Preclinical Imaging

  • Ultra high 15.2 T Bruker MR Imaging.
  • Ultra high 15.2 T Bruker MR Imaging.
  • Ultra high 15.2 T Bruker MR Imaging.

The Preclinical Imaging Facility (pcIMAG) provides comprehensive multimodal MR imaging. The main focus of the facility is in-vivo mouse imaging, while we welcome other smaller model organisms as well. Special emphasized is placed on state-of-the art data acquisition and processing.

Services

    MR imaging data acquisition

    MR imaging data acquisition

    We offer a comprehensive list of services with focused application in neuroscience, cardiac imaging, anatomical characterization of organ systems and quantitative measurement of perfusion/MTT/Blood volume. Among the specific applications we offer cell labeling and tracking and axonal tract tracing using manganese (Mn2+) MRI.

    MR spectroscopy

    MR spectroscopy

    State of the art spectroscopy data acquisition brought to you by the highly optimized shim procedures developed by Bruker Biospin (Ettlingen, Germany). We are routinely performing spectroscopy of the brain, liver and in different tumor models.

    1H and 19F probes available.

    Quantitative image analysis

    Quantitative image analysis

    Sophisticated data processing and visualization is done using Amira, ImageJ/FIJI and matlab. For more specific application in neuro-imaging we are using highly rated LONI pipeline (pipeline.loni.usc.edu)

    Resources

    BioSpec 152/11

    Superconducting MagnetSystem

    • Field strength: 15.2 T
    • Diameter of clear bore: 110 mm
    • Stray-field (5 Gauss): +/- 2.3 m axial, +/- 2.5 m radial
    • Length: 1.591 m
    • Diameter: 1.362 m

    Gradient system B-GA 6S-100 with RT-shim and related power supplies

    • Actively shielded gradients
    • Integrated 2nd to 3rd shim set
    • Outer / inner diameter: 102 mm / 60 mm
    • Gradient amplitude: 750 mT/m
    • Slew rate: 9000 T/m/s
    • Water cooled

    RF coils

    1H Volume resonator T20054V3

    • Inner diameter 35mm
    • Maximum RF peak power 200 W @ 5ms
    • Continuous wave power 2W
    • Purpose : small animals body scans

    1H Volume resonator T20101V3

    • Inner diameter 23mm
    • Maximum RF peak power 200 W @ 5ms
    • Continuous wave power 1W
    • Purpose : small animals head scans

    1H/19F Volume resonator T20104V3

    • Inner diameter 35mm
    • Maximum RF peak power 200 W @ 5ms
    • Continuous wave power 2W
    • Purpose : small animals body scans on fluorine and proton frequency

    1H surface 4 segments array coil T20102V3

    • Inner diameter 32mm
    • Maximum RF peak power 250 W @ 5ms
    • Continuous wave power 2W
    • Purpose : small animals body scans

    Computer Hardware

    Z420 Hewlett-Packard Workstation equipped with :

    • Hardware: Intel(R) Xeon(R) CPU E5-1620 0 @ 3.6GHz, 4 Core(s), 32 GB Physical memory (RAM), 1 TB disk space
    • Software: operating system Linux Centos 5.9, ParaVision 6.0 software for control of MRI scanner, data acquisition and basic postprocessing

    2 x Z420 Hewlett-Packard Workstation equipped with :

    • Hardware: Intel(R) Xeon(R) CPU E5-1607 0 @ 3.00GHz, 4 Core(s),, 32 GB Physical memory (RAM), 2 TB disk space
    • Software: operating system Microsoft Windows 7 Professional, Amira - an extendable software system for scientific visualization, data analysis, and presentation of 3D and 4D data.

    Network-attached storage (NAS) server Thecus N10850

    • Intel® Xeon® E3-1225 3.1GHz Processor, 4 GB RAM, actual storage capacity 15 TB

    Featured Software : Paravision 6.0

    ParaVision® 6.0 is a new standard in preclinical MRI software that delivers unsurpassed image quality and enhanced productivity for both routine users and experts.

    Highlights:

    • New and accelerated, intuitive workflow
    • Ready-to-use protocols and scan programs
    • Active method conflict handling
    • Automatic hardware recognition
    • Real-time optimization during scanning
    • On-the-fly RF-pulse calculation
    • In-line navigator-based image reconstruction
    • Fast 64 bit multi core image reconstruction for high resolution 3D imaging
    • Fully searchable data base, network data management
    • Remote scan planning and scheduling
    • Multi-modality scan planning
    • Arbitrary cuboid or ellipsoid shim volumes

    Technical features:

    • 3D Visualization and Analysis
    • Multimodal Data Import
    • Parallel Imaging and Reconstruction
    • Parallel Transmit
    • Project Planning
    • Method Development Framework

    On-site animal housing

    Preclinical Imaging facility is located on the ground floor of IMBA building (Vienna Biocenter), covering area of 82 sqm. Facility features 15.2 T Bruker Biospec and on-site animal housing facility with the capacity of 48 cages.

    User Information

    Policy

    We welcome new projects. Investigators are invited to visit pcIMAG laboratory to learn more about our services. For more information or to schedule a visit to our facility please contact Jelena Zinnanti.

    Cooperation Partners

    Publications

    Mutations in the murine homologue of TUBB5 cause microcephaly by perturbing cell cycle progression and inducing p53-associated apoptosis.
    Martin Breuss, Tanja Fritz, Thomas Gstrein, Kelvin Chan, Lyubov Ushakova, Nuo Yu, Frederick W. Vonberg, Barbara Werner, Ulrich Elling, David A. Keays
    Development 2016 143: 1126-1133; doi: 10.1242/dev.131516 
    (abstract)

    Quantification of plaque lipids in the aortic root of ApoE-deficient mice by 3D DIXON magnetic resonance imaging in an ex vivo model.
    Dietel B, Budinsky L, Kuehn C, Uder M, Achenbach S, Hess A.
    [Epub ahead of print] DOI 10.1007/s00330-014-3456-7 (abstract)

    Human CLP1 mutations alter tRNA biogenesis, affecting both peripheral and central nervous system function.
    Karaca E, Weitzer S, Pehlivan D, Shiraishi H, Gogakos T, Hanada T, Jhangiani SN, Wiszniewski W, Withers M, Campbell IM, Erdin S, Isikay S, Franco LM, Gonzaga-Jauregui C, Gambin T, Gelowani V, Hunter JV, Yesil G, Koparir E, Yilmaz S, Brown M, Briskin D, Hafner M, Morozov P, Farazi TA, Bernreuther C, Glatzel M, Trattnig S, Friske J, Kronnerwetter C, Bainbridge MN, Gezdirici A, Seven M, Muzny DM, Boerwinkle E, Ozen M; Baylor Hopkins Center for Mendelian Genomics, Clausen T, Tuschl T, Yuksel A, Hess A, Gibbs RA, Martinez J, Penninger JM, Lupski JR.
    Karaca, Ender et al. Cell , Volume 157 , Issue 3 , 636 - 650 (abstract)

    Team

    Jelena Zinnanti

    Jelena Zinnanti

    Core Facility Head
    VBC 2 / PG 3

    Cornelia Granl

    Cornelia Granl

    Trainee
    IMBA-GMI / 4.11

    Raphaela Hoefl

    Raphaela Hoefl

    Trainee
    IMBA-GMI / 4.11

    Jennifer Pizarro Pesado

    Jennifer Pizarro Pesado

    Imaging Research Technician
    IMBA-GMI / 4.11

    Lydia Zopf

    Lydia Zopf

    MRI Technologist
    IMBA-GMI / 4.11

    Contact