11.org/node/4661 | SCR_013153 | 2026-09-12 01:02:09 | 10 | |||||
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Knowledge Engineering from Experimental Design Resource Report Resource Website 1+ mentions |
Knowledge Engineering from Experimental Design (RRID:SCR_001238) | KEfED | software application, software resource | Knowledge engineering software for reasoning with scientific observations and interpretations. The software has three parts: (a) the KEfED model editor - a design editor for creating KEfED models by drawing a flow diagram of an experimental protocol; (b) the KEfED data interface - a spreadsheet-like tool that permits users to enter experimental data pertaining to a specific model; (c) a "neural connection matrix" interface that presents neural connectivity as a table of ordinal connection strengths representing the interpretations of tract-tracing data. This tool also allows the user to view experimental evidence pertaining to a specific connection. The KEfED model is designed to provide a lightweight representation for scientific knowledge that is (a) generalizable, (b) a suitable target for text-mining approaches, (c) relatively semantically simple, and (d) is based on the way that scientist plan experiments and should therefore be intuitively understandable to non-computational bench scientists. The basic idea of the KEfED model is that scientific observations tend to have a common design: there is a significant difference between measurements of some dependent variable under conditions specified by two (or more) values of some independent variable. | experimental design, observation, interpretation, reasoning, experimental data, observational assertion, knowledge engineering, java |
is listed by: FORCE11 is related to: Bioscholar has parent organization: Biomedical Informatics Research Network |
NIGMS R01-GM083871; NIMH 1R01MH079068-01A2; NCRR 1 U24 RR025736-01 |
PMID:21859449 | Free, Available for download, Freely available | nif-0000-07745 | https://wiki.birncommunity.org/display/NEWBIRNCC/Knowledge+Engineering+from+Experimental+Design+%28%27KEfED%27%29 | SCR_001238 | 2026-09-12 01:02:26 | 1 | |||||
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University of Michigan Biorepository Resource Report Resource Website |
University of Michigan Biorepository (RRID:SCR_004643) | MICHER Biorepository | biomaterial supply resource, material resource | THIS RESOURCE IS NO LONGER IN SERVICE. Documented on April 24,2025. In 2009, the Medical School and the Michigan Institute for Clinical & Health Research (MICHR) unveiled a new biorepository for U-M researchers in need of a controlled storage environment for biological samples. MICHR is pleased to be able to add to its many services for the research community a centralized biological repository for controlled storage of biological samples, and related services (including DNA, RNA, and other downstream preparation) within the U-M campus. The biorepository, located in the CAP/CLIA-certified Michigan Center for Translational Pathology (MCTP) laboratory at the U-M Traverwood facility on Huron Parkway, will store biologic material, including blood and urine. Sample accessioning and tracking will be accomplished using the caTISSUE suite of programs, and samples will be processed and stored in compliance with CAP/CLIA guidelines. Initially, all samples will be used only with the authorization of the individual investigator who directed the project under which the samples were obtained. Samples will be used in accordance with the relevant informed consent. Long-term plans include federating the database in order to facilitate sharing of data and samples between research teams. | biologic material, blood, urine |
is listed by: One Mind Biospecimen Bank Listing has parent organization: University of Michigan Medical School; Michigan; USA |
NCRR UL1RR024986 | THIS RESOURCE IS NO LONGER IN SERVICE | nlx_63960 | http://www.michr.umich.edu/biorepository/index.html | SCR_004643 | 2026-09-12 01:02:33 | 0 | ||||||
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LONI MiND Resource Report Resource Website |
LONI MiND (RRID:SCR_004820) | MiND | service resource, software resource | The MiND: Metadata in NIfTI for DWI framework enables data sharing and software interoperability for diffusion-weighted MRI. This site provides specification details, tools, and examples of the MiND mechanism for representing important metadata for DWI data sets at various stages of post-processing. MiND framework provides a practical solution to the problem of interoperability between DWI analysis tools, and it effectively expands the analysis options available to end users. To assist both users and developers in working with MiND-formatted files, we provide a number of software tools for download. * MiNDHeader A utility for inspecting MiND-extended files. * I/O Libraries Programming libraries to simplify writing and parsing MiND-formatted data. * Sample Files Example files for each MiND schema. * DIRAC LONI''s Diffusion Imaging Reconstruction and Analysis Collection is a DWI processing suite which utilizes the MiND framework. | diffusion magnetic resonance imaging, metadata, dwi, dti, software interoperability, data sharing | has parent organization: David Geffen School of Medicine at UCLA; California; USA | NIH ; NCRR ; NIMH ; NCRR 1U54RR021813-01; NIGMS 5T32GM008042-25; NCRR P41 RR013642; NIMH R01 MH71940; NIBIB EB008432; NIBIB EB008281; NIBIB EB007813; NICHD HD050735 |
