CIVM
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CIVM WIKI
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Journal club
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Room 162
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Duke Center for In Vivo Microscopy (CIVM) is an NIH/NIBIB National Biomedical Technology Resource Center. We develop novel methods for preclinical imaging and apply those methods to important biomedical problems.

Our comprehensive small animal imaging program includes MRI, CT, x-ray, ultrasound, confocal, optical, and SPECT, all at the highest possible spatial resolution. Click here for how to set up a Collaboration or Service project, and see information below for a way to access some of our data.

nibib logo
virtual mouse Virtual Mouse Brain application for iPad developed by CIVM. Download to your iPad from the App Store for $4.99.
  • Test your skills reading MR images with this high-resolution, interactive atlas of the mouse brain
  • Learn mouse neuroanatomy with 3D and 2D views with 35+ anatomical structures that can be highlighted
  • Swipe through MRI slices on all three planes

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. SHARED DATA: Many of our publications include supplements as a way to share our data with other researchers. Just a few are listed below.

  MR Brain Data and Atlases

  • Waxholm Space (C57BL/6 mouse brain, 3 MR contrasts), supplement to Neuroimage 53: 365-372, 2010
  • Mouse brain segmentation pipeline (actively stained C57BL/6), supplement to NeuroImage 63:1633-1645, 2012
  • Adult Wistar rat atlas, supplement to NeuroImage 62: 1848-1856, 2012
  • Developing rat brain (regional changes in volume, postnatal days zero-80), supplement to NeuroImage 67:375-384, 2013
  • Developing rat brain (5 rats, 9 time points, 8 MR contrasts, 26 developmental brain regions), supplement to Neuroimage 71C:196-206, 2013

  CT Data

  • Mouse micro-CT pipeline (for registration-based segmentation / analysis of 4D cardiac data), supplement to Phys Med Biol 57:6125-6145, 2012
  • Mouse tumor model (filtered datasets of tumor vasculature using iodine and gold nanoparticles), supplement to Phys Med Biol 58:1683-1704, 2013

  Building small animal imaging equipment

  • Animal handling devices using computer-aided design and solid freeform fabrication, supplement to J Magn Reson Imag 30:466-471, 2009
  • Schematics / parts to build a constant-volume ventilator and gas recapture system for mouse/rat lung imaging, supplement to Concepts in Magn Reson Part B: Magn Reson Eng, 39B: 78-88, 2011

 

CIVM continues to expand our range of technical capabilities and applications, such as these examples:

Dynamic 4D CT perfusion
Tractography from
40-day-old rat
3Helium mouse lung
3D isotropic acquisition at 156-micron resolution
>

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. SELECTED PUBLICATIONS

CT

DP Clark, K Ghaghada, EJ Moding, DG Kirsch, CT Badea, In vivo characterization of tumor vasculature using iodine and gold nanoparticles and dual energy micro-CT, Phys Med Biol 58:1683-1704, 2013. NIHMSID#449989 Supplement medicalphysicsweb - featuring this manuscript

EJ Moding, DP Clark, Y Qi, Y Li, YMa, K Ghaghada, GA Johnson, DG Kirsch, CT Badea, Dual energy micro-CT imaging of radiation-induced vascular changes in primary mouse sarcomas, Intl J Rad Oncol Biol Phys 85(5):1353-9, 2013 Apr 1. PMC in process Abstract

MR - BRAIN STUDIES and ATLASES

C Liu, W Li, Imaging neural architecture of the brain based on its multipole magnetic response. NeuroImage 67:193-202, 2013. PMC in process, ScienceDirect


CIVM figures selected for cover art
GA Johnson, E Calabrese, A Badea, G Paxinos, C Watson, A multidimensional magnetic resonance histology atlas of the Wistar rat brain, NeuroImage 62(3): 1848-1856, 2012. Supplement PMCID: PMC3408821





 

MR - OTHER STUDIES

E Subashi, G Cofer, JS MacFall, Y Qi, GA Johnson, A comparison of keyhole strategies for high spatial and temporal resolution 4D contrast-enhanced MRI in small animal tumor models, Medical Physics 40(2): 022304, 2013. PMCID: PMC3562278 Abstract

MR - PULMONARY HYPERPOLARIZED GAS STUDIES

ZI Cleveland, HE Moller, LW Hedlund, JC Nouls, MS Freeman, et al. In vivo MR imaging of pulmonary perfusion and gas exchange in rats via continuous extracorporeal infusion of hyperpolarized 129Xe. PLoS ONE 7(2): e31306, 2012. PMCID: PMC3283644

Y Feng, RM Davis, WS Warren. Accessing long-lived nuclear singlet states between chemically equivalent spins without breaking symmetry, Nature Physics 8: 831-837, 2012. PMCID: PMC3596050

OPTICAL

JW Wilson, S Degan, WS Warren, MC Fischer. Optical clearing of archive-compatible paraffin embedded tissue for multiphoton microscopy. Biomed Opt Express Nov 1;3(11):2752-60. 2012. PMCID: PMC3493235

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