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Using a Systems Biology Approach To Study Host-Pathogen Interactions.

Yeung A, Hale C, Clare S, Palmer S, Bartholdson Scott J, Baker S, Dougan G.

Microbiol Spectr. 2019 Mar;7(2). doi: 10.1128/microbiolspec.BAI-0021-2019. Review.


Anti-commensal IgG Drives Intestinal Inflammation and Type 17 Immunity in Ulcerative Colitis.

Castro-Dopico T, Dennison TW, Ferdinand JR, Mathews RJ, Fleming A, Clift D, Stewart BJ, Jing C, Strongili K, Labzin LI, Monk EJM, Saeb-Parsy K, Bryant CE, Clare S, Parkes M, Clatworthy MR.

Immunity. 2019 Apr 16;50(4):1099-1114.e10. doi: 10.1016/j.immuni.2019.02.006. Epub 2019 Mar 12.


FBXO7 sensitivity of phenotypic traits elucidated by a hypomorphic allele.

Ballesteros Reviriego C, Clare S, Arends MJ, Cambridge EL, Swiatkowska A, Caetano S, Abu-Helil B, Kane L, Harcourt K, Goulding DA, Gleeson D, Ryder E, Doe B, White JK, van der Weyden L, Dougan G, Adams DJ, Speak AO.

PLoS One. 2019 Mar 6;14(3):e0212481. doi: 10.1371/journal.pone.0212481. eCollection 2019.


A Noninvasive Comparison Study between Human Gliomas with IDH1 and IDH2 Mutations by MR Spectroscopy.

Shen X, Voets NL, Larkin SJ, de Pennington N, Plaha P, Stacey R, McCullagh JSO, Schofield CJ, Clare S, Jezzard P, Cadoux-Hudson T, Ansorge O, Emir UE.

Metabolites. 2019 Feb 20;9(2). pii: E35. doi: 10.3390/metabo9020035.


A method for correcting breathing-induced field fluctuations in T2*-weighted spinal cord imaging using a respiratory trace.

Vannesjo SJ, Clare S, Kasper L, Tracey I, Miller KL.

Magn Reson Med. 2019 Jun;81(6):3745-3753. doi: 10.1002/mrm.27664. Epub 2019 Feb 8.


USP44 is dispensable for normal hematopoietic stem cell function, lymphocyte development, and B-cell-mediated immune response in a mouse model.

Lin YH, Forster M, Liang Y, Yu M, Wang H, Robert F, Langlais D, Pelletier J, Clare S, Nijnik A.

Exp Hematol. 2019 Apr;72:1-8. doi: 10.1016/j.exphem.2019.01.001. Epub 2019 Jan 9.


Using natural language processing and machine learning to identify breast cancer local recurrence.

Zeng Z, Espino S, Roy A, Li X, Khan SA, Clare SE, Jiang X, Neapolitan R, Luo Y.

BMC Bioinformatics. 2018 Dec 28;19(Suppl 17):498. doi: 10.1186/s12859-018-2466-x.


Interferon-Induced Transmembrane Protein 1 Restricts Replication of Viruses That Enter Cells via the Plasma Membrane.

Smith SE, Busse DC, Binter S, Weston S, Diaz Soria C, Laksono BM, Clare S, Van Nieuwkoop S, Van den Hoogen BG, Clement M, Marsden M, Humphreys IR, Marsh M, de Swart RL, Wash RS, Tregoning JS, Kellam P.

J Virol. 2019 Mar 5;93(6). pii: e02003-18. doi: 10.1128/JVI.02003-18. Print 2019 Mar 15.


Cyclosporine H Overcomes Innate Immune Restrictions to Improve Lentiviral Transduction and Gene Editing In Human Hematopoietic Stem Cells.

Petrillo C, Thorne LG, Unali G, Schiroli G, Giordano AMS, Piras F, Cuccovillo I, Petit SJ, Ahsan F, Noursadeghi M, Clare S, Genovese P, Gentner B, Naldini L, Towers GJ, Kajaste-Rudnitski A.

Cell Stem Cell. 2018 Dec 6;23(6):820-832.e9. doi: 10.1016/j.stem.2018.10.008. Epub 2018 Nov 8.


EROS/CYBC1 mutations: Decreased NADPH oxidase function and chronic granulomatous disease.

Thomas DC, Charbonnier LM, Schejtman A, Aldhekri H, Coomber EL, Dufficy ER, Beenken AE, Lee JC, Clare S, Speak AO, Thrasher AJ, Santilli G, Al-Mousa H, Alkuraya FS, Chatila TA, Smith KGC.

J Allergy Clin Immunol. 2019 