Equipment in research cores
Major equipment in the School of Medicine research cores
| Equipment | Use | Operated by | Location* |
|---|---|---|---|
| JEOL 1230 | transmission electron microscope, real-time digital imaging (2Kx2K), ultra high resolution digital imaging (4Kx4K), film imaging. | core or researcher | MSB 4804 (AMF) |
| Zeiss Sigma VP HD field emission SEM | scanning electron microscope | core or researcher | MSB 4805 (AMF) |
| Zeiss LSM 700 | confocal microscope, inverted, with 4 channels, ZEN software | core or researcher | MSB 4802 (AMF) |
| Zeiss LSM 710 | Multiphoton confocal. upright, 4 channels, 6 laser lines, Coherent Chameleon IR laser, | core or researcher | MSB 4809 (AMF) |
| Zeiss LSM 880 | Reads 10 dyes simultaneously, high sensitivity detector, environmental chamber for live cell imaging | core or researcher | MR4 5136 (AMF) |
| PerkinElmer Operetta | High content image analysis | MSB 4808 (AMF) | |
| Leica Ultracut UC7 ultramicrotome | preparation of samples for transmission electron microscopy | core or researcher | MSB 4806 (AMF) |
| Olympus BX51 with digital camera | Brightfield, Fluorescence, Phase Contrast and DIC | core or researcher | MSB 4809 (AMF) |
| Olympus SZX12 dual objective stereo microscope with digital camera | Brightfield, Darkfield and Fluorescence | core or researcher | MSB 4808 (AMF) |
| High Resolution Vacuum Evaporator for rotary shadowing | metal coating | core or researcher | MSB 4808 (AMF) |
| Leica Ultracut Ultramicrotomes (3) | core or researcher | MSB 4806 (AMF) | |
| Critical Point Dryer | core or researcher | MSB 4802 (AMF) | |
| Sputter Coater | core or researcher | MSB 4802 (AMF) | |
| Computing clusters, dedicated access, 8 cores, 128GB RAM | Bioinformatics | ||
| Computational infrastructure that is essential for analyzing high-throughput biological data, including shared access to an HPC cluster with >5,000 computing cores, >30,000 GB RAM, and >1 PB disk space, and dedicated access to several high-memory multicore development servers | Bioinformatics | ||
| Bioconductor software for bioinformatics and statistical computing, over 600 packages | Bioinformatics | ||
| Bruker Avance III NMR spectrometer 800MHz | core or researcher | Chem 133 (BioNMR) | |
| Bruker Avance III NMR spectrometer 600MHz | core or researcher | Chem 133 (BioNMR) | |
| Bruker Avance DRX NMR spectrometer 600MHz | core or researcher | Chem 106 (BioNMR) | |
| Varian NMRS spectrometer 600MHz | core or researcher | Chem 111 (BioNMR) |
|
| Varian Inova 500 NMR spectrometer 500MHz | core or researcher | Chem 175 (BioNMR) |
|
| Leica ASLMD laser microdissection apparatus | micro scale dissection of fixed or frozen tissue | researcher | MR6 G712 (BTRF) |
| Arcturus (Life Technologies) XT-TI laser microdissection apparatus | micro scale dissection of fixed or frozen tissue under bright-field, phase contrast or fluorescence visualization | researcher | MR6 G712 (BTRF) |
| Pathology Devices TMArrayer semi-automated tissue microarray apparatus | production of tissue microarrays | core | MR6 G712 (BTRF) |
| QIAGEN QIAcube robotic workstation | fully automated protein and nucleic acid extraction | core | MR6 G712 (BTRF) |
| Next Advance Bullet Blender tissue homogenizer | tissue disruption/homogenization for fresh, frozen or fixed tissue | core | MR6 G712 (BTRF) |
| Miltenyi Biotech gentleMACS™ Dissociator | resh tissue dissociation for viable cells | core | MR6 G712 (BTRF) |
| Bio-Rad iMark Absorbance Microplate Reader | 96-well format plate reader; available filters 415,450,595,620,655,750 nm | core or researcher | MR6 G712 (BTRF) |
| Bio-Rad Experion microcapillary electrophoresis system | microscale/LabChip RNA and DNA analysis | core | MR6 G712 (BTRF) |
| NanoDrop spectrophotometer | microscale DNA and RNA quantitation | core or researcher | MR6 G712 (BTRF) |
