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Fully-Automated μMRI Morphometric Phenotyping of the Tc1 Mouse Model of Down Syndrome.

PloS one

Powell NM, Modat M, Cardoso MJ, Ma D, Holmes HE, Yu Y, O'Callaghan J, Cleary JO, Sinclair B, Wiseman FK, Tybulewicz VL, Fisher EM, Lythgoe MF, Ourselin S.
PMID: 27658297
PLoS One. 2016 Sep 22;11(9):e0162974. doi: 10.1371/journal.pone.0162974. eCollection 2016.

We describe a fully automated pipeline for the morphometric phenotyping of mouse brains from μMRI data, and show its application to the Tc1 mouse model of Down syndrome, to identify new morphological phenotypes in the brain of this first...

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Powell NM, Modat M, Cardoso MJ, et al. Fully-Automated μMRI Morphometric Phenotyping of the Tc1 Mouse Model of Down Syndrome. PLoS One. 2016;11(9):e0162974doi: 10.1371/journal.pone.0162974.
Powell, N. M., Modat, M., Cardoso, M. J., Ma, D., Holmes, H. E., Yu, Y., O'Callaghan, J., Cleary, J. O., Sinclair, B., Wiseman, F. K., Tybulewicz, V. L., Fisher, E. M., Lythgoe, M. F., & Ourselin, S. (2016). Fully-Automated μMRI Morphometric Phenotyping of the Tc1 Mouse Model of Down Syndrome. PloS one, 11(9), e0162974. https://doi.org/10.1371/journal.pone.0162974
Powell, Nick M, et al. "Fully-Automated μMRI Morphometric Phenotyping of the Tc1 Mouse Model of Down Syndrome." PloS one vol. 11,9 (2016): e0162974. doi: https://doi.org/10.1371/journal.pone.0162974
Powell NM, Modat M, Cardoso MJ, Ma D, Holmes HE, Yu Y, O'Callaghan J, Cleary JO, Sinclair B, Wiseman FK, Tybulewicz VL, Fisher EM, Lythgoe MF, Ourselin S. Fully-Automated μMRI Morphometric Phenotyping of the Tc1 Mouse Model of Down Syndrome. PLoS One. 2016 Sep 22;11(9):e0162974. doi: 10.1371/journal.pone.0162974. eCollection 2016. PMID: 27658297; PMCID: PMC5033246.
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Imaging endpoints for clinical trials in Alzheimer's disease.

Alzheimer's research & therapy

Cash DM, Rohrer JD, Ryan NS, Ourselin S, Fox NC.
PMID: 25621018
Alzheimers Res Ther. 2014 Dec 20;6(9):87. doi: 10.1186/s13195-014-0087-9. eCollection 2014.

As the need to develop a successful disease-modifying treatment for Alzheimer's disease (AD) becomes more urgent, imaging is increasingly used in therapeutic trials. We provide an overview of how the different imaging modalities are used in AD studies and...

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Cash DM, Rohrer JD, Ryan NS, et al. Imaging endpoints for clinical trials in Alzheimer's disease. Alzheimers Res Ther. 2014;6(9):87doi: 10.1186/s13195-014-0087-9.
Cash, D. M., Rohrer, J. D., Ryan, N. S., Ourselin, S., & Fox, N. C. (2014). Imaging endpoints for clinical trials in Alzheimer's disease. Alzheimer's research & therapy, 6(9), 87. https://doi.org/10.1186/s13195-014-0087-9
Cash, David M, et al. "Imaging endpoints for clinical trials in Alzheimer's disease." Alzheimer's research & therapy vol. 6,9 (2014): 87. doi: https://doi.org/10.1186/s13195-014-0087-9
Cash DM, Rohrer JD, Ryan NS, Ourselin S, Fox NC. Imaging endpoints for clinical trials in Alzheimer's disease. Alzheimers Res Ther. 2014 Dec 20;6(9):87. doi: 10.1186/s13195-014-0087-9. eCollection 2014. PMID: 25621018; PMCID: PMC4304258.
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CT synthesis in the head & neck region for PET/MR attenuation correction: an iterative multi-atlas approach.

EJNMMI physics

Burgos N, Cardoso MJ, Modat M, Punwani S, Atkinson D, Arridge SR, Hutton BF, Ourselin S.
PMID: 26956288
EJNMMI Phys. 2015 Dec;2:A31. doi: 10.1186/2197-7364-2-S1-A31.

