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Prediction of Stroke Risk by Detection of Hemorrhage in Carotid Plaques: Meta-Analysis of Individual Patient Data (2019)
Journal Article
Schindler, A., Schinner, R., Altaf, N., Hosseini, A. A., Simpson, R. J., Esposito-Bauer, L., …Saam, T. (2019). Prediction of Stroke Risk by Detection of Hemorrhage in Carotid Plaques: Meta-Analysis of Individual Patient Data. JACC: Cardiovascular Imaging, doi:10.1016/j.jcmg.2019.03.028

Objectives The goal of this study was to compare the risk of stroke between patients with carotid artery disease with and without the presence of intraplaque hemorrhage (IPH) on magnetic resonance imaging. Background IPH in carotid stenosis incr... Read More

MRS and DTI evidence of progressive posterior cingulate cortex and corpus callosum injury in the hyper-acute phase after Traumatic Brain Injury (2019)
Journal Article
Lawrence, T. P., Steel, A., Ezra, M., Speirs, M., Pretorius, P. M., Douaud, G., …Voets, N. L. (2019). MRS and DTI evidence of progressive posterior cingulate cortex and corpus callosum injury in the hyper-acute phase after Traumatic Brain Injury. Brain Injury, doi:10.1080/02699052.2019.1584332

The posterior cingulate cortex (PCC) and corpus callosum (CC) are susceptible to trauma, but injury often evades detection. PCC Metabolic disruption may predict CC white matter tract injury and the secondary cascade responsible for progression. While... Read More

Hierarchical heterogeneity across human cortex shapes large-scale neural dynamics (2019)
Journal Article
Demirtas, M., Burt, J. B., Helmer, M., Ji, J. L., Adkinson, B. D., Glasser, M. F., …Murray, J. D. (2019). Hierarchical heterogeneity across human cortex shapes large-scale neural dynamics. Neuron, 101(6), 1181-1194.e13. doi:10.1016/j.neuron.2019.01.017

The large-scale organization of dynamical neural activity across cortex emerges through long-range interactions among local circuits. We hypothesized that large-scale dynamics are also shaped by heterogeneity of intrinsic local properties across cort... Read More

Lifespan pigmentation changes of the substantia nigra detected by neuromelanin-sensitive MRI (2018)
Journal Article
Xing, Y., Sapuan, A., Dineen, R., & Auer, D. P. (2018). Lifespan pigmentation changes of the substantia nigra detected by neuromelanin-sensitive MRI. Movement Disorders, 33(11), 1792-1799. doi:10.1002/mds.27502

Background: Neuromelanin is a pigment with strong iron-chelating properties preferentially found in dopaminergic neurons of the substantia nigra, pars compacta (SNpc). Parkinson's disease is characterized by pronounced, MRI detectable neuromelanin lo... Read More

How do spatially distinct frequency specific MEG networks emerge from one underlying structural connectome? The role of the structural eigenmodes (2018)
Journal Article
Tewarie, P., Abeysuriya, R., Byrne, Á., O'Neill, G. C., Sotioropoulos, S. N., Brookes, M. J., & Coombes, S. (2019). How do spatially distinct frequency specific MEG networks emerge from one underlying structural connectome? The role of the structural eigenmodes. NeuroImage, 186, 211-220. doi:10.1016/j.neuroimage.2018.10.079

Functional networks obtained from magnetoencephalography (MEG) from different frequency bands show distinct spatial patterns. It remains to be elucidated how distinct spatial patterns in MEG networks emerge given a single underlying structural networ... Read More

Automated quality control for within and between studies diffusion MRI data using a non-parametric framework for movement and distortion correction (2018)
Journal Article
Bastiani, M., Cottaar, M., Fitzgibbon, S. P., Suri, S., Alfaro-Almagro, F., Sotiropoulos, S. N., …Andersson, J. (2019). Automated quality control for within and between studies diffusion MRI data using a non-parametric framework for movement and distortion correction. NeuroImage, 184, (801-812). doi:10.1016/j.neuroimage.2018.09.073. ISSN 1053-8119

Diffusion MRI data can be affected by hardware and subject-related artefacts that can adversely affect downstream analyses. Therefore, automated quality control (QC) is of great importance, especially in large population studies where visual QC is no... Read More