| DAKO Autostainer/Autostainer Plus | automated immunohistochemistry platform | core | MR6 G712 (BTRF) |
| DAKO PT Link pretreatment module | semi-automated depariffinization and antigen retrieval for immunohistochemistry | core | MR6 G712 (BTRF) |
| Leica 3050S research cryostat | preparation of frozen tissue sections | core or researcher | MR6 G710 (BTRF) |
| Olympus BX41TF with 12 megapixel Digital Camera and Olympus Microsuite Pathology | bright-field photomicroscopy and remote collaboration | core or researcher | MR6 G712 (BTRF) |
| Nikon COOLSCOPE | bright-field photomicroscopy | core or researcher | MR6 G712 (BTRF) |
| Leica SCN400 digital whole-slide scanner with SlidePath Digital Image Hub, Tissue IA, and OpTMA Module | bright-field whole slide imaging, image analysis, and tissue microarray de-arraying, annotation, and analysis | core | MR6 B703 (BTRF) |
| Sakura Finetek VIP5 Processor | automated processing of formalin-fixed tissue | core | MR6 G710 (BTRF) |
| Sakura Finetek Tissue-Tek TEC | preparation of paraffin blocks | core | MR6 G710 (BTRF) |
| Microm HM 325 with collimator | microtome for sectioning paraffin blocks and tissue microarrays | core | MR6 G710 (BTRF) |
| MVE-Chart 1536P vapor phase LN2 freezers | vapor phase biospecimen storage | core | MR6 B501 (BTRF) |
| -30º C freezer | biospecimen storage | core | MR6 G701A (BTRF) |
| -80º C freezers | biospecimen storage | core | MR6 G701A (BTRF) |
| 10X Genomics Chromium Controller | Chromium Single Cell 3′ RNA Seq | core | Pinn 1076 (GATC) |
| Illumina MiSeq sequencing system | small, rapid next gen sequencing projects | core | Pinn 1044 (GATC) |
| Illumina NextSeq sequencing system | small genome sequencing, exome sequencing, transcriptome sequencing | core | Pinn 1044 (GATC) |
| Applied Biosystems Prism QuantStudio 6 Flex Real Time PCR System | real time PCR | core | Pinn 1076 (GATC) |
| Agilent Bioanalyzer | capillary electrophoresis of small samples of DNA and RNA for quality control | core or researcher | Pinn 1044 (GATC) |
| NanoVue Spectrophotometer | measuring absorbances of small volumes, especially quantitation of DNA | core | Pinn 1076 (GATC) |
| Qubit fluorometer | quantitating small samples of DNA and RNA by fluorescence | core or researcher | Pinn 1044 (GATC) |
| QIAcube DNA/RNA purification apparatus | nucleic acid extraction | core | Pinn 1044 (GATC) |
| Bio-Rad QX200™ Droplet Digital™ PCR System | absolute quantitation of DNA and RNA | core or researcher | Pinn 1076 (GATC) |
| Sage Pippin Prep | preparation of libraries for NGS using agaroe gel electrophoresis to isolate the desired size(s) | researcher | Pinn 1076 (GATC) |
| Covaris S2 | Shear DNA to sizes suitable for sequencing | researcher | Pinn 1076 (GATC) |
| Agilent Tape Station | Analysis of RNA by electrophoretic separation | core or researcher | Pinn 1076 (GATC) |
| SensorMedics Vmax Metabolic Stress Testing Systems | Clinical measurement of oxygen consumption during exercise | core | Collins 2406 (EPCL) |
| BOD POD GS Body Composition tracking system (COSMED) | Air displacement plethysmography system for determining body composition, e.g. fat free tissue and fat tissue | core | Collins 2406 (EPCL) |
| GE Case Exercise Testing System including ECG and Treadmill | Clinical measurement of oxygen consumption during exercise | core | Collins 2406 (EPCL) |
| Monark Arm Crank Ergometer | Upper body ergometer | core | Collins 2406 (EPCL) |
| Quinton Q-Stress ECG system | Electrocardiograph for exercise testing; compatible with Lode ergometer | core | Collins 2406 (EPCL) |
| Lode Bicycle Ergometer | Electronically calibrated research ergometer | core | Collins 2406 (EPCL) |
| YSI 2900 Lactate/Glucose Dual Analyzer | Measurement of lactate and glucose at rest and during exercise | core | Collins 2406 (EPCL) |