No abstract available.

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Burgos N, Cardoso MJ, Modat M, et al. CT synthesis in the head & neck region for PET/MR attenuation correction: an iterative multi-atlas approach. EJNMMI Phys. 2015;2:A31doi: 10.1186/2197-7364-2-S1-A31.
Burgos, N., Cardoso, M. J., Modat, M., Punwani, S., Atkinson, D., Arridge, S. R., Hutton, B. F., & Ourselin, S. (2015). CT synthesis in the head & neck region for PET/MR attenuation correction: an iterative multi-atlas approach. EJNMMI physics, 2A31. https://doi.org/10.1186/2197-7364-2-S1-A31
Burgos, Ninon, et al. "CT synthesis in the head & neck region for PET/MR attenuation correction: an iterative multi-atlas approach." EJNMMI physics vol. 2 (2015): A31. doi: https://doi.org/10.1186/2197-7364-2-S1-A31
Burgos N, Cardoso MJ, Modat M, Punwani S, Atkinson D, Arridge SR, Hutton BF, Ourselin S. CT synthesis in the head & neck region for PET/MR attenuation correction: an iterative multi-atlas approach. EJNMMI Phys. 2015 Dec;2:A31. doi: 10.1186/2197-7364-2-S1-A31. PMID: 26956288; PMCID: PMC4798679.
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Using florbetapir positron emission tomography to explore cerebrospinal fluid cut points and gray zones in small sample sizes.

Alzheimer's & dementia (Amsterdam, Netherlands)

Weston PS, Paterson RW, Modat M, Burgos N, Cardoso MJ, Magdalinou N, Lehmann M, Dickson JC, Barnes A, Bomanji JB, Kayani I, Cash DM, Ourselin S, Toombs J, Lunn MP, Mummery CJ, Warren JD, Rossor MN, Fox NC, Zetterberg H, Schott JM.
PMID: 26835507
Alzheimers Dement (Amst). 2015 Nov 02;1(4):440-446. doi: 10.1016/j.dadm.2015.10.001. eCollection 2015 Dec.

INTRODUCTION: We aimed to assess the feasibility of determining Alzheimer's disease cerebrospinal fluid (CSF) cut points in small samples through comparison with amyloid positron emission tomography (PET).METHODS: Twenty-three individuals (19 patients, four controls) had CSF measures of amyloid beta...

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Weston PS, Paterson RW, Modat M, et al. Using florbetapir positron emission tomography to explore cerebrospinal fluid cut points and gray zones in small sample sizes. Alzheimers Dement (Amst). 2015;1(4):440-446doi: 10.1016/j.dadm.2015.10.001.
Weston, P. S., Paterson, R. W., Modat, M., Burgos, N., Cardoso, M. J., Magdalinou, N., Lehmann, M., Dickson, J. C., Barnes, A., Bomanji, J. B., Kayani, I., Cash, D. M., Ourselin, S., Toombs, J., Lunn, M. P., Mummery, C. J., Warren, J. D., Rossor, M. N., Fox, N. C., Zetterberg, H., & Schott, J. M. (2015). Using florbetapir positron emission tomography to explore cerebrospinal fluid cut points and gray zones in small sample sizes. Alzheimer's & dementia (Amsterdam, Netherlands), 1(4), 440-446. https://doi.org/10.1016/j.dadm.2015.10.001
Weston, Philip S J, et al. "Using florbetapir positron emission tomography to explore cerebrospinal fluid cut points and gray zones in small sample sizes." Alzheimer's & dementia (Amsterdam, Netherlands) vol. 1,4 (2015): 440-446. doi: https://doi.org/10.1016/j.dadm.2015.10.001
Weston PS, Paterson RW, Modat M, Burgos N, Cardoso MJ, Magdalinou N, Lehmann M, Dickson JC, Barnes A, Bomanji JB, Kayani I, Cash DM, Ourselin S, Toombs J, Lunn MP, Mummery CJ, Warren JD, Rossor MN, Fox NC, Zetterberg H, Schott JM. Using florbetapir positron emission tomography to explore cerebrospinal fluid cut points and gray zones in small sample sizes. Alzheimers Dement (Amst). 2015 Nov 02;1(4):440-446. doi: 10.1016/j.dadm.2015.10.001. eCollection 2015 Dec. PMID: 26835507; PMCID: PMC4691234.
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Global image registration using a symmetric block-matching approach.

