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Regulated Phosphosignaling Associated with Breast Cancer Subtypes and Druggability.

Huang KL, Wu Y, Primeau T, Wang YT, Gao Y, McMichael JF, Scott AD, Cao S, Wendl MC, Johnson KJ, Ruggles K, Held J, Payne SH, Davies S, Dar A, Kinsinger CR, Mesri M, Rodriguez H, Ellis MJ, Townsend RR, Chen F, Fenyö D, Li S, Liu T, Carr SA, Ding L.

Mol Cell Proteomics. 2019 Aug;18(8):1630-1650. doi: 10.1074/mcp.RA118.001243. Epub 2019 Jun 13.


Motion-Induced Signal Loss in In Vivo Cardiac Diffusion-Weighted Imaging.

Stoeck CT, Scott AD, Ferreira PF, Tunnicliffe EM, Teh I, Nielles-Vallespin S, Moulin K, Sosnovik DE, Viallon M, Croisille P, Kozerke S, Firmin DN, Ennis DB, Schneider JE.

J Magn Reson Imaging. 2019 Apr 29. doi: 10.1002/jmri.26767. [Epub ahead of print] No abstract available.


The feasibility of a novel limited field of view spiral cine DENSE sequence to assess myocardial strain in dilated cardiomyopathy.

Tayal U, Wage R, Ferreira PF, Nielles-Vallespin S, Epstein FH, Auger D, Zhong X, Pennell DJ, Firmin DN, Scott AD, Prasad SK.

MAGMA. 2019 Jun;32(3):317-329. doi: 10.1007/s10334-019-00735-5. Epub 2019 Jan 29.


Database of evidence for precision oncology portal.

Sun SQ, Mashl RJ, Sengupta S, Scott AD, Wang W, Batra P, Wang LB, Wyczalkowski MA, Ding L.

Bioinformatics. 2018 Dec 15;34(24):4315-4317. doi: 10.1093/bioinformatics/bty531.


High resolution in-vivo DT-CMR using an interleaved variable density spiral STEAM sequence.

Gorodezky M, Ferreira PF, Nielles-Vallespin S, Gatehouse PD, Pennell DJ, Scott AD, Firmin DN.

Magn Reson Med. 2019 Mar;81(3):1580-1594. doi: 10.1002/mrm.27504. Epub 2018 Nov 8.


Novel insights into in-vivo diffusion tensor cardiovascular magnetic resonance using computational modeling and a histology-based virtual microstructure.

Rose JN, Nielles-Vallespin S, Ferreira PF, Firmin DN, Scott AD, Doorly DJ.

Magn Reson Med. 2019 Apr;81(4):2759-2773. doi: 10.1002/mrm.27561. Epub 2018 Oct 23.


CharGer: clinical Characterization of Germline variants.

Scott AD, Huang KL, Weerasinghe A, Mashl RJ, Gao Q, Martins Rodrigues F, Wyczalkowski MA, Ding L.

Bioinformatics. 2019 Mar 1;35(5):865-867. doi: 10.1093/bioinformatics/bty649.


Pathogenic Germline Variants in 10,389 Adult Cancers.

Huang KL, Mashl RJ, Wu Y, Ritter DI, Wang J, Oh C, Paczkowska M, Reynolds S, Wyczalkowski MA, Oak N, Scott AD, Krassowski M, Cherniack AD, Houlahan KE, Jayasinghe R, Wang LB, Zhou DC, Liu D, Cao S, Kim YW, Koire A, McMichael JF, Hucthagowder V, Kim TB, Hahn A, Wang C, McLellan MD, Al-Mulla F, Johnson KJ; Cancer Genome Atlas Research Network, Lichtarge O, Boutros PC, Raphael B, Lazar AJ, Zhang W, Wendl MC, Govindan R, Jain S, Wheeler D, Kulkarni S, Dipersio JF, Reimand J, Meric-Bernstam F, Chen K, Shmulevich I, Plon SE, Chen F, Ding L.

Cell. 2018 Apr 5;173(2):355-370.e14. doi: 10.1016/j.cell.2018.03.039.


Diffusion Tensor Cardiovascular Magnetic Resonance of Microstructural Recovery in Dilated Cardiomyopathy.

