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https://lsom.uthscsa.edu/dcsa/research/cores-facilities/optical-imaging/

Service resource which makes imaging technology available to investigators on UTHSCSA campus and neighboring scientific community. Core Optical Imaging Facility offers access to technology for imaging of living cells, tissues, and animals, consultation, education and assistance regarding theory and application of optical imaging techniques, technical advice on specimen preparation techniques and probe selection.

Proper citation: Texas University Health Science Center at San Antonio Long School of Medicine Department of Cell Systems and Anatomy Optical Imaging Core Facility (RRID:SCR_012171) Copy   

•   Source: SciCrunch Registry

https://www.moffitt.org/research-science/shared-resources/tissue/

Biorepository resource with mission of proper collection, handling, processing and storage of irreplaceable biological specimens to support spectrum of related basic science, translational and clinical research. Provides expertise in nucleic acid extractions, quantification, aliquoting and quality assurance; liquid specimen centrifugation, processing and aliquoting; histological tissue processing, immunohistochemistry and tissue microarray microtomy; pathologist consultation services. Tissue Core operations are divided into four distinct pillars of service that work collaboratively to ensure specimen quality is maintained from procurement to preservation.

Proper citation: Moffitt Cancer Center Tissue Core Facility (RRID:SCR_012364) Copy   

•   Source: SciCrunch Registry

https://www.roswellpark.edu/shared-resources/gene-targeting-and-transgenic

Facility which provides researchers with transgenic mouse technologies, methods, and animal models. Knockout mice, transgenic mice, and mice on multiple strain backgrounds are provided.

Proper citation: RPCI Gene Targeting and Transgenic Shared Resource (RRID:SCR_001020) Copy   

•   Source: SciCrunch Registry

http://www.broad.mit.edu/mpr/lung

Data set of a molecular taxonomy of lung carcinoma, the leading cause of cancer death in the United States and worldwide. Using oligonucleotide microarrays, researchers analyzed mRNA expression levels corresponding to 12,600 transcript sequences in 186 lung tumor samples, including 139 adenocarcinomas resected from the lung. Hierarchical and probabilistic clustering of expression data defined distinct sub-classes of lung adenocarcinoma. Among these were tumors with high relative expression of neuroendocrine genes and of type II pneumocyte genes, respectively. Retrospective analysis revealed a less favorable outcome for the adenocarcinomas with neuroendocrine gene expression. The diagnostic potential of expression profiling is emphasized by its ability to discriminate primary lung adenocarcinomas from metastases of extra-pulmonary origin. These results suggest that integration of expression profile data with clinical parameters could aid in diagnosis of lung cancer patients.

Proper citation: Classification of Human Lung Carcinomas by mRNA Expression Profiling Reveals Distinct Adenocarcinoma Sub-classes (RRID:SCR_003010) Copy   

•   Source: SciCrunch Registry

http://www.census.gov/did/www/nlms/

A database based on a random sample of the noninstitutionalized population of the United States, developed for the purpose of studying the effects of demographic and socio-economic characteristics on differentials in mortality rates. It consists of data from 26 U.S. Current Population Surveys (CPS) cohorts, annual Social and Economic Supplements, and the 1980 Census cohort, combined with death certificate information to identify mortality status and cause of death covering the time interval, 1979 to 1998. The Current Population Surveys are March Supplements selected from the time period from March 1973 to March 1998. The NLMS routinely links geographical and demographic information from Census Bureau surveys and censuses to the NLMS database, and other available sources upon request. The Census Bureau and CMS have approved the linkage protocol and data acquisition is currently underway. The plan for the NLMS is to link information on mortality to the NLMS every two years from 1998 through 2006 with research on the resulting database to continue, at least, through 2009. The NLMS will continue to incorporate data from the yearly Annual Social and Economic Supplement into the study as the data become available. Based on the expected size of the Annual Social and Economic Supplements to be conducted, the expected number of deaths to be added to the NLMS through the updating process will increase the mortality content of the study to nearly 500,000 cases out of a total number of approximately 3.3 million records. This effort would also include expanding the NLMS population base by incorporating new March Supplement Current Population Survey data into the study as they become available. Linkages to the SEER and CMS datasets are also available. Data Availability: Due to the confidential nature of the data used in the NLMS, the public use dataset consists of a reduced number of CPS cohorts with a fixed follow-up period of five years. NIA does not make the data available directly. Research access to the entire NLMS database can be obtained through the NIA program contact listed. Interested investigators should email the NIA contact and send in a one page prospectus of the proposed project. NIA will approve projects based on their relevance to NIA/BSR''s areas of emphasis. Approved projects are then assigned to NLMS statisticians at the Census Bureau who work directly with the researcher to interface with the database. A modified version of the public use data files is available also through the Census restricted Data Centers. However, since the database is quite complex, many investigators have found that the most efficient way to access it is through the Census programmers. * Dates of Study: 1973-2009 * Study Features: Longitudinal * Sample Size: ~3.3 Million Link: *ICPSR: http://www.icpsr.umich.edu/icpsrweb/ICPSR/studies/00134