Journal of medical imaging (Bellingham, Wash.)

Modat M, Cash DM, Daga P, Winston GP, Duncan JS, Ourselin S.
PMID: 26158035
J Med Imaging (Bellingham). 2014 Jul;1(2):024003. doi: 10.1117/1.JMI.1.2.024003. Epub 2014 Sep 19.

Most medical image registration algorithms suffer from a directionality bias that has been shown to largely impact subsequent analyses. Several approaches have been proposed in the literature to address this bias in the context of nonlinear registration, but little...

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Modat M, Cash DM, Daga P, et al. Global image registration using a symmetric block-matching approach. J Med Imaging (Bellingham). 2014;1(2):024003doi: 10.1117/1.JMI.1.2.024003.
Modat, M., Cash, D. M., Daga, P., Winston, G. P., Duncan, J. S., & Ourselin, S. (2014). Global image registration using a symmetric block-matching approach. Journal of medical imaging (Bellingham, Wash.), 1(2), 024003. https://doi.org/10.1117/1.JMI.1.2.024003
Modat, Marc, et al. "Global image registration using a symmetric block-matching approach." Journal of medical imaging (Bellingham, Wash.) vol. 1,2 (2014): 024003. doi: https://doi.org/10.1117/1.JMI.1.2.024003
Modat M, Cash DM, Daga P, Winston GP, Duncan JS, Ourselin S. Global image registration using a symmetric block-matching approach. J Med Imaging (Bellingham). 2014 Jul;1(2):024003. doi: 10.1117/1.JMI.1.2.024003. Epub 2014 Sep 19. PMID: 26158035; PMCID: PMC4478989.
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Attenuation correction synthesis for hybrid PET-MR scanners: validation for brain study applications.

EJNMMI physics

Burgos N, Cardoso MJ, Thielemans K, Duncan JS, Atkinson D, Arridge SR, Hutton BF, Ourselin S.
PMID: 26501641
EJNMMI Phys. 2014 Jul;1:A52. doi: 10.1186/2197-7364-1-S1-A52.

No abstract available.

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Burgos N, Cardoso MJ, Thielemans K, et al. Attenuation correction synthesis for hybrid PET-MR scanners: validation for brain study applications. EJNMMI Phys. 2014;1:A52doi: 10.1186/2197-7364-1-S1-A52.
Burgos, N., Cardoso, M. J., Thielemans, K., Duncan, J. S., Atkinson, D., Arridge, S. R., Hutton, B. F., & Ourselin, S. (2014). Attenuation correction synthesis for hybrid PET-MR scanners: validation for brain study applications. EJNMMI physics, 1A52. https://doi.org/10.1186/2197-7364-1-S1-A52
Burgos, Ninon, et al. "Attenuation correction synthesis for hybrid PET-MR scanners: validation for brain study applications." EJNMMI physics vol. 1 (2014): A52. doi: https://doi.org/10.1186/2197-7364-1-S1-A52
Burgos N, Cardoso MJ, Thielemans K, Duncan JS, Atkinson D, Arridge SR, Hutton BF, Ourselin S. Attenuation correction synthesis for hybrid PET-MR scanners: validation for brain study applications. EJNMMI Phys. 2014 Jul;1:A52. doi: 10.1186/2197-7364-1-S1-A52. PMID: 26501641; PMCID: PMC4545896.
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3D printing from microfocus computed tomography (micro-CT) in human specimens: education and future implications.

The British journal of radiology

Shelmerdine SC, Simcock IC, Hutchinson JC, Aughwane R, Melbourne A, Nikitichev DI, Ong JL, Borghi A, Cole G, Kingham E, Calder AD, Capelli C, Akhtar A, Cook AC, Schievano S, David A, Ourselin S, Sebire NJ, Arthurs OJ.
PMID: 29698059
Br J Radiol. 2018 Jul;91(1088):20180306. doi: 10.1259/bjr.20180306. Epub 2018 Jun 14.

Microfocus CT (micro-CT) is an imaging method that provides three-dimensional digital data sets with comparable resolution to light microscopy. Although it has traditionally been used for non-destructive testing in engineering, aerospace industries and in preclinical animal studies, new applications...