Khalique Z, Ferreira PF, Scott AD, Nielles-Vallespin S, Wage R, Firmin DN, Pennell DJ.

JACC Cardiovasc Imaging. 2018 Oct;11(10):1548-1550. doi: 10.1016/j.jcmg.2018.01.025. Epub 2018 Mar 14. No abstract available.


Deranged Myocyte Microstructure in Situs Inversus Totalis Demonstrated by Diffusion Tensor Cardiac Magnetic Resonance.

Khalique Z, Ferreira PF, Scott AD, Nielles-Vallespin S, Kilner PJ, Kutys R, Romero M, Arai AE, Firmin DN, Pennell DJ.

JACC Cardiovasc Imaging. 2018 Sep;11(9):1360-1362. doi: 10.1016/j.jcmg.2017.11.014. Epub 2018 Jan 17. No abstract available.


An in-vivo comparison of stimulated-echo and motion compensated spin-echo sequences for 3 T diffusion tensor cardiovascular magnetic resonance at multiple cardiac phases.

Scott AD, Nielles-Vallespin S, Ferreira PF, Khalique Z, Gatehouse PD, Kilner P, Pennell DJ, Firmin DN.

J Cardiovasc Magn Reson. 2018 Jan 3;20(1):1. doi: 10.1186/s12968-017-0425-8.


Diffusion tensor cardiovascular magnetic resonance with a spiral trajectory: An in vivo comparison of echo planar and spiral stimulated echo sequences.

Gorodezky M, Scott AD, Ferreira PF, Nielles-Vallespin S, Pennell DJ, Firmin DN.

Magn Reson Med. 2018 Aug;80(2):648-654. doi: 10.1002/mrm.27051. Epub 2017 Dec 19.


Corrigendum: Protein-structure-guided discovery of functional mutations across 19 cancer types.

Niu B, Scott AD, Sengupta S, Bailey MH, Batra P, Ning J, Wyczalkowski MA, Liang WW, Zhang Q, D McLellan M, Sun SQ, Tripathi P, Lou C, Ye K, Jay Mashl R, Wallis J, C Wendl M, Chen F, Ding L.

Nat Genet. 2017 Jul 27;49(8):1286. doi: 10.1038/ng0817-1286a. No abstract available.


Evaluation of the impact of strain correction on the orientation of cardiac diffusion tensors with in vivo and ex vivo porcine hearts.

Ferreira PF, Nielles-Vallespin S, Scott AD, de Silva R, Kilner PJ, Ennis DB, Auger DA, Suever JD, Zhong X, Spottiswoode BS, Pennell DJ, Arai AE, Firmin DN.

Magn Reson Med. 2018 Apr;79(4):2205-2215. doi: 10.1002/mrm.26850. Epub 2017 Jul 21.


GenomeVIP: a cloud platform for genomic variant discovery and interpretation.

Mashl RJ, Scott AD, Huang KL, Wyczalkowski MA, Yoon CJ, Niu B, DeNardo E, Yellapantula VD, Handsaker RE, Chen K, Koboldt DC, Ye K, Fenyö D, Raphael BJ, Wendl MC, Ding L.

Genome Res. 2017 Aug;27(8):1450-1459. doi: 10.1101/gr.211656.116. Epub 2017 May 18.


Half-body single photon emission computed tomography with resolution recovery for the evaluation of metastatic bone disease: implementation into routine clinical service.

Hanney MB, Hillel PG, Scott AD, Lorenz E.

Nucl Med Commun. 2017 Jul;38(7):623-628. doi: 10.1097/MNM.0000000000000686.


Multiple phase transitions in an agent-based evolutionary model with neutral fitness.

King DM, Scott AD, Bahar S.

R Soc Open Sci. 2017 Apr 12;4(4):170005. doi: 10.1098/rsos.170005. eCollection 2017 Apr.


Assessment of Myocardial Microstructural Dynamics by In Vivo Diffusion Tensor Cardiac Magnetic Resonance.

