Project description: Whole Brain Layer-fMRI Connectome: An Open Dataset
Content
Summary: Available Tasks: Available Modalities:
217 Files test MRI
3 - Subjects movie
13 - Sessions tapping
Overview
Here, we provide a whole-brain layer-dependent connectome dataset with cerebral
blood volume and BOLD contrast. It is coming along with a quality assessment
comprising metrics of skew, kurtosis, tSNR and sharpness. The purpose of this
dataset is 1.) to characterize the prospects and challenges of whole brain
layer-fMRI acquisition sequences in a test-retest setting 2.) and to provide a
test bed for developing and benchmarking new layer-dependent analysis tools that
may be able to address novel neuroscientific research questions. Note that these
data have been acquired with a CBV-sensitive VASO sequence, thus the datatype is
rather unconventional compared to standard fMRI datasets. TRs as well as
resolution is variable across time and contrasts within one run. Please notice,
this is an initial release of an ongoing study. We are happy to share the data
via SIEMENS C2P.
Data Acquisition
Scanning was performed at Scannexus as part of the Maastricht Brain Imaging
Centre (MBIC) embedded in theMaastricht University, Maastricht, The Netherlands.
VASO and BOLD contrasts of the whole brain were obtained from one participant at
a SIEMENS MAGNETOM 7T scanner at 6 days during watching the Human Connectome
Project (HCP) audio movie. The link to the psychopy stimulation script is: Link
to the movie: https://github.com/layerfMRI/Phychopy_git/tree/master/movie). The
link to the movie file is here: https://youtu.be/qndD3ErUaEE For information
about detailed scanning parameters see:
https://github.com/layerfMRI/Sequence_Github/blob/master/Whole_brain_layers/Ann_WB_VASO_fMRI.pdf.
There is no data available for day 3 due to technical issues at scanning (PCI_RX
receiver error). At day 6, respiration and pulse were recorded to provide the
required physiological measures for further analysis. Link to physiological
recording on Github:
https://github.com/layerfMRI/Phychopy_git/tree/master/movie/physio_log/physio_ses-06
Data processing
Defacing was performed with freeSurfer. Motion correction (MOCO), BOLD
correction (BOCO), and segmentation of grey + white matter were performed. The
additional folder "derivatives" contains the processed data in steps: MOCO,
BOCO, and segmentation of grey + white matter. For detailed information see:
https://github.com/layerfMRI/repository/tree/master/stand_alone_VASO_NEURODEBIAN
(MOCO), https://doi.org/10.1002/mrm.24916 (BOCO), and
https://github.com/kenshukoiso/Whole_Brain_Project (preprocessing pipeline and
script)
Presenting on ISMRM 2022
You can find our abstract draft here: https://layerfmri.page.link/ISMRM2022_WB.
The main participant of this abstract is subject 02 on this open dataset.