PMID:20206274 | nlx_143920 | http://mind.loni.ucla.edu/ | SCR_004820 | MiND: Metadata in NIfTI for DWI, Metadata in NIfTI for DWI | 2026-09-12 01:02:33 | 0 | |||||
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VALiDATe29 Squirrel Monkey Brain Atlas Resource Report Resource Website 1+ mentions |
VALiDATe29 Squirrel Monkey Brain Atlas (RRID:SCR_015542) | atlas, data or information resource | Atlas was created from MRI scans of squirrel monkey brains. The atlas is currently comprised of multiple anatomical templates, diffusion MRI templates, and ex vivo templates. In addition, the templates are combined with histologically defined cortical labels, and diffusion tractography defined white matter labels. | squirrel brain, squirrel monkey brain, squirrel brain atlas, squirrel mri | has parent organization: Vanderbilt University; Tennessee; USA | NINDS RO1 NS058639; NINDS RO1 NS069909; NINDS RO1 NS078680; NCRR 1S10 RR 17789 |
Available for download | SCR_015542 | VALiDATe29 Atlas | 2026-09-12 01:02:16 | 1 | ||||||||
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LONI Debabeler Resource Report Resource Website |
LONI Debabeler (RRID:SCR_001160) | Debabeler | software application, software resource | Software to manage the conversion of imaging data from one file format and convention to another. It consists of a graphical user interface to visually program the translations, and a data translation engine to read, sort and translate the input files, and write the output files to disk. The data translation engine: (1) Reads metadata from a set of image files on disk to identify the source that produced each file; (2) Groups the image files into user-defined collections using image metadata values; (3) Translates each image file collection by reading metadata and pixel data and mapping the data into the appropriate output file format through a programmable set of connected modules. The Debabeler uses the Java Image I/O Plugin Architecture to read and write a wide variety of common medical image file formats, including ANALYZE, MINC, and most variations of DICOM. | workflow, java, analyze, dicom, minc, nifti-1, neuroimaging, file format, translation, magnetic resonance |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is listed by: Biositemaps has parent organization: University of California at Los Angeles; California; USA |
NCRR 9P41EB015922-15; NCRR 2-P41-RR-013642-15 |
PMID:15670695 | Free, Available for download, Freely available | nif-0000-00321 | http://www.nitrc.org/projects/debabeler | SCR_001160 | 2026-09-12 01:02:25 | 0 | |||||
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cBioPortal Resource Report Resource Website 10000+ mentions |
cBioPortal (RRID:SCR_014555) | data or information resource, database, portal | A portal that provides visualization, analysis and download of large-scale cancer genomics data sets. | cancer, genomics, database, portal, data sets, FASEB list | is used by: NaviCom | NCI U24CA143840; NCRR RR031228-02 |
PMID:23550210 PMID:22588877 |
Please cite, Software is available via GitHub, Open source | https://github.com/cBioPortal/cbioportal/ https://github.com/cBioPortal/cbioportal/blob/master/docs/README.md | SCR_014555 | cBioPortal for Cancer Genomics | 2026-09-12 01:01:02 | 10348 | ||||||
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ProteomeTools Resource Report Resource Website 10+ mentions |
ProteomeTools (RRID:SCR_018535) | data or information resource, portal, project portal | Project for building molecular and digital tools from human proteome to facilitate biomedical research, drug discovery, personalized medicine and life science research. | Molecular tool, human proteome, proteome, human, peptide, data |
is related to: ProteomicsDB is related to: ProteomeXchange |
Alexander von Humboldt Foundation ; American Recovery and Reinvestment Act ; European Research Council ; German Federal Ministry of Education and Research ; NCRR S10 RR027584; NHGRI RC2 HG005805; NIGMS P50 GM076547; NIGMS R01 GM087221; Swiss National Science Foundation |
PMID:28135259 | Free, Freely available | http://www.proteometools.org | SCR_018535 | 2026-09-12 01:01:07 | 23 | |||||||
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ResearchIQ Resource Report Resource Website |
ResearchIQ (RRID:SCR_014304) | software application, software resource | THIS RESOURCE IS NO LONGER IN SERVICE, documented March 14, 2016. Research Integrative Query (ResearchIQ) tool, a semantically anchored resource discovery platform that facilitates semantic discovery of local and publicly available data through a single web portal designed for researchers in the biomedical informatics domain within The Ohio State University. | Platform, Semantic information | has parent organization: Ohio State University; Ohio; USA | NCRR UL1-RR025755 | PMID:26306248 | THIS RESOURCE IS NO LONGER IN SERVICE | http://researchiq.bmi.osumc.edu:8080/#riqview | SCR_014304 | 2026-09-12 01:02:50 | 0 | |||||||