Automated processing pipeline for neonatal diffusion MRI in the developing Human Connectome Project (2018)
Journal Article
Bastiani, M., Andersson, J. L., Cordero-Grande, L., Murgasova, M., Hutter, J., Price, A. N., …Sotiropoulos, S. N. (2019). Automated processing pipeline for neonatal diffusion MRI in the developing Human Connectome Project. NeuroImage, 185, 750-763. doi:10.1016/j.neuroimage.2018.05.064

The developing Human Connectome Project is set to create and make available to the scientific community a 4-dimensional map of functional and structural cerebral connectivity from 20 to 44 weeks post-menstrual age, to allow exploration of the genetic... Read More

Parkinson's disease related signal change in the nigrosomes 1–5 and the substantia nigra using T2* weighted 7T MRI (2018)
Journal Article
Schwarz, S. T., Mougin, O., Xing, Y., Blazejewska, A., Bajaj, N., Auer, D. P., & Gowland, P. (in press). Parkinson's disease related signal change in the nigrosomes 1–5 and the substantia nigra using T2* weighted 7T MRI. NeuroImage: Clinical, 19, doi:10.1016/j.nicl.2018.05.027

Improved markers for the progression of Parkinson's disease (PD) are required. Previous work has proven that iron dependent MRI scans can detect the largest Nigrosome (N1) within the substantia nigra (SN) pars compacta and changes in PD. Histopatholo... Read More

Whole brain comparative anatomy using connectivity blueprints (2018)
Journal Article
Mars, R. B., Sotiropoulos, S. N., Passingham, R. E., Sallet, J., Verhagen, L., Khrapitchev, A. A., …Jbabdi, S. (in press). Whole brain comparative anatomy using connectivity blueprints. eLife, 7, doi:10.7554/eLife.35237. ISSN 2050-084X

Comparing the brains of related species faces the challenges of establishing homologies whilst accommodating evolutionary specializations. Here we propose a general framework for understanding similarities and differences between the brains of primat... Read More

Dynamic metabolic patterns tracking neurodegeneration and gliosis following 26S proteasome dysfunction in mouse forebrain neurons (2018)
Journal Article
Geiszler, P. C., Ugun-Klusek, A., Lawler, K., Pardon, M., Yuchun, D., Bai, L., …Bedford, L. (in press). Dynamic metabolic patterns tracking neurodegeneration and gliosis following 26S proteasome dysfunction in mouse forebrain neurons. Scientific Reports, 8, doi:10.1038/s41598-018-23155-2

Metabolite profiling is an important tool that may better capture the multiple features of neurodegeneration. With the considerable parallels between mouse and human metabolism, the use of metabolomics in mouse models with neurodegenerative pathology... Read More

Altered connectivity of the right anterior insula drives the pain connectome changes in chronic knee osteoarthritis (2018)
Journal Article
Cottam, W. J., Iwabuchi, S. J., Drabek, M. M., Reckziegel, D., & Auer, D. P. (2018). Altered connectivity of the right anterior insula drives the pain connectome changes in chronic knee osteoarthritis. PAIN, 159(5), doi:10.1097/j.pain.0000000000001209

Resting-state functional connectivity (FC) has proven a powerful approach to understand the neural underpinnings of chronic pain, reporting altered connectivity in three main networks: the default mode (DMN), central executive (CEN), and the salience... Read More

Bayesian optimization of large-scale biophysical networks (2018)
Journal Article
Hadida, J., Sotiropoulos, S. N., Abeysuriya, R. G., Woolrich, M. W., & Jbabdi, S. (2018). Bayesian optimization of large-scale biophysical networks. NeuroImage, 174, doi:10.1016/j.neuroimage.2018.02.063

The relationship between structure and function in the human brain is well established, but not yet well characterised. Large-scale biophysical models allow us to investigate this relationship, by leveraging structural information (e.g. derived from... Read More

Patterns of grey matter loss associated with motor subscores in early Parkinson's disease (2017)
Journal Article
Li, X., Xing, Y., Martin-Bastida, A., Piccini, P., & Auer, D. P. (in press). Patterns of grey matter loss associated with motor subscores in early Parkinson's disease. NeuroImage: Clinical, 17, doi:10.1016/j.nicl.2017.11.009

