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http://ctdbase.org/

A public database that enhances understanding of the effects of environmental chemicals on human health. Integrated GO data and a GO browser add functionality to CTD by allowing users to understand biological functions, processes and cellular locations that are the targets of chemical exposures. CTD includes curated data describing cross-species chemical–gene/protein interactions, chemical–disease and gene–disease associations to illuminate molecular mechanisms underlying variable susceptibility and environmentally influenced diseases. These data will also provide insights into complex chemical–gene and protein interaction networks.

Proper citation: Comparative Toxicogenomics Database (CTD) (RRID:SCR_006530) Copy   

•   Source: SciCrunch Registry

http://www.ncrr.nih.gov/comparative_medicine/resource_directory/primates.asp

THIS RESOURCE IS NO LONGER IN SERVICE, documented on October 16, 2013. NCRR has been absorbed into other parts of the National Institutes of Health. This organizational structure is no longer available. Provides laboratory scientists and clinical researchers with the resources and tools they need to understand, detect, treat and prevent a wide range of diseases. Animal models, such as nonhuman primates, are a critical component of biomedical research, having profound implications for public health. Scientists depend on laboratory animals and other nonhuman models for investigating biological processes, studying the causes of diseases and testing promising new therapies. Nonhuman primates, in particular, are important for translational research because of their close physiological similarities to humans. They enable discoveries that have direct application to human studies, bridging the gap between basic science and human medicine. Discoveries in animal models are helping scientists test treatments for human conditions such as drug addiction, obesity, malaria, HIV/AIDS and neurodegenerative diseases, accelerating the pace at which these research advances can be translated into treatments for patients. Through its Division of Comparative Medicine, NCRR offers a wide variety of primate resources for NIH-funded scientists across the nation. Additionally, funding opportunities are available to National Primate Research Centers. Eight National Primate Research Centers (NPRCs) located throughout the country provide animals, facilities and expertise in all aspects of nonhuman primate biology and husbandry. These facilities and resources enable collaborative research among NPRC staff scientists, investigators from the NPRC host institution and other NIH-funded researchers. Major areas of research benefiting from the primate centers include AIDS, avian flu, Alzheimer''s disease, Parkinson''s disease, diabetes, asthma and endo-metriosis. The centers????????????????? specialized resources are intended to support investigators who receive their primary research project funding from NIH, but they also may be used by investigators who are funded by other federal, state and local agencies, as well as by research foundations and the private sector. Together the primate centers have more than 28,000 nonhuman primates of 20 different species. This portal covers the following topics: * National Primate Research Centers * Monkey Research Resources * Chimpanzee Research Resources * Chimpanzee Management Program * Specific-Pathogen-Free Macaque Resources * Nonhuman Primate Research Reagents

Proper citation: National Center for Research Resources - Primate Resources (RRID:SCR_006863) Copy   

•   Source: SciCrunch Registry

https://dna-analysis.yale.edu/

Core supports DNA Sequencing of PCR, Plasmid, BAC and Fosmid templates, Fragment Analysis of Microsatellites, AFLP, t-RFLP, SHAPE Experiments and Human Cell Line Authentication.

Proper citation: Yale University DNA Analysis on Science Hill Core Facility (RRID:SCR_017689) Copy   

•   Source: SciCrunch Registry

https://flowcore.hsc.wvu.edu/

Facility provides instrumentation and scientific support for single cell analysis and sorting. Routinely performs analysis of both eukaryotic and prokaryotic cells for expression of intracellular and extracellular proteins, cell cycle, cell proliferation, cytokine production, and cell sorting based on expression of cell surface antigen(s) and/or expression of genetically engineered intercellular fluorescent proteins.

Proper citation: West Virginia University Flow Cytometry and Single Cell Core Facility (RRID:SCR_017738) Copy   

•   Source: SciCrunch Registry

http://facs.stanford.edu/

Provides flow cytometry instrumentation and expertise. Provides operator assisted analyzer and sorter use, as well as training and support for user instrument operation.