Nielles-Vallespin S, Khalique Z, Ferreira PF, de Silva R, Scott AD, Kilner P, McGill LA, Giannakidis A, Gatehouse PD, Ennis D, Aliotta E, Al-Khalil M, Kellman P, Mazilu D, Balaban RS, Firmin DN, Arai AE, Pennell DJ.

J Am Coll Cardiol. 2017 Feb 14;69(6):661-676. doi: 10.1016/j.jacc.2016.11.051.


A comparison of the genotoxicity of benzo[a]pyrene in four cell lines with differing metabolic capacity.

Shah UK, Seager AL, Fowler P, Doak SH, Johnson GE, Scott SJ, Scott AD, Jenkins GJ.

Mutat Res Genet Toxicol Environ Mutagen. 2016 Sep 15;808:8-19. doi: 10.1016/j.mrgentox.2016.06.009. Epub 2016 Jul 26.


Protein-structure-guided discovery of functional mutations across 19 cancer types.

Niu B, Scott AD, Sengupta S, Bailey MH, Batra P, Ning J, Wyczalkowski MA, Liang WW, Zhang Q, McLellan MD, Sun SQ, Tripathi P, Lou C, Ye K, Mashl RJ, Wallis J, Wendl MC, Chen F, Ding L.

Nat Genet. 2016 Aug;48(8):827-37. doi: 10.1038/ng.3586. Epub 2016 Jun 13. Erratum in: Nat Genet. 2017 Jul 27;49(8):1286.


A mechanistic evaluation of the Syrian hamster embryo cell transformation assay (pH 6.7) and molecular events leading to senescence bypass in SHE cells.

Pickles JC, Pant K, Mcginty LA, Yasaei H, Roberts T, Scott AD, Newbold RF.

Mutat Res Genet Toxicol Environ Mutagen. 2016 May;802:50-8. doi: 10.1016/j.mrgentox.2016.04.002. Epub 2016 Apr 9.


Whole genome duplication in coast redwood (Sequoia sempervirens) and its implications for explaining the rarity of polyploidy in conifers.

Scott AD, Stenz NW, Ingvarsson PK, Baum DA.

New Phytol. 2016 Jul;211(1):186-93. doi: 10.1111/nph.13930. Epub 2016 Mar 21.


The effects of noise in cardiac diffusion tensor imaging and the benefits of averaging complex data.

Scott AD, Nielles-Vallespin S, Ferreira PF, McGill LA, Pennell DJ, Firmin DN.

NMR Biomed. 2016 May;29(5):588-99. doi: 10.1002/nbm.3500. Epub 2016 Feb 18.


Relationship between cardiac diffusion tensor imaging parameters and anthropometrics in healthy volunteers.

McGill LA, Ferreira PF, Scott AD, Nielles-Vallespin S, Giannakidis A, Kilner PJ, Gatehouse PD, de Silva R, Firmin DN, Pennell DJ.

J Cardiovasc Magn Reson. 2016 Jan 6;18:2. doi: 10.1186/s12968-015-0215-0.


Hydride bridge in [NiFe]-hydrogenase observed by nuclear resonance vibrational spectroscopy.

Ogata H, Krämer T, Wang H, Schilter D, Pelmenschikov V, van Gastel M, Neese F, Rauchfuss TB, Gee LB, Scott AD, Yoda Y, Tanaka Y, Lubitz W, Cramer SP.

Nat Commun. 2015 Aug 10;6:7890. doi: 10.1038/ncomms8890.


Structural and dynamic insights into the energetics of activation loop rearrangement in FGFR1 kinase.

Klein T, Vajpai N, Phillips JJ, Davies G, Holdgate GA, Phillips C, Tucker JA, Norman RA, Scott AD, Higazi DR, Lowe D, Thompson GS, Breeze AL.

Nat Commun. 2015 Jul 23;6:7877. doi: 10.1038/ncomms8877.


Heterogeneity of Fractional Anisotropy and Mean Diffusivity Measurements by In Vivo Diffusion Tensor Imaging in Normal Human Hearts.

McGill LA, Scott AD, Ferreira PF, Nielles-Vallespin S, Ismail T, Kilner PJ, Gatehouse PD, de Silva R, Prasad SK, Giannakidis A, Firmin DN, Pennell DJ.