Proper citation: National Longitudinal Mortality Study (RRID:SCR_008946) Copy   

•   Source: SciCrunch Registry

https://www.mskcc.org/research/ski/core-facilities/monoclonal-antibody-core-facility

ABCF can provide MAbs from established hybridomas for RESEARCH PURPOSES ONLY, can assist in generating MAbs, offers a weekly mycoplasmal contamination screening service for tissue culture samples, distributes cell lines developed at Memorial Sloan Kettering Cancer Center and Rockefeller University.

Proper citation: Memorial Sloan Kettering Cancer Center Antibody and Bioresource Core Facility (RRID:SCR_017691) Copy   

•   Source: SciCrunch Registry

http://mass-spec.stanford.edu

Core mass spec and proteomic services include open access lab for trained users with GC/MS, LC/MS, high resolution LC/MS, and MALDI-TOF instruments, help with intact protein analysis, targeted quantitation, drug discovery support, pathway analysis, protein interactions, FFPE tissue analysis, both labeled and label-free proteomics, and more. Please contact SUMS to discuss these and other custom projects including new application development.

Proper citation: Stanford University Vincent Coates Foundation Mass Spectrometry Laboratory Core Facility (RRID:SCR_017801) Copy   

•   Source: SciCrunch Registry

http://rhlccflow.facilities.northwestern.edu

Provides 6 cell sorters and 5 benchtop analyzers. Helps investigators to define their projects in the early stages of development to make optimal and efficient use of flow cytometry. Educates ALL users (faculty and staff) in the science and technology of flow cytometry.

Proper citation: Northwestern University Cancer Center Flow Cytometry Core Facility (RRID:SCR_017766) Copy   

•   Source: SciCrunch Registry

http://cancer.northwestern.edu/research/shared-resources/pathology-core-facility.html

Centralized, comprehensive, core laboratory providing histology, immunohistochemistry, molecular analysis and extraction and microscopic evaluation services for human tissue-based studies. Serves integral marker studies that require biomarker-based treatment arm assignment. Performs procurement of fresh biospecimens for clinical trials and biobanking.

Proper citation: Northwestern University School of Medicine Lurie Cancer Center Pathology Core Facility (RRID:SCR_017769) Copy   

•   Source: SciCrunch Registry

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

Core offers specialized expertise for analysis of proteins and peptides using mass spectrometry. Develops new methods and customized approaches for proteomic analysis and suggests experimental strategies and sample preparation prior to mass spectrometry analysis. Services include:comprehensive protein identification ,analysis of affinity purified complexes,characterizing protein post-translational modifications,de novo sequencing,label and label-free quantitation ,multiplexed quantitation global phosphorylation and ubiquitin analysis,analysis of laser-capture microdissected formalin-fixed paraffin-embedded tissue,secretome analysis,crosslinking analysis,disulfide mapping.

Proper citation: New York University School of Medicine Langone Health Proteomics Laboratory Core Facility (RRID:SCR_017926) Copy   

•   Source: SciCrunch Registry

https://isairr.bsd.uchicago.edu/

Core offers imaging modalities, techniques, and services for in vivo imaging of small animals and ex vivo imaging of tissue/organ specimens. iSAIRR sub-cores feature magnetic resonance imaging and spectroscopy (MRIS); optical imaging (bioluminescence and fluorescence); positron emission tomography, single photon emission computed tomography, and computed tomography (PET/SPECT/CT).Services include Assistance with experimental design,Assisted and/or independent image acquisition,Veterinary support for all imaging modalities,Assistance with data processing and interpretation.

Proper citation: Chicago University Integrated Small Animal Imaging Research Resource Core Facility (RRID:SCR_017923) Copy   

•   Source: SciCrunch Registry

http://www.med.unc.edu/csb/sbi

Core provides consultations and collaborations on research studies requiring computational structural biology methods. Analyses available are to study of static structures, molecular dynamics studies for analyzing contribution of dynamic and collective motions to macromolecular functionality. Trains researchers in computational structural biology techniques, or works in collaborative manner with researchers.Provides access to software tools for protein and DNA sequence analysis, protein fold determination, homology modeling, active site identification, and analysis of effects of various mutations on structure and function of protein, along with additional computational analyses.