Proper citation: Stanford University Shared FACS Core Facility (RRID:SCR_017788) Copy   

•   Source: SciCrunch Registry

http://massspec.chem.wisc.edu

Core provides mass spectrometers including Thermo Q Exactive Plus,Bruker impact II ,Bruker microflex LRF,Bruker ULTRAFLEX III,Shimadzu GCMS-QP2010S,Waters Acquity LCMS.

Proper citation: University of Wisconsin-Madison Chemistry Instrumentation Center - Mass Spectrometry Core Facility (RRID:SCR_017931) Copy   

•   Source: SciCrunch Registry

https://www.brown.edu/research/facilities/proteomics/

Core provides instrumentation and proteomics expertise to Brown University and Rhode Island-EPSCoR scientific communities and training in emerging proteomic techniques. Mass Spectrometry proteomics resources and services are provided by COBRE Center for Cancer Research Development (CCRD) at Rhode Island Hospital: Proteomics Core.

Proper citation: Brown University Division of Biology and Medicine Proteomics Shared Resource Core Facility (RRID:SCR_017910) Copy   

•   Source: SciCrunch Registry

https://med.nyu.edu/research/scientific-cores-shared-resources/microscopy-laboratory

Core offers comprehensive light and electron microscopy technologies. Our scientists use light microscopes and electron microscopes at resolutions ranging from centimeters to angstroms, providing clear and detailed images.We assist at every stage of your experiment, offering research-design consultation and instrument training, as well as guidance in study execution, analysis, and presentation for publication.

Proper citation: New York University School of Medicine Langone Health Microscopy Laboratory Core Facility (RRID:SCR_017934) Copy   

•   Source: SciCrunch Registry

https://fsl.fmrib.ox.ac.uk/fsl/fslwiki/FIRST

Software model based segmentation and registration tool. Used for segmentation of sub-cortical structures. Introduces basic segmentation and vertex analysis for detecting group differences.

Proper citation: FMRIB’s Integrated Registration and Segmentation Tool (RRID:SCR_024921) Copy   

•   Source: SciCrunch Registry

http://www.loni.usc.edu/Software/DiD

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.

Proper citation: LONI De-identification Debablet (RRID:SCR_009593) Copy   

•   Source: SciCrunch Registry

http://www.sci.utah.edu/cibc/software/231-biomesh3d.html

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.

Proper citation: BioMesh3D (RRID:SCR_009534) Copy   

•   Source: SciCrunch Registry

http://researchiq.bmi.osumc.edu

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.

Proper citation: ResearchIQ (RRID:SCR_014304) Copy   

•   Source: SciCrunch Registry

https://data.broadinstitute.org/alkesgroup/Eagle/

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.

Proper citation: Eagle (RRID:SCR_015991) Copy   

•   Source: SciCrunch Registry

http://rlbl.chem.upenn.edu

Biomedical technology research center and training resource that develops time-resolved laser technologies and instrumentation, with a focus on 2-D IR spectroscopy. The technologies enable atomic-level measurements of the fastest steps in biological processes to elucidate structure and dynamics in biological macromolecules, assemblies and cells. The Center makes most of its instrumentation available for service research projects to outside users nation-wide.

Proper citation: Ultrafast Optical Processes Laboratory (RRID:SCR_006582) Copy   

•   Source: SciCrunch Registry

http://www.nrcam.uchc.edu/

Biomedical technology research center that develops new technologies for modeling cell biological processes. The technologies are integrated through Virtual Cell, a problem-solving environment built on a central database and disseminated as a Web application for the analysis, modeling and simulation of cell biological processes. NRCAM resides at the Center for Cell Analysis and Modeling, CCAM, and provides a vast array of laboratory equipment that can be used for obtaining experimental data needed to create and enhance Virtual Cell models. Microscopy instrumentation includes three confocal laser scanning microscopes including UV excitation, nonlinear optical microscopy utilizing a titanium sapphire pulsed laser, confocal-based fluorescence correlation spectroscopy, wide-field imaging workstation with cooled CCD and rapid excitation filter wheel, and dual-wavelength spectrofluorometer. Access to the facilities and technical staff is open to all researchers., THIS RESOURCE IS NO LONGER IN SERVICE. Documented on September 16,2025.