PLoS One. 2015 Jul 15;10(7):e0132360. doi: 10.1371/journal.pone.0132360. eCollection 2015.


Classification of agents using Syrian hamster embryo (SHE) cell transformation assay (CTA) with ATR-FTIR spectroscopy and multivariate analysis.

Ahmadzai AA, Trevisan J, Pang W, Riding MJ, Strong RJ, Llabjani V, Pant K, Carmichael PL, Scott AD, Martin FL.

Mutagenesis. 2015 Sep;30(5):603-12. doi: 10.1093/mutage/gev030. Epub 2015 Apr 28.


Docking and migration of carbon monoxide in nitrogenase: the case for gated pockets from infrared spectroscopy and molecular dynamics.

Gee LB, Leontyev I, Stuchebrukhov A, Scott AD, Pelmenschikov V, Cramer SP.

Biochemistry. 2015 Jun 2;54(21):3314-9. doi: 10.1021/acs.biochem.5b00216. Epub 2015 May 15.


Impact of orthodontic appliances on the quality of craniofacial anatomical magnetic resonance imaging and real-time speech imaging.

Wylezinska M, Pinkstone M, Hay N, Scott AD, Birch MJ, Miquel ME.

Eur J Orthod. 2015 Dec;37(6):610-7. doi: 10.1093/ejo/cju103. Epub 2015 Feb 8.


Mechanism of action for respiratory syncytial virus inhibitor RSV604.

Challa S, Scott AD, Yuzhakov O, Zhou Y, Tiong-Yip CL, Gao N, Thresher J, Yu Q.

Antimicrob Agents Chemother. 2015 Feb;59(2):1080-7. doi: 10.1128/AAC.04119-14. Epub 2014 Dec 1.


In vivo cardiovascular magnetic resonance diffusion tensor imaging shows evidence of abnormal myocardial laminar orientations and mobility in hypertrophic cardiomyopathy.

Ferreira PF, Kilner PJ, McGill LA, Nielles-Vallespin S, Scott AD, Ho SY, McCarthy KP, Haba MM, Ismail TF, Gatehouse PD, de Silva R, Lyon AR, Prasad SK, Firmin DN, Pennell DJ.

J Cardiovasc Magn Reson. 2014 Nov 12;16:87. doi: 10.1186/s12968-014-0087-8.


Acute generalized exanthematous pustulosis (AGEP) secondary to imatinib in a patient with chronic myeloid leukaemia.

Scott AD, Lee M, Kubba F, Chu A.

Clin Exp Dermatol. 2015 Dec;40(8):926-7. doi: 10.1111/ced.12479. Epub 2014 Sep 30. No abstract available.


Optimal diffusion weighting for in vivo cardiac diffusion tensor imaging.

Scott AD, Ferreira PF, Nielles-Vallespin S, Gatehouse P, McGill LA, Kilner P, Pennell DJ, Firmin DN.

Magn Reson Med. 2015 Aug;74(2):420-30. doi: 10.1002/mrm.25418. Epub 2014 Aug 22.


Intercentre reproducibility of cardiac apparent diffusion coefficient and fractional anisotropy in healthy volunteers.

Tunnicliffe EM, Scott AD, Ferreira P, Ariga R, McGill LA, Nielles-Vallespin S, Neubauer S, Pennell DJ, Robson MD, Firmin DN.

J Cardiovasc Magn Reson. 2014 May 6;16:31. doi: 10.1186/1532-429X-16-31.


Speech MRI: morphology and function.

Scott AD, Wylezinska M, Birch MJ, Miquel ME.

Phys Med. 2014 Sep;30(6):604-18. doi: 10.1016/j.ejmp.2014.05.001. Epub 2014 May 28. Review.


Recommendations, evaluation and validation of a semi-automated, fluorescent-based scoring protocol for micronucleus testing in human cells.

Seager AL, Shah UK, Brüsehafer K, Wills J, Manshian B, Chapman KE, Thomas AD, Scott AD, Doherty AT, Doak SH, Johnson GE, Jenkins GJ.

Mutagenesis. 2014 May;29(3):155-64. doi: 10.1093/mutage/geu008. Epub 2014 Apr 4.


