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Facilities & Equipment

Medical Physiology Facilities

Core facilities supported by the department and institution play a key role in our ability to probe the mechanisms underlying cardiovascular and lymphatic function and pathophysiology. The department supports three major core labs:

  • Computational Biology and Bioinformatics Lab (CBBL)
  • Induced Pluripotent Stem Cell Lab (iPSCL)
  • Integrated Microscopy and Imaging Lab (IMIL)

Major equipment for modern research includes:

  • Small animal imaging instruments including echo, CT and fluorescence
  • Cell sorters and flow cytometers
  • Mass spectrometers
  • Microarray detection and analysis systems

Computational Biology and Bioinformatics Lab (CBBL)

The Computational Biology and Bioinformatics Laboratory (CBBL) is housed in the new IMIL facilities at the Medical Research Building in Temple. The physical resource available at this location is a 112-core Nehalem Processor Mac cluster with approximately 12 TB of storage space. Nodes in this cluster are physically linked by high-speed ethernet, and Sun Grid Engine is used as the job queueing system. The EMBOSS suite of bioinformatics tools are installed on the cluster, and are available through a web interface provided by BioTeam's iNquiry software. However, appropriate and effective use of this resource requires a high level of comfort with command line applications and some familiarity with clustered computing environments. Access to this resource can be arranged by contacting Dr. Vincent VanBuren. VanBuren serves as the director of the CBBL and conducts independent research in the field of computational systems biology.

Current projects running in the CBBL:

  1. Bayesian Network Inference from Microarray Data.

    Dr. Vincent VanBuren is leveraging selected microarray data in an effort to infer causal regulatory networks from expression data on a large scale.
    Software: MySQL, BNFinder, and custom-built software.

  2. Identifying Ontology Enrichment Parameters by Empirical Samplin

    Gene Ontology enrichment tests are applied to provide provisional annotation to groups of genes identified in some high-throughput experiment, or to a list of genes constructed by some arbitrary method. However, corrections for multiple testing complicates this type of analysis. VanBuren is developing a method that uses empirical sampling to collapse multiple tests into a single statistical test, thus eliminating the need for a test correction.
    Software: MySQL and custom-built software.

Induced Pluripotent Stem Cell Lab (iPSCL)

The induced pluripotent stem cell (iPSC) core consists of a 300 nsf room and a suite of equipment that are designed for working with iPSCs.

Key equipment includes:

  • 2 biosafety hazard cabinets with direct outside venting
  • Lonza 4D Nucleofactor electroporation set
  • 2 variable oxygen content controlled incubators with automatic backup to maintain proper oxygen/CO2 content if primary tank runs empty
  • inverted Olympus IX51 microscope with cooled CCD camera to document iPSC progression
  • refrigerated centrifuge
  • dedicated 230°C oven
  • liquid nitrogen storage tank

This core facility is available to all interested investigators. However, each investigator must supply his/her reagents and work staff. Contact Dr. Carl Tong for the use of iPSC core.

Integrated Microscopy and Imaging Laboratory (IMIL)

Learn more about this facility