| sliceOmatic (TomoVision) software | Medical image analysis software for measurement, segmentation and analyzes of multi-slice scanner data. | core | Collins 2406 (EPCL) |
| Brachial Analyzer (MIA Vascular Research Tools 5) software | Medical image analysis software for the assessment of FMD/endothelial function of brachial artery from ultrasound image data. | core | Collins 2406 (EPCL) |
| Attune™ NxT | high throughput cytometry with 4 lasers, 14 colors and autosampler | core | Pinn 2013 (FCCF) |
| Becton Dickinson FACSVantage SE Turbo Sorter with DIVA cell sorter | 10 color, 4 way sorting, sterile sorting, BSL2 materials, with 3 lasers | core | Pinn 2013 (FCCF) |
| Becton Dickinson Fortessa LSRII benchtop analyzer | 4 lasers, 17 detectors at up to 30,000 cells/sec | core or researcher | Pinn 2011 (FCCF) |
| Becton Dickinson/Cytek FACSCalibur Benchtop Analyzer | 3 laser, 5 color analyses | core or researcher | Pinn 2011 (FCCF) |
| Becton Dickinson/Cytek FACSCalibur Benchtop Analyzer | 4 laser, 10 color analyses with Automated Micro-Sampler system for 96 well plates | core or researcher | Pinn 2011 (FCCF) |
| Becton Dickinson/Cytek FACSCalibur Benchtop Analyzer | 2 laser, 4 color analyses | core or researcher | Pinn 2011 (FCCF) |
| Becton Dickinson/Cytek FACSCalibur Benchtop Analyzer | 2 laser, color analyses | researcher | Pinn 2011 (FCCF) |
| Beckman Coulter CyAn ADP LX 9 Color | 3 laser, 9 color analysis at up to 30,000 cells/sec | core or researcher | Pinn 2011 (FCCF) |
| Amnis ImagestreamX Mark II | imaging cytometer, for dark field, bright field and fluorescent images with 4 lasers, 12 channels, 20X, 40X, 60X magnifications, 96 well plate automation | core or researcher | Pinn 2011 (FCCF) |
| Luminex MAGPIX® | measures multiple analytes such as chemokines from mouse or human sample | Pinn 2011 (FCCF) |
|
| BD Influx cell sorter for BSL2 samples in custom Baker biosafety cabinet | 6 way sorting of BSL2 samples using 5 lasers, 15 colors | core | Pinn 2013 (FCCF) |
| FACSAria™ Fusion | sorting of BSL2 samples with 5 lasers, 15 colors, 4 way sorting | (FCCF) | |
| Fluidigm CyTOF 2 Helios | analysis of multiple parameters at single cell level | core | Pinn 2013 (FCCF) |
| AutoMACS Pro | Isolation of cell populations labelled with 50 nm superparamagnetic particles conjugated to antibodies to cell surface antigens | researcher | Pinn 2011 (FCCF) |
| Data analysis work station (5) | 4 Mac stations and 1 PC with FloJo and Modfit software | researcher | Pinn 2011 (FCCF) |
| Leica DM IRB inverted microscopes | core | MR5 G339 (GEMM) | |
| Leitz micromanipulators | core | MR5 G339 (GEMM) | |
| Sutter P-87 micropipette puller | core | MR5 G339 (GEMM) | |
| De Fonbrune microforge | core | MR5 G339 (GEMM) | |
| Bio-Cool BCIV40A Controlled-Rate Freezer | core | MR5 G339 (GEMM) | |
| XYClone laser system | core | MR5 G339 (GEMM) | |
| BTX ECM630 Electroporator | core | Pinn 2223 (GEMM) | |
| Eppendorf EP Gradient Mastercycler | core | Pinn 2223 (GEMM) | |
| UVIdoc LCD Gel Documentation System | core | Pinn 2223 (GEMM) | |
| Matrix Assisted Laser Desorption Ionization-Time Of Flight mass spectrometer (MALDI-TOF), Bruker Microflex | measure mass of intact molecules, normally peptides, protein, also small pieces of DNA, other molecules | core or researcher | Pinn 1105 (BAF) |
| Thermo Scientific Q Exactive HF-X | identification and sequencing of proteins; proteomics, analysis of other biomolecules | core | Pinn 1105 (BAF) |
| FEI Tecnai™ Spirit | transmission electron microscopy of negatively stained samples, cryo-electron microscopy | researcher | Life Sciences Annex, Snyder (MEMC) |
| FEI Tecnai™ F20 | cryo-electron microscopy (moderate resolution), high resolution negative stain electron microscopy | researcher | Life Sciences Annex, Snyder (MEMC) |