Proper citation: North Carolina University at Chapel Hill R.L. Juliano Structural Bioinformatics Core Facility (RRID:SCR_017836) Copy   

•   Source: SciCrunch Registry

https://www.med.unc.edu/csb/nmr/

Core to support academic and industrial users. Spectrometer time is available to trained users for an hourly fee. Lab manager trains new users, consults to determine whether NMR will be useful in their research, and helps design experimental plan to obtain information they need. Manager also operates spectrometer for users whose experiments do not justify time and expense of individual training.

Proper citation: North Carolina University at Chapel Hill School of Medicine Biomolecular NMR Laboratory Core Facility (RRID:SCR_017841) Copy   

•   Source: SciCrunch Registry

http://www.med.unc.edu/csb/pep

Core specializes in production of pure, functional proteins for structural, biophysical, and biochemical studies. Facility offers three categories of service:Protein Expression,Protein Purification,Scientific Consultation, Mentoring, and Training; Offers Isotope labeled proteins for NMR;High production scales for immunizations, drug discovery, structural biology;Endotoxin-free protein production;Stable cell line generation;Expert baculovirus expression;Custom packages to efficiently suit your needs.

Proper citation: North Carolina University at Chapel Hill School of Medicine Protein Expression and Purification Core Facility (RRID:SCR_017843) Copy   

•   Source: SciCrunch Registry

http://www.ucdmc.ucdavis.edu/cancer/research/sharedresources/flowcytometry.html

Core provides access to expertise and instrumentation for analytical flow cytometry, cell sorting and laser scanning cytometry.Cell sorting and analytical cytometers are located at three sites in Davis and Sacramento for research use on recharge basis. Provides cell sorters for assisted sorting on appointment basis and provides training to investigators in acquiring data on analytic cytometers.Can advise on experiment design for flow cytometry, provides training to enable independent use of analytical cytometers, and familiarize investigators with popular data analysis software tools such as BD Diva and CellQuest, FlowJo, ModFit and iBrowser.

Proper citation: University of California Davis Flow Cytometry Shared Resource Laboratory Core Facility (RRID:SCR_017826) Copy   

•   Source: SciCrunch Registry

https://med.virginia.edu/flow-cytometry-facility/

Services include unassisted and assisted sample acquisition, cell sorting, mass cytometry (CyTOF), Luminex cytokine assays, antibody conjugation and data analysis.

Proper citation: University of Virginia School of Medicine Flow Cytometry Core Facility (RRID:SCR_017829) Copy   

•   Source: SciCrunch Registry

https://cibersort.stanford.edu/

Software tool to provide an estimation of the abundances of member cell types in a mixed cell population, using gene expression data. Used for characterizing cell composition of complex tissues from their gene expression profiles, large scale analysis of RNA mixtures for cellular biomarkers and therapeutic targets.

Proper citation: CIBERSORT (RRID:SCR_016955) Copy   

•   Source: SciCrunch Registry

https://github.com/JonathanIrish/MEMv3

Software tool to calculate enrichment scores. Generates human and machine readable labels that quantify features enriched in sample. Used to identify multiple populations of cells and to compare each population to all of other remaining cells from original sample.

Proper citation: Marker Enrichment Modeling (RRID:SCR_022495) Copy   

•   Source: SciCrunch Registry

https://github.com/raphael-group/chisel

Software tool to infer allele and haplotype specific copy numbers in individual cells from low coverage single cell DNA sequencing data. Integrates weak allelic signals across individual cells, powering strength of single cell sequencing technologies to overcome weakness. Includes global clustering of RDRs and BAFs, and rigorous model selection procedure for inferring genome ploidy that improves both inference of allele specific and total copy numbers.

Proper citation: CHISEL (RRID:SCR_023220) Copy   

•   Source: SciCrunch Registry

https://ki.mit.edu/sbc/nanocore

Provides instruments for materials and nanomaterials research and full service TEM and cryoTEM sample preparation and imaging. Conducts CLEM and cryoCLEM workflows utilizing cryoFluorescence, cryoSEM and cryoFIB with focus on bio samples.Provides equipment and expertise to work with nanomaterials for characterization and imaging purpose. Core imaging capabilities include high performance field emission transmission electron microscope equipped with STEM, EELS, EDS and cryo-imaging, high performance field emission scanning electron microscope and focused ion beam equipped with STEM and cryo-imaging, cryo-fluorescent confocal microscope for CLEM workflows, and atomic force microscope equipped with liquid cell. Instrumentation for material characterization includes high throughputdynamic light scattering, nanoparticle sizing and counting, and rheometry.

Proper citation: Massachusetts Institute of Technology Swanson Biotechnology Center Nanotechnology Materials Core Facility (RRID:SCR_018674) Copy   

•   Source: SciCrunch Registry