Renzos Power-Point Slide Repository

Huber, L. May 31st, High-resolution CBV-fMRI allows mapping of laminar activity and connectivity of cortical input and output, BrainInDepth Conference Magdeburg. Slides.

Huber, L. May 28th, Revealing directional neural connectivity across cortical layers with 3D-EPI-VASO. Seminar of Biomedical Engineering, Zürich. Slides.

Huber, L., Tse, D.H.Y., Sriranga, K., Wiggins, C., Uludag, K., and Bandettini, P.A., Poser, B.A., Ivanov, D. (2017). Ultra-high resolution blood volume fMRI and BOLD fMRI in humans at 9.4 T: Capabilities and Challenges. In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 154. doi: 10.7490/f1000research.1114442.1. Slides, Video.

Huber, L., Handwerker, D.A., Hall, A., Jangraw, D.C., Gonzalez-castillo, J., Guidi, M., Ivanov, D., Poser, B.A., and Bandettini, P.A. (2017). Cortical depth-dependent fMRI: heterogeneity across tasks, across participants, across days and along the cortical ribbon. In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 237. doi: 10.7490/f1000research.1114368.1. Slides.

Huber, L., Jangraw, D., Marrett, S., and Bandettini, P.A. (2017). Simple approach to improve time series fMRI stability: STAbility-weighted Rf-coil Combination (STARC). In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 586, doi: 10.7490/f1000research.1114430.1. Slides, Video.

Huber, L., Handwerker, D.A., Gonzalez-Castillo, J., Jangraw, D., Ivanov, D., Poser, B.A., Goense, J.B.M., and Bandettini, P.A. (2016). Effective Connectivity Measured with Layer-Dependent Resting-State Blood Volume fMRI in Humans. In Human Brain Mapping, p. 1343. doi: 10.7490/f1000research.1115073.1. Slides.

Huber, L., Marrett, S., Handwerker, D.A., Thomas, A., Gutierrez, B., Ivanov, D., Poser, B.A., and Bandettini, P.A. (2016). Fast dynamic measurement of functional T1 and grey matter thickness changes during brain activation at 7T. In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 633, doi: 10.7490/f1000research.1114359.1. Slides.

Huber, L., Ivanov, D., Marrett, S., Panwar, P., Uludag, K., Bandettini, P.A., and Poser, B.A. (2016). Blood volume fMRI with 3D-EPI-VASO: any benefits over SMS-VASO? In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 944. doi: 10.7490/f1000research.1115074.1. Slides.

Huber, L., Handwerker, D.A., Gonzalez-Castillo, J., Jangraw, D., Guidi, M., Ivanov, D., Poser, B.A., Goense, J., and Bandettini, P.A. (2016). Effective connectivity measured with layer-dependent resting-state blood volume fMRI in humans. In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 948. doi: 10.7490/f1000research.1114437.1. Slides.

Huber, L., Ivanov, D., Guidi, M., Turner, R., Uludag, K., Möller, H.E., and Poser, B.A. (2015). Simultaneous multi-slice functional CBV measurements at 7T. In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 600. doi:10.7490/f1000research.1115075.1. Slides.

Huber, L., Goense, J.B.M., Kennerley, A.J., Trampel, R., Guidi, M., Gauthier, C.J., Turner, R., and Möller, H.E. (2014). Layer-dependent CBV and BOLD responses in humans, monkeys, and rats at 7T. In ISMRM Brain Function Workshop in Charleston, p. S2. doi: 10.7490/f1000research.1115076.1. Slides.

Huber, L., Ivanov, D., Guidi, M., Turner, R., Uludag, K., Möller, H.E., and Poser, B.A. (2015). Application of simultaneous multi-slice imaging in high- resolution blood volume fMRI. In ISMRM Workshop on Simultaneous-Multi- Slice Imaging, p. 1. doi: 10.7490/f1000research.1115077.1. Slides.

Huber, L., Kennerley, A.J., Gauthier, C.J., Krieger, S.N., Maria Guidi, D.I., Turner, R., and Möller, H.E. (2014). Cerebral blood volume redistribution during hypercapnia. In Imaging Cerebral Physiology: Manipulating Magnetic Resonance Contrast through Respiratory Challenges, p. O4. doi: 10.7490/f1000research.1115081.1. Slides.

Huber, L., Kennerley, A.J., Ivanov, D., Gauthier, C.J., Möller, H.E., and Turner, R. (2014). Measuring changes in arterial and venous cerebral blood volume in human brain at 7T. In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 1015. doi: 10.7490/f1000research.1115078.1. Slides.

Huber, L., Goense, J.B.M., Ivanov, D., Krieger, S.N., Turner, R., and Möller, H.E. (2013). Cerebral blood volume changes in negative BOLD regions during visual stimulation in humans at 7T. In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 847. doi: 10.7490/f1000research.1115079.1. Slides.

Huber, L., Ivanov, D., Roggenhofer, E., Henseler, I., Möller, H.E., and Turner, R. (2012). Hypercapnia-induced and stimulus-induced changes in cerebral blood volume in humans at 7T. In ISMRM Brain Function Workshop in Whistler, p 13. doi: 10.7490/f1000research.1115082.1. Slides.

Huber, L., Ivanov, D., Streicher, M.N., and Turner, R. (2012). Slab- selective, BOLD-corrected VASO (SS-VASO) in human brain at 7T. In Proceedings of the International Society of Magnetic Resonance in Medicine, p. 381. doi: 10.7490/f1000research.1115080.1. Slides

Documentation of Installing an IDEA VirtualBox for VE11 from OVA

This post documents the installation of an IDEA VE11 virtual box on a mac as done on May 14th 2018

Big thanks to Andy for figuring out how this works

Prerequisites

  • Here I start with a already built images of IDEA on windows vista and mars on Ubuntu. the images from FMRIF can be taken from erbium.nimh.nih.gov:/fmrif/projects/SiemensIdea/virtual_machines/OVF/): IDEA_ve11c-mars.ova and IDEA_ve11c+vd13d+vd13a.ova
  • Virtual box software can be downloaded here.

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EPI phase correction algorithms

At high resolution EPI, the gradients are pushed to their limits and the ramp sampling ratio is particularly large. This means that the ghosting is increased and the Nyquist ghost correction is getting more important. In this post, I describe how to change the Nyquist ghost correction algorithm.

Phase_correction.gif
The high ramp sampling ratio in high-resolution EPI results in larger ghosts. Changing the correction algorithm from “normal” to “local” can help a lot.

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SS-SI VASO pitfalls in visual cortex

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Activation maps for BOLD and VASO. At about 0.8 mm resolution, one starts to see that VASO is less sensitive to large draining veins.

With respect to high-resolution VASO application, visual cortex is very unique. Because of its high demand, the most important pitfalls of SS-SI VASO in visual cortex are discussed below.

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Unwanted spatial blurring during resampling

In layer-fMRI, we spend so much time and effort to achieve high spatial resolutions and small voxel sizes during the acquisition. However, during the evaluation pipeline much of this spatial resolution can be lost during multiple resampling steps.

In this post, I want to discuss sources of signal blurring during spatial resampling steps and potential strategies to account for them.

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Partial-Fourier imaging at High Resolutions

This blog post discusses the resolution loss when applying partial-Fourier imaging in GE-EPI in the presence of strong T2*-decay.

I found that that when I was aiming for high-resolutions, it is beneficial to refrain from the application of partial Fourier (PF) imaging as much as possible. For the long readout durations at high-resolutions and the fast T2/T2*-decay at high field strengths results in even stronger blurring of partial-Fourier.

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