| FEI Titan Krios | high resolution cryo-electron microscopy | researcher | Life Sciences Annex, Snyder (MEMC) |
| FEI Vitrobot | sample vitrification for cryo-transmission electron microscopy | researcher | Life Sciences Annex, Snyder (MEMC) |
| 7 Tesla Bruker/Siemens ClinScan small animal MRI | MRI scans of small animals | core or research | MR4 1184 (MIC) |
| Caliper IVIS Spectrum bioluminescence and fluorescence scanner | fluorescence and luminescence scanner for tissue samplesfluorescence and luminescence scanner for tissue samples | core or research | Snyder (MIC) |
| Bruker Aibira Si trimodal PET/SPCET/CT scanner | scan small animals using positron emission, gamma emission and X-rays with sub-millimeter resolution | Snyder (MIC) | |
| Siemens Eclipse Cyclotron | production of isotopes for PET scanning | core and Siemens/PETNET | Snyder (MIC) |
| Radiochemistry modules | synthesis of radiolabels | core | |
| ultrasound scanner | ultrasound imaging | ||
| Tissue processors for formalin and Bouin’s fixed tissues | core | MR5 1035 (RHC) | |
| tissue embedding station | MR5 1035 (RHC) | ||
| microtomes | preparing thin sections for microscopy | core | MR5 1035 (RHC) |
| stainer, automated | staining of tissue sections | core | MR5 1035 (RHC) |
| cryostat | preparing frozen tissue sections for microscopy | core | MR5 1035 (RHC) |
| fluorescent plate reader | assays using fluorescent reagents in 6 to 384 well plates | researcher | Pinn 1074 (BAF) |
| circular dichroism spectropolarimeter, JASCO J-1500 | secondary structure of proteins, including melting studies | researcher | Pinn 1074 (BAF) |
| Dionex HPLC system for 0.3 to 4.6 mm diameter columns | analysis of small samples of peptides, proteins and other molecules | core | Pinn 1051 BAF) |
| Bio-Rad GS-800 densitometer | scanning X-ray type films, gels stained with visible stains like Coomassie and silver | researcher | Pinn 1074 (BAF) |
| ImageQuant Tl software | relative quantitation of bands on gels and film | researcher | Pinn 1074 (BAF) |
| Aperio ScanScope | brightfield scanning of microscopy slide to digital images at magnifications of 20X, 40X, 63X for digital pathology | core or researcher | Pinn 1074 (BAF) |
| fortéBIO Octet96 | molecular interactions using BioLayer Interferometry | researcher | Pinn 1074 (BAF) |
| Acea xCELLigence RTCA real time cell analysis instrument | real time, continuous measurement of cellular activity, including migration, based on impedance measurements | researcher | Pinn 1051 BAF) |
| Biotek ELx800 absorbance plate reader | absorbance measurements on microtiter plates at 450, 562, 600, 660 nm | researcher | Pinn 1074 (BAF) |
| Lonza 4D Nucleofector with X unit | transfection of mammalian cells | core or researcher | Pinn 1071 (SCC) |
| Inverted microscopes, Axio and Olympus | core or researcher | Pinn 2034 (TCF) | |
| Olympus IM microscope | core or researcher | Pinn 2034 (TCF) | |
| CO2 incubators | core or researcher | Pinn 2034 (TCF) | |
| Incubators | maintenance of insect cell lines | core | Pinn 2034 (TCF) |
| cold storage, -80°C, liquid nitrogen | cell storagec | core | Pinn 2034 (TCF) |
| Biosafety cabinets (3) | cell culture | Pinn 2034 (TCF) |
Core abbreviations: AMF, Advanced Microscopy Facility; BAF, Biomolecular Analysis Facility; BioNMR, Biomolecular Magnetic Resonance Facility; BTRF, Biorepository and Tissue Research Facility; GATC, Genome Analysis and Technology Core; EPCL, Exercise Physiology Core Laboratory; FCCF, Flow Cytometry Core Facility; GEMM, Genetically Engineered Murine Model Core; MEMC, Molecular Electron Microscopy Core; MIC, Molecular Imaging Core; RHC, Research Histology Core; TCF, SCC, Stem Cell Core; Tissue Culture Facility.*Location information is building name and room number. MSB, Medical School Building. Pinn Hall was formerly called Jordan Hall