Removing unwanted venous signal from GE-BOLD maps: Overview of vein removal models and implementations in LAYNII

Did you acquire a layer-fMRI study without VASO? Did you even acquire your data with GE-BOLD EPI? Don’t you know that this contrast is dominated by unwanted signals from locally unspecific large draining veins?

That’s ok. Don’t be down in the mouth. Nobody is perfect. It happens to the best of us ūüėČ Luckily, there are several models out there that should help you to tease out the tiny microvascular GE-BOLD signal that you care about and help you to remove the dominating macro-vascular venous signal. However, note that some of these vein-removal models work better than others. None of the models is perfect! But some of them are useful. The most relevant approaches are implemented in the LAYNII software suit on a voxel-wise level.

In this blog post, I want to describe these de-veining models and how to use them to get rid of unwanted macrovascular venous signals in LAYNII.

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Layer-fMRI VASO worldwide

This blog post gives an overview of the scientific network of researchers that are using the VASO (vascular space occupancy) for applications in layer-fMRI. I tried to give an overview of all layer-fMRI VASO papers published so far and provide a map of all layer-fMRI VASO labs around the globe. Continue reading “Layer-fMRI VASO worldwide”

Layer-fMRI Jobs

Tweet intro
Don’t we all feel like Daniel in his Tweet? Below you find more temporary trainee positions. If you are good and among the best in your field you might even be lucky enough to get one of those.

This page lists all open layer-fMRI job opportunities.

Suggestions are welcome to layerfMRI@gmail.com.

This page is created with respect to efforts of the layer-fMRI network meeting in 2019 in Minnesota.

 

layer-fMRI abstracts

The following is a personal selection of my must-see layer-fMRI abstracts presented at SFN/OHBM/ISMRM. If I missed something, please let us know (layerfMRI@gmail.com).

 

SFN 2019 in Chicago

Saturday

  • 4:00 pm – 5:00 pm, 092.12/ BB63. Poster, O. STANLEY,¬†Phase-based macrovascular filtering from gradient echo bold fMRI reduces orientation dependence.

Sunday

  • 8:00 am – 8:15 am, 111.01/Room S402. Nanosymposium talk, J. TOWNSEND:¬†Non-invasive mapping of acoustic-phonetic speech features in human superior temporal gyrus using ultra-high field 7T fMRI.
  • 11:00 am – 12:00 am, 141.04/K28.¬†Poster, T. LIU:¬†Affective processing of face stimuli in human primary visual cortex.

Continue reading “layer-fMRI abstracts”

MP2RAGE: challenges and artifacts of its use for layer-fMRI

The MP2RAGE sequence is very popular for 7T anatomical imaging and is very commonly used to acquire 0.7-1 mm resolution whole brain anatomical reference data. Aside of this common application, it can also be very helpful for layer-fMRI studies to obtain even higher resolution T1 maps in the range of 0.5mm iso. However, when optimizing MP2RAGE sequence parameters for layer-fMRI studies, there are a few things that might be helpful to keep in mind.

In this post, I would like to discuss the challenges of using the popular MP2RAGE sequence in layer-fMRI studies. Specifically I will discuss challenges/features regarding:

Continue reading “MP2RAGE: challenges and artifacts of its use for layer-fMRI”