Sub-millimeter bSSFP BOLD-fMRI accelerated with 3D stack-of-spirals at 9.4 T
2023-09-18

&amp;lt;p&amp;gt;This work aims to improve the speed of balanced steady-state free precession (bSSFP) acquisition with segmented 3D stack-of-spirals for functional brain studies at 9.4 T (see protocols.zip). Functional experiments were performed with full-field flickering checkerboard pattern (see radial_checkerboard.zip). &amp;nbsp;The resulting data were reconstructed using an iterative algorithm with corrections for system imperfections such as trajectory deviations and B0 inhomogeneity using&amp;lt;a href="https://github.com/praveenivp/SpiralReco.git"&amp;gt; SpiralReco package&amp;lt;/a&amp;gt;. In the first set of experiments, we evaluated the signal change and stability with respect to echo and repetition time for a full field checkerboard stimulus. To demonstrate the high spatio-temporal resolution of the developed method, the results of three optimized protocols at submillimeter resolution (0.6 mm &amp;amp; 0.8 mm) and at 1.2 mm isotropic resolution for whole brain coverage were performed.&amp;nbsp;&amp;lt;/p&amp;gt;&amp;lt;h3&amp;gt;Data organization&amp;lt;/h3&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;TR/TE scans and high resolution scans: &amp;lt;/strong&amp;gt;Sub-01[-06].tar.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;.&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;├── &amp;lt;strong&amp;gt;anat &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp; &amp;nbsp;&amp;lt;/strong&amp;gt; &amp;nbsp;│ &amp;nbsp; ├── GRE_TE16.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;│ &amp;nbsp; └── T1w.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;└── func&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;&amp;nbsp; &amp;nbsp;├── glm&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;&amp;nbsp; &amp;nbsp;│ &amp;nbsp; ├── smooth_0p6_moco_M397_peSpiral_R4_p6_run1_B0MTI_DCFJackson.feat&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;&amp;nbsp; &amp;nbsp;│ &amp;nbsp; ├── smooth_0p8_moco_M414_peSpiral_R4_p8_run1_B0MTI_DCFJackson.feat&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;&amp;nbsp; &amp;nbsp;│ &amp;nbsp; ├── smooth_1p0_moco_M418_peSpiral_R4_TE2_TR10_vTR3_B0MTI_DCFJackson.feat&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;&amp;nbsp; &amp;nbsp;│ &amp;nbsp; ├── smooth_1p0_moco_M420_peSpiral_R4_TE4_TR10_vTR3_B0MTI_DCFJackson.feat&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;&amp;nbsp; &amp;nbsp;│ &amp;nbsp; ├── smooth_1p0_moco_M425_peSpiral_R4_TE6_TR10_vTR3_B0MTI_DCFJackson.feat&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;&amp;nbsp; &amp;nbsp;│ &amp;nbsp; ├── smooth_1p0_moco_M428_peSpiral_R4_TE2_TR6_vTR3_B0MTI_DCFJackson.feat&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;&amp;nbsp; &amp;nbsp;│ &amp;nbsp; └── smooth_1p0_moco_M433_peSpiral_R4_TE2_TR8_vTR3_B0MTI_DCFJackson.feat&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;├── M397_peSpiral_R4_p6_run1_B0MTI_DCFJackson.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;├── M414_peSpiral_R4_p8_run1_B0MTI_DCFJackson.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;├── M418_peSpiral_R4_TE2_TR10_vTR3_B0MTI_DCFJackson.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;├── M420_peSpiral_R4_TE4_TR10_vTR3_B0MTI_DCFJackson.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;├── M425_peSpiral_R4_TE6_TR10_vTR3_B0MTI_DCFJackson.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;├── M428_peSpiral_R4_TE2_TR6_vTR3_B0MTI_DCFJackson.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;└── M433_peSpiral_R4_TE2_TR8_vTR3_B0MTI_DCFJackson.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;Whole brain&amp;lt;/strong&amp;gt;: Sub-07.tar.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;├── anat&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;│ &amp;nbsp; └── T1w.nii&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;lt;strong&amp;gt;└── func&amp;lt;/strong&amp;gt;&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;├── M366_peSpiral_R4x2_1p2iso_ss_sWE_run_B0MTI_DCFJackson.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;├── M377_peSpiral_R4x2_1p2iso_ss_sWE_run_B0MTI_DCFJackson.nii.gz&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;├── smooth_1p2_moco_M366_peSpiral_R4x2_1p2iso_ss_sWE_run_B0MTI_DCFJackson.feat&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp; &amp;nbsp;└── smooth_1p2_moco_M377_peSpiral_R4x2_1p2iso_ss_sWE_run_B0MTI_DCFJackson.feat&amp;lt;/p&amp;gt;&amp;lt;p&amp;gt;&amp;nbsp;&amp;lt;/p&amp;gt;