Classical motor symptoms of Parkinson's disease (PD) such as tremor, rigidity, bradykinesia, and axial symptoms are graded in the Movement Disorders Society Unified Parkinson's Disease Rating Scale (MDS-UPDRS) III. It is yet to be ascertained whether... Read More

Image processing and Quality Control for the first 10,000 brain imaging datasets from UK Biobank (2017)
Journal Article
Alfaro-Almagro, F., Jenkinson, M., Bangerter, N. K., Andersson, J. L., Griffanti, L., Douaud, G., …Smith, S. M. (2018). Image processing and Quality Control for the first 10,000 brain imaging datasets from UK Biobank. NeuroImage, 166, doi:10.1016/j.neuroimage.2017.10.034

UK Biobank is a large-scale prospective epidemiological study with all data accessible to researchers worldwide. It is currently in the process of bringing back 100,000 of the original participants for brain, heart and body MRI, carotid ultrasound an... Read More

The heritability of multi-modal connectivity in human brain activity (2017)
Journal Article
Colclough, G. L., Smith, S. M., Nichols, T. E., Winkler, A. M., Sotiropoulos, S. N., Glasser, M. F., …Woolrich, M. W. (in press). The heritability of multi-modal connectivity in human brain activity. eLife, 6, doi:10.7554/eLife.20178. ISSN 2050-084X

Patterns of intrinsic human brain activity exhibit a profile of functional connectivity that is associated with behaviour and cognitive performance, and deteriorates with disease. This paper investigates the relative importance of genetic factors and... Read More

Improved tractography using asymmetric fibre orientation distributions (2017)
Journal Article
Bastiani, M., Cottaar, M., Dikranian, K., Ghosh, A., Zhang, H., Alexander, D. C., …Sotiropoulos, S. N. (2017). Improved tractography using asymmetric fibre orientation distributions. NeuroImage, 158, doi:10.1016/j.neuroimage.2017.06.050. ISSN 1053-8119

Diffusion MRI allows us to make inferences on the structural organisation of the brain by mapping water diffusion to white matter microstructure. However, such a mapping is generally ill-defined; for instance, diffusion measurements are antipodally s... Read More

Building connectomes using diffusion MRI: why, how and but (2017)
Journal Article
Sotiropoulos, S. N., & Zalesky, A. (in press). Building connectomes using diffusion MRI: why, how and but. NMR in Biomedicine, doi:10.1002/nbm.3752

Why has diffusion MRI become a principal modality for mapping connectomes in vivo? How do different image acquisition parameters, fiber tracking algorithms and other methodological choices affect connectome estimation? What are the main factors that... Read More

Time-efficient and flexible design of optimized multishell HARDI diffusion (2017)
Journal Article
Hutter, J., Tournier, J. D., Price, A. N., Cordero-Grande, L., Hughes, E. J., Malik, S., …Hajnal, J. V. (2018). Time-efficient and flexible design of optimized multishell HARDI diffusion. Magnetic Resonance in Medicine, 79(3), 1276-1292. doi:10.1002/mrm.26765

Purpose: Advanced diffusion magnetic resonance imaging benefits from collecting as much data as is feasible but is highly sensitive to subject motion and the risk of data loss increases with longer acquisition times. Our purpose was to create a maxim... Read More

Image quality transfer and applications in diffusion MRI (2017)
Journal Article
Alexander, D. C., Zikic, D., Ghosh, A., Tanno, R., Wottschel, V., Zhang, J., …Criminisi, A. (2017). Image quality transfer and applications in diffusion MRI. NeuroImage, 152, doi:10.1016/j.neuroimage.2017.02.089

This paper introduces a new computational imaging technique called image quality transfer (IQT). IQT uses machine learning to transfer the rich information available from one-off experimental medical imaging devices to the abundant but lower-quality... Read More

Studying neuroanatomy using MRI (2017)
Journal Article
Lerch, J. P., van der Kouwe, A. J., Raznahan, A., Paus, T., Johansen-Berg, H., Miller, K. L., …Sotiropoulos, S. N. (in press). Studying neuroanatomy using MRI. Nature Neuroscience, 20(3), doi:10.1038/nn.4501

The study of neuroanatomy using imaging enables key insights into how our brains function, are shaped by genes and environment, and change with development, aging, and disease. Developments in MRI acquisition, image processing, and data modelling hav... Read More