Proper citation: NRCAM (RRID:SCR_006134) Copy   

•   Source: SciCrunch Registry

https://www.colorado.edu/facility/ems/

Core provides access to instruments including:FEI Tecnai 12 Spirit TEM, FEI Tecnai F20 (200kV) FEG-TEM 200kV FEG-TEM,Gatan US4000 4k x 4k CCD, bottom-mount,CryoTEM and electron tomography,High-resolution TEM;FEI Tecnai F20 (200kV) FEG-TEM,300kV FEG-TEM,Gatan US4000 4k x 4k CCD, bottom-mount,CryoTEM and electron tomography,High-resolution TEM,FEI/Phillips CM100 (100kV) TEM,100kV, tungsten TEM,2k x 2k AMT CCD, bottom-mount.

Proper citation: Colorado University at Boulder EM Services Core Facility (RRID:SCR_001432) Copy   

•   Source: SciCrunch Registry

http://ohsu.eagle-i.net/i/0000012e-5e3a-7084-4106-535b80000000

In cooperation with the Data and Clinical Cores at the Layton Center, the Biomarkers and Genetics Core generates and maintains biomarker data for select biomarkers which have established roles in the characterization of subjects with or at risk of dementia. Biological markers of brain aging, dementia risk, and neurodegeneration have the potential to accelerate the identification of disease mechanisms and treatment strategies. Biomarkers may include genes, proteins, or other metabolites, and may be identified in DNA, cerebrospinal fluid (CSF), or plasma. Apolipoprotein E (APOE) genotype is generated for all research subjects. Sub-groups of subjects have other types of biomarker data. Many subjects have had genome-wide SNP data generated. In order to foster collaborative research as well as expand resources and expertise, samples (DNA, CSF, and plasma) and data are distributed to qualified investigators worldwide. Most of these researchers are pursuing the causes and modifiers of dementia. Data and samples are collected from well characterized research subjects including the healthy elderly and dementia patients.

Proper citation: Layton Alzheimers Disease Center Biomarkers and Genetics Core Lab (RRID:SCR_009911) Copy   

•   Source: SciCrunch Registry

http://ohsu.eagle-i.net/i/0000012e-5e56-c3be-4106-535b80000000

THIS RESOURCE IS NO LONGER IN SERVICE.Documented on December 6th,2022. The Oregon Alzheimer?s Disease Center?s (OADC) Clinical Core program, directed by Dr. Jeffrey Kaye, performs longitudinal studies of the natural history of brain aging and Alzheimer''s disease in patients and healthy control volunteers. These studies which are performed through standardized neurological, neuro-psychological, and brain-imaging assessments are carried out in the Alzheimer''s Disease and Memory Assessment Clinics as well as through community-based assessments conducted in the homes of study volunteers. The Layton Center Neuroimaging Lab conducts brain-imaging MRI brain scans to assist in diagnosis of brain disease. Typically, MRI images are taken from three different planes. These planes are known as the coronal plane, sagittal plane and the axial plane. Each series of MRI images is named after the plane from which they were obtained. The Clinical Core?s research is focused on preclinical and early Alzheimer?s disease (AD) yet is also poised to participate in other relevant new research as it arises. The OADC Clinical Core recruits, assesses and follows individuals from population groups at high risk for dementia such as: the healthy ?oldest old?, subjects with family history of AD, and subjects with Mild Cognitive Impairment (MCI). Research with underserved populations The Oregon Alzheimer?s Disease Center also maintains two Satellite programs to enhance understanding of underserved populations: The Klamath Exceptional Aging Project (KEAP) is a community-based study of brain aging being conducted in Klamath Falls. The African American Dementia and Aging Project (AADAPt) s a Portland-based cohort of 100 African American seniors.

Proper citation: Layton Alzheimers Disease Center Clinical Core (RRID:SCR_009912) Copy   

•   Source: SciCrunch Registry

http://amp.pharm.mssm.edu/X2K/

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.

Proper citation: eXpression2Kinases (RRID:SCR_016307) Copy   

•   Source: SciCrunch Registry

https://sourceforge.net/projects/saint-apms/files/

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.

Proper citation: SAINTexpress (RRID:SCR_018562) Copy   

•   Source: SciCrunch Registry