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Shelmerdine SC, Simcock IC, Hutchinson JC, et al. 3D printing from microfocus computed tomography (micro-CT) in human specimens: education and future implications. Br J Radiol. 2018;91(1088):20180306doi: 10.1259/bjr.20180306.
Shelmerdine, S. C., Simcock, I. C., Hutchinson, J. C., Aughwane, R., Melbourne, A., Nikitichev, D. I., Ong, J. L., Borghi, A., Cole, G., Kingham, E., Calder, A. D., Capelli, C., Akhtar, A., Cook, A. C., Schievano, S., David, A., Ourselin, S., Sebire, N. J., & Arthurs, O. J. (2018). 3D printing from microfocus computed tomography (micro-CT) in human specimens: education and future implications. The British journal of radiology, 91(1088), 20180306. https://doi.org/10.1259/bjr.20180306
Shelmerdine, Susan C, et al. "3D printing from microfocus computed tomography (micro-CT) in human specimens: education and future implications." The British journal of radiology vol. 91,1088 (2018): 20180306. doi: https://doi.org/10.1259/bjr.20180306
Shelmerdine SC, Simcock IC, Hutchinson JC, Aughwane R, Melbourne A, Nikitichev DI, Ong JL, Borghi A, Cole G, Kingham E, Calder AD, Capelli C, Akhtar A, Cook AC, Schievano S, David A, Ourselin S, Sebire NJ, Arthurs OJ. 3D printing from microfocus computed tomography (micro-CT) in human specimens: education and future implications. Br J Radiol. 2018 Jul;91(1088):20180306. doi: 10.1259/bjr.20180306. Epub 2018 Jun 14. PMID: 29698059; PMCID: PMC6209478.
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Fast adaptive optics scanning light ophthalmoscope retinal montaging.

Biomedical optics express

Davidson B, Kalitzeos A, Carroll J, Dubra A, Ourselin S, Michaelides M, Bergeles C.
PMID: 30615701
Biomed Opt Express. 2018 Aug 15;9(9):4317-4328. doi: 10.1364/BOE.9.004317. eCollection 2018 Sep 01.

The field of view of high-resolution ophthalmoscopes that require the use of adaptive optics (AO) wavefront correction is limited by the isoplanatic patch of the eye, which varies across individual eyes and with the portion of the pupil used...

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Davidson B, Kalitzeos A, Carroll J, et al. Fast adaptive optics scanning light ophthalmoscope retinal montaging. Biomed Opt Express. 2018;9(9):4317-4328doi: 10.1364/BOE.9.004317.
Davidson, B., Kalitzeos, A., Carroll, J., Dubra, A., Ourselin, S., Michaelides, M., & Bergeles, C. (2018). Fast adaptive optics scanning light ophthalmoscope retinal montaging. Biomedical optics express, 9(9), 4317-4328. https://doi.org/10.1364/BOE.9.004317
Davidson, Benjamin, et al. "Fast adaptive optics scanning light ophthalmoscope retinal montaging." Biomedical optics express vol. 9,9 (2018): 4317-4328. doi: https://doi.org/10.1364/BOE.9.004317
Davidson B, Kalitzeos A, Carroll J, Dubra A, Ourselin S, Michaelides M, Bergeles C. Fast adaptive optics scanning light ophthalmoscope retinal montaging. Biomed Opt Express. 2018 Aug 15;9(9):4317-4328. doi: 10.1364/BOE.9.004317. eCollection 2018 Sep 01. PMID: 30615701; PMCID: PMC6157757.
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Seeing through multimode fibers with real-valued intensity transmission matrices.

Optics express

Zhao T, Ourselin S, Vercauteren T, Xia W.
PMID: 32680147
Opt Express. 2020 Jul 06;28(14):20978-20991. doi: 10.1364/OE.396734.

Image transmission through multimode optical fibers has been an area of immense interests driven by the demand for miniature endoscopes in biomedicine and higher speed and capacity in telecommunications. Conventionally, a complex-valued transmission matrix is obtained experimentally to link...

