Shared Equipment & Software

Please see the core facilities page for information about the Genomics & Bioinformatics Core, the Center for Computational Research (CCR), the Multidisciplinary Cleanroom, and the Proteomics & Bioanalysis Core.

• CFX Realtime PCR Machine (Biorad) – 96 well module with interchangeable 384 well module: reserve time on sharepoint
• QX100 Droplet Digital PCR machine (Biorad) – for detection of low copy numbers, rare events, CNV. Higher sensitivitythan real-time PCR: training provided, $400 annual fee: reserve time on sharepoint

• Nanodrop 2000C (Thermo) – for nucleic acid and protein quantitation: sign logbook
• Agilent Bioanalyzer (offered by NGS core as service) –Contact Sujith Valiyaparambil; alphy@buffalo.edu
• Speedvac and Centrivap evaporator – Savant; Labconco – for concentrating dilute stocks of DNA.
• UV stratalinker - for cross linking nucleic acids

• Chemidoc Imager (Biorad) – Imaging platform for DNA/RNA gels and western blots. Automated image capture. Quantitative: sign logbook
• PMI Phosphorimager (Biorad): reserve on sharepoint

• Leica EG1150H Paraffin Embedding Station: reserve on sharepoint 
• Leica RM2245 - Semi-automated Rotary Microtome for paraffin block sectioning: reserve on sharepoint 
• Leica CM1850 Cryostat for frozen sectioning: reserve on sharepoint

• Nikon 80i Fluorescence Microscope with camera (includes Image pro analysis software): reserve on sharepoint
• Leica Confocal SP2 Microscope – Contact Dr. Halfon (mshalfon@buffalo.edu)

• Jasco J815 Circular dichroism Spectropolarimeter – Contact Dr. Balu Iyer for training and usage (svb@buffalo.edu), charges apply: reserve on sharepoint
• Biacore T100 label free protein analysis system for drug-protein/protein-protein interactions - Contact Dr. Balthasar for information (jb@buffalo.edu)
• Agilent HPLC with Fluorescence and Diode Array Detector - Contact Dr. Balthasar for information (jb@buffalo.edu)

• TRI-CARB 2800 TR Liquid Scintillation Analyzer: sign logbook
• TopCount Scintillation counter, 6-Detector, Variplate - Perkin Elmer- Performs solid scintillation, liquid scintillation, filter counting, Cerenkov counting, SPA®, and scintillating microplate counting – Off campus, contact Dr. Straubinger (rms@buffalo.edu)

• Beckman Coulter Avanti J25I High performance centrifuge: sign logbook 
• Beckman Coulter J26XPI High Performance centrifuge: sign logbook
• Beckman Coulter Optima 100k Ultra centrifuge: sign logbook
• Beckman Coulter Optima Max Ultra centrifuge: sign logbook
• Beckman Coulter Allegra 22R refrigerated bench top centrifuge with SX4250 bucket rotor: sign logbook
• Type 70.1 Ti Rotor, Fixed Angle, Titanium, 12 x 13.5 mL, 70,000 rpm, 450,000 x gcompatible with Optima L100K: sign logbook 
• JA-20.1 Rotor, Fixed Angle, Aluminum, Biosafety Lid, 32 x 15 mL, 20,000 rpm, 51,500 x gcompatible with Avanti J25I, J26XPI: sign logbook
• JA-25.50 Rotor, Fixed Angle, Aluminum, Biosafety Lid, 8 x 50 mL, 25,000 rpm, 75,600 x g: sign logbook 
• JLA-10.500 Rotor, Fixed Angle, Aluminum, 6 x 500 mL, 10,000 rpm, 18,600 x g¬ JLA-16.250 Rotor, Fixed Angle, Aluminum, Biosafety Lid, 6 x 250 mL, 16,000 rpm, 38,400 x g: sign logbook 
• JS-13.1 Rotor with Carrying Handle, Swinging-Bucket, Aluminum, 6 x 50 mL, 13,000 rpm, 26,500 x g: sign logbook
• TLA-110 Rotor, Fixed Angle, Titanium, 8 x 5.1 mL, 110,000 rpm, 657,000 x gcompatible with Optima Max Ultra centrifuge: sign logbook 

• Biotek Synergy Microplate Reader: reserve on sharepoint

• Shaker incubators (with and without refrigeration)
• Economy Incubator for bacterial culture plates
• Qiagen G2505B Tissue lyser - simultaneously disrupts up to 48 biological samples through high- speed shaking in plastic tubes with stainless steel, tungsten carbide, or glass beads

Contact Dr. Nowak, njnowak@buffalo.edu or cbi-ubnextgencore@buffalo.edu

Visit link for pricing and description of capabilities http://ubnextgencore.buffalo.edu/pricing-information/

Illumina Hi-seq 2500 for massively parallel sequencing of whole genome, exome, transcriptome, Chip-seq

Affymetrix GeneChip System for gene expression analysis

Agilent Microarray Scanner G2505C for SNP’s, expression analysis

Epigenetic Platform- SX-8G IP Star Compact from Diagenode – Can automatically process 8 samples at a time for ChIPapplications

Contact Dr. Jun Qu- junqu@buffalo.edu or Smitha James at srjames@buffalo.edu

The  following  link  provides  detailed  list  of  various  chromatography  systems  and  assays  the  core provides: http://www.acsu.buffalo.edu/~junqu/Resources.html

• Ingenuity Pathway Analysis software – Pathway analysis/modeling, Gene list comparison, Data curation and annotation,custom proprietary pathway maps
• Image Pro Analyzer - for quantitation of microscopy images.
• Go to the following link for details on hardware, data storage and bioinformatics capabilities at UB’s center forcomputational research (CCR): buffalo.edu/ccr