A linear lichenoid eruption following isotretinoin therapy.

Scott AD, Robinson A, Fuller LC.

Clin Exp Dermatol. 2014 Apr;39(3):405-6. doi: 10.1111/ced.12281. No abstract available.


Measuring similarity and improving stability in biomarker identification methods applied to Fourier-transform infrared (FTIR) spectroscopy.

Trevisan J, Park J, Angelov PP, Ahmadzai AA, Gajjar K, Scott AD, Carmichael PL, Martin FL.

J Biophotonics. 2014 Apr;7(3-4):254-65. doi: 10.1002/jbio.201300190. Epub 2014 Mar 7.


Unilateral eruption of painful papules: a quiz. Type 1 segmental cutaneous leiomyomatosis.

Scott AD, Francis N, Singh S.

Acta Derm Venereol. 2014 Sep;94(5):619-22. doi: 10.2340/00015555-1774. No abstract available.


Fe-S cluster biogenesis in Gram-positive bacteria: SufU is a zinc-dependent sulfur transfer protein.

Selbach BP, Chung AH, Scott AD, George SJ, Cramer SP, Dos Santos PC.

Biochemistry. 2014 Jan 14;53(1):152-60. doi: 10.1021/bi4011978. Epub 2013 Dec 23.


Urticarial vasculitis associated with essential thrombocythaemia.

Scott AD, Francis N, Yarranton H, Singh S.

Acta Derm Venereol. 2014 Mar;94(2):244-5. doi: 10.2340/00015555-1653. No abstract available.


An unusual scaly rash.

Scott AD, Francis N, Morar N.

Clin Exp Dermatol. 2013 Aug;38(6):684-5. doi: 10.1111/ced.12031. Epub 2013 Jun 11. No abstract available.


IRootLab: a free and open-source MATLAB toolbox for vibrational biospectroscopy data analysis.

Trevisan J, Angelov PP, Scott AD, Carmichael PL, Martin FL.

Bioinformatics. 2013 Apr 15;29(8):1095-7. doi: 10.1093/bioinformatics/btt084. Epub 2013 Feb 19.


Reproducibility of in-vivo diffusion tensor cardiovascular magnetic resonance in hypertrophic cardiomyopathy.

McGill LA, Ismail TF, Nielles-Vallespin S, Ferreira P, Scott AD, Roughton M, Kilner PJ, Ho SY, McCarthy KP, Gatehouse PD, de Silva R, Speier P, Feiweier T, Mekkaoui C, Sosnovik DE, Prasad SK, Firmin DN, Pennell DJ.

J Cardiovasc Magn Reson. 2012 Dec 24;14:86. doi: 10.1186/1532-429X-14-86. Erratum in: J Cardiovasc Magn Reson. 2013;15:22.


IR-monitored photolysis of CO-inhibited nitrogenase: a major EPR-silent species with coupled terminal CO ligands.

Yan L, Pelmenschikov V, Dapper CH, Scott AD, Newton WE, Cramer SP.

Chemistry. 2012 Dec 14;18(51):16349-57. doi: 10.1002/chem.201202072. Epub 2012 Nov 7.


Adaptive averaging applied to dynamic imaging of the soft palate.

Scott AD, Boubertakh R, Birch MJ, Miquel ME.

Magn Reson Med. 2013 Sep;70(3):865-74. doi: 10.1002/mrm.24503. Epub 2012 Sep 28.


Isolating stem cells in the inter-follicular epidermis employing synchrotron radiation-based Fourier-transform infrared microspectroscopy and focal plane array imaging.

Patel II, Harrison WJ, Kerns JG, Filik J, Wehbe K, Carmichael PL, Scott AD, Philpott MP, Frogley MD, Cinque G, Martin FL.

Anal Bioanal Chem. 2012 Oct;404(6-7):1745-58. doi: 10.1007/s00216-012-6314-y. Epub 2012 Sep 4.


Perforation of transverse colon by intra-operative cardiac pacing wires.

Thomson HJ, Scott AD.

Colorectal Dis. 2013 Feb;15(2):e101. doi: 10.1111/j.1463-1318.2012.03182.x. No abstract available.


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