MRI Brain Image Processing Pipeline

Image acquisition and pre-processing of MRI scans have been performed by UK Biobank. Brain images were acquired on a Siemens Skyra 3.0 T scanner (Siemens Medical Solutions, Germany) with a 32-channel head coil. T1-weighted images with 1 mm³ isotropic resolution were previously analysed with FMRIB Software Library (FSL) (http://fsl.fmrib.ox.ac.uk/fsl), with image-derived phenotypes (IDPs – imaging summary statistics such as brain volume and hippocampal volume) made available for general access. More detailed information on MRI acquisition and analysis have been reported elsewhere (Miller et al., 2016 (link); Alfaro-Almagro et al., 2018 (link)). UK Biobank also published a standardised MRI analysis pipeline (FMRIB's Biobank Pipeline version 1.0) that is freely available to the public, including the source code (https://git.fmrib.ox.ac.uk/falmagro/UK_biobank_pipeline_v_1) (Alfaro-Almagro et al., 2018 (link)).

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Nobis L., Manohar S.G., Smith S.M., Alfaro-Almagro F., Jenkinson M., Mackay C.E, & Husain M. (2019). Hippocampal volume across age: Nomograms derived from over 19,700 people in UK Biobank. NeuroImage : Clinical, 23, 101904.

Publication 2019

Skyra 3.0 T scanner

Brain Head Idps Library Mri scans Phenotypes

Corresponding Organization : University of Oxford

Other organizations : Oxford Health NHS Foundation Trust

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Variable analysis

independent variables

Independent variables not explicitly mentioned.

dependent variables

Brain volume
Hippocampal volume
Other image-derived phenotypes (IDPs)

control variables

MRI acquisition parameters (3.0 T Siemens Skyra scanner, 32-channel head coil, T1-weighted images with 1 mm^3 isotropic resolution)
MRI data processing (analyzed with FMRIB Software Library, FMRIB's Biobank Pipeline version 1.0)

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