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Zhao T, Ourselin S, Vercauteren T, et al. Seeing through multimode fibers with real-valued intensity transmission matrices. Opt Express. 2020;28(14):20978-20991doi: 10.1364/OE.396734.
Zhao, T., Ourselin, S., Vercauteren, T., & Xia, W. (2020). Seeing through multimode fibers with real-valued intensity transmission matrices. Optics express, 28(14), 20978-20991. https://doi.org/10.1364/OE.396734
Zhao, Tianrui, et al. "Seeing through multimode fibers with real-valued intensity transmission matrices." Optics express vol. 28,14 (2020): 20978-20991. doi: https://doi.org/10.1364/OE.396734
Zhao T, Ourselin S, Vercauteren T, Xia W. Seeing through multimode fibers with real-valued intensity transmission matrices. Opt Express. 2020 Jul 06;28(14):20978-20991. doi: 10.1364/OE.396734. PMID: 32680147; PMCID: PMC7470672.
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SARS-CoV-2 (COVID-19) infection in pregnant women: characterization of symptoms and syndromes predictive of disease and severity through real-time, remote participatory epidemiology.

medRxiv : the preprint server for health sciences

Molteni E, Astley CM, Ma W, Sudre CH, Magee LA, Murray B, Fall T, Gomez MF, Tsereteli N, Franks PW, Brownstein JS, Davies R, Wolf J, Spector TD, Ourselin S, Steves CJ, Chan AT, Modat M.
PMID: 32839787
medRxiv. 2020 Oct 14; doi: 10.1101/2020.08.17.20161760.

OBJECTIVE: To test whether pregnant and non-pregnant women differ in COVID-19 symptom profile and severity. To extend previous investigations on hospitalized pregnant women to those who did not require hospitalization.DESIGN: Observational study prospectively collecting longitudinal (smartphone application interface) and...

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Molteni E, Astley CM, Ma W, et al. SARS-CoV-2 (COVID-19) infection in pregnant women: characterization of symptoms and syndromes predictive of disease and severity through real-time, remote participatory epidemiology. medRxiv. 2020;doi: 10.1101/2020.08.17.20161760.
Molteni, E., Astley, C. M., Ma, W., Sudre, C. H., Magee, L. A., Murray, B., Fall, T., Gomez, M. F., Tsereteli, N., Franks, P. W., Brownstein, J. S., Davies, R., Wolf, J., Spector, T. D., Ourselin, S., Steves, C. J., Chan, A. T., & Modat, M. (2020). SARS-CoV-2 (COVID-19) infection in pregnant women: characterization of symptoms and syndromes predictive of disease and severity through real-time, remote participatory epidemiology. medRxiv : the preprint server for health sciences, . https://doi.org/10.1101/2020.08.17.20161760
Molteni, Erika, et al. "SARS-CoV-2 (COVID-19) infection in pregnant women: characterization of symptoms and syndromes predictive of disease and severity through real-time, remote participatory epidemiology." medRxiv : the preprint server for health sciences vol. (2020). doi: https://doi.org/10.1101/2020.08.17.20161760
Molteni E, Astley CM, Ma W, Sudre CH, Magee LA, Murray B, Fall T, Gomez MF, Tsereteli N, Franks PW, Brownstein JS, Davies R, Wolf J, Spector TD, Ourselin S, Steves CJ, Chan AT, Modat M. SARS-CoV-2 (COVID-19) infection in pregnant women: characterization of symptoms and syndromes predictive of disease and severity through real-time, remote participatory epidemiology. medRxiv. 2020 Oct 14; doi: 10.1101/2020.08.17.20161760. PMID: 32839787; PMCID: PMC7444306.
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A Position Statement on the Utility of Interval Imaging in Standard of Care Brain Tumour Management: Defining the Evidence Gap and Opportunities for Future Research.

Frontiers in oncology

Booth TC, Thompson G, Bulbeck H, Boele F, Buckley C, Cardoso J, Dos Santos Canas L, Jenkinson D, Ashkan K, Kreindler J, Huskens N, Luis A, McBain C, Mills SJ, Modat M, Morley N, Murphy C, Ourselin S, Pennington M, Powell J, Summers D, Waldman AD, Watts C, Williams M, Grant R, Jenkinson MD.
PMID: 33634034
Front Oncol. 2021 Feb 09;11:620070. doi: 10.3389/fonc.2021.620070. eCollection 2021.

OBJECTIV E: To summarise current evidence for the utility of interval imaging in monitoring disease in adult brain tumours, and to develop a position for future evidence gathering while incorporating the application of data science and health economics.METHODS: Experts...

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Booth TC, Thompson G, Bulbeck H, et al. A Position Statement on the Utility of Interval Imaging in Standard of Care Brain Tumour Management: Defining the Evidence Gap and Opportunities for Future Research. Front Oncol. 2021;11:620070doi: 10.3389/fonc.2021.620070.
Booth, T. C., Thompson, G., Bulbeck, H., Boele, F., Buckley, C., Cardoso, J., Dos Santos Canas, L., Jenkinson, D., Ashkan, K., Kreindler, J., Huskens, N., Luis, A., McBain, C., Mills, S. J., Modat, M., Morley, N., Murphy, C., Ourselin, S., Pennington, M., Powell, J., Summers, D., Waldman, A. D., Watts, C., Williams, M., Grant, R., & Jenkinson, M. D. (2021). A Position Statement on the Utility of Interval Imaging in Standard of Care Brain Tumour Management: Defining the Evidence Gap and Opportunities for Future Research. Frontiers in oncology, 11620070. https://doi.org/10.3389/fonc.2021.620070
Booth, Thomas C, et al. "A Position Statement on the Utility of Interval Imaging in Standard of Care Brain Tumour Management: Defining the Evidence Gap and Opportunities for Future Research." Frontiers in oncology vol. 11 (2021): 620070. doi: https://doi.org/10.3389/fonc.2021.620070
Booth TC, Thompson G, Bulbeck H, Boele F, Buckley C, Cardoso J, Dos Santos Canas L, Jenkinson D, Ashkan K, Kreindler J, Huskens N, Luis A, McBain C, Mills SJ, Modat M, Morley N, Murphy C, Ourselin S, Pennington M, Powell J, Summers D, Waldman AD, Watts C, Williams M, Grant R, Jenkinson MD. A Position Statement on the Utility of Interval Imaging in Standard of Care Brain Tumour Management: Defining the Evidence Gap and Opportunities for Future Research. Front Oncol. 2021 Feb 09;11:620070. doi: 10.3389/fonc.2021.620070. eCollection 2021. PMID: 33634034; PMCID: PMC7900557.
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Middle Frontal Gyrus and Area 55b: Perioperative Mapping and Language Outcomes.

Frontiers in neurology

Hazem SR, Awan M, Lavrador JP, Patel S, Wren HM, Lucena O, Semedo C, Irzan H, Melbourne A, Ourselin S, Shapey J, Kailaya-Vasan A, Gullan R, Ashkan K, Bhangoo R, Vergani F.
PMID: 33776898
Front Neurol. 2021 Mar 10;12:646075. doi: 10.3389/fneur.2021.646075. eCollection 2021.

No abstract available.

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Hazem SR, Awan M, Lavrador JP, et al. Middle Frontal Gyrus and Area 55b: Perioperative Mapping and Language Outcomes. Front Neurol. 2021;12:646075doi: 10.3389/fneur.2021.646075.
Hazem, S. R., Awan, M., Lavrador, J. P., Patel, S., Wren, H. M., Lucena, O., Semedo, C., Irzan, H., Melbourne, A., Ourselin, S., Shapey, J., Kailaya-Vasan, A., Gullan, R., Ashkan, K., Bhangoo, R., & Vergani, F. (2021). Middle Frontal Gyrus and Area 55b: Perioperative Mapping and Language Outcomes. Frontiers in neurology, 12646075. https://doi.org/10.3389/fneur.2021.646075
Hazem, Sally Rosario, et al. "Middle Frontal Gyrus and Area 55b: Perioperative Mapping and Language Outcomes." Frontiers in neurology vol. 12 (2021): 646075. doi: https://doi.org/10.3389/fneur.2021.646075
Hazem SR, Awan M, Lavrador JP, Patel S, Wren HM, Lucena O, Semedo C, Irzan H, Melbourne A, Ourselin S, Shapey J, Kailaya-Vasan A, Gullan R, Ashkan K, Bhangoo R, Vergani F. Middle Frontal Gyrus and Area 55b: Perioperative Mapping and Language Outcomes. Front Neurol. 2021 Mar 10;12:646075. doi: 10.3389/fneur.2021.646075. eCollection 2021. PMID: 33776898; PMCID: PMC7988187.
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