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eXpression2Kinases Resource Report Resource Website 1+ mentions |
eXpression2Kinases (RRID:SCR_016307) | X2K | software application, software resource | Software tool to produce inferred networks of transcription factors, proteins, and kinases predicted to regulate the expression of the inputted gene list by combining transcription factor enrichment analysis, protein-protein interaction network expansion, with kinase enrichment analysis. It provides the results as tables and interactive vector graphic figures. | inferred, network, transcription, factor, protein, kinase, regulate, expression, gene, analysis, combine, bio.tools |
is listed by: Debian is listed by: bio.tools |
NCRR KL2 RR029885; NIDDK P01 DK056492; NIDDK R01 DK088541; NIDDK RC4DK090860; NIGMS P50 GM071558; NLM RC2 LM010994 |
PMID:22080467 | Open source, Free, Freely available, Available for download | biotools:x2k | https://bio.tools/x2k, http://www.maayanlab.net/X2K/ | SCR_016307 | eXpression2Kinases, X2K | 2026-09-12 01:02:53 | 6 | ||||
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Eagle Resource Report Resource Website 50+ mentions |
Eagle (RRID:SCR_015991) | software resource, software toolkit | Software package for statistical estimation of haplotype phase either within a genotyped cohort or using a phased reference panel in large scale sequencing. The package includes Eagle1 (to harness identity-by-descent among distant relatives to rapidly call phase using a fast scoring approach) and Eagle2 (to analyze a full probabilistic model similar to the diploid Li-Stephens model used by previous HMM-based methods. | hmm, hidden markov model, statistic, estimation, haplotype, phase, reference, panel, sequencing, algorithm, analysis, probability |
is listed by: Debian is listed by: OMICtools has parent organization: Broad Institute |
Austrian Science Fund J-3401; Dutch Brain Foundation ; Fannie and John Hertz Foundation ; NCRR S10 RR028832; NHGRI F32HG007805; NHGRI HG007022; NHGRI R01 HG006399; NHLBI HL117626; NIMH R01 MH101244; NWO 480-05-003; Wellcome Trust WT098051 |
PMID:27694958 PMID:27270109 |
Free, Available for download, Freely available | OMICS_14099, SCR_017262 | https://sources.debian.org/src/bio-eagle/, https://github.com/poruloh/Eagle, https://data.broadinstitute.org/alkesgroup/Eagle/downloads/ | SCR_015991 | Bio-eagle, Eagle1, Eagle2 | 2026-09-12 01:02:53 | 57 | |||||
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SAINTexpress Resource Report Resource Website 10+ mentions |
SAINTexpress (RRID:SCR_018562) | software resource, software toolkit | Software tool for upgraded implementation of probabilistic scoring of affinity purification mass spectrometry data. Used for filtering high confidence interaction data from affinity purification mass spectrometry experiments. Used for assigning confidence scores to protein-protein interactions based on quantitative proteomics data in AP-MS experiments. | Probabilistic scoring, affinity purification, mass spectrometry data, mass spectrometry experiment data, assigning confidence score, protein-protein interaction, quantitative proteomic data | NCI R01 CA126239; NCRR R01 RR024031; NIGMS R01 GM094231 |
PMID:24513533 | Free, Freely available | SCR_018562 | Significance Analysis of INTeractome Express | 2026-09-12 01:02:56 | 16 | ||||||||
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LONI De-identification Debablet Resource Report Resource Website |
LONI De-identification Debablet (RRID:SCR_009593) | LONI De-identification Debablet | software application, software resource | Software application for removing patient-identifying information from medical image files. Removing this information is often necessary for enabling investigators to share image files in a HIPAA compliant manner. | analyze, console (text based), dicom, java, minc, magnetic resonance, nifti, os independent, win32 (ms windows), workflow |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) has parent organization: Laboratory of Neuro Imaging |
NIBIB 9P41EB015922-15; NCRR 2-P41-RR-013642-15 |
LONI Software License | nlx_155784 | http://www.nitrc.org/projects/did | http://www.loni.ucla.edu/Software/Software_Detail.jsp?software_id=23 | SCR_009593 | 2026-09-12 01:02:47 | 0 | |||||
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BioMesh3D Resource Report Resource Website 1+ mentions |
BioMesh3D (RRID:SCR_009534) | BioMesh3D | software application, software resource | A free, easy to use program for generating quality meshes for use in biological simulations. It is currently integrated with SCIRun and uses the SCIRun system to visualize the intermediate results. The BioMesh3D program uses a particle system to distribute nodes on the separating surfaces that separate the different materials and then uses the TetGen software package to generate a full tetrahedral mesh. | mesh, simulation |
is listed by: NeuroImaging Tools and Resources Collaboratory (NITRC) is related to: SCIRun is related to: SCIRun has parent organization: University of Utah; Utah; USA |
NCRR 5P41RR012553-15; NIGMS 8 P41 GM103545-15 |
PMID:23367171 | MIT License | nlx_155708 | http://www.nitrc.org/projects/biomesh3d | SCR_009534 | 2026-09-12 01:02:46 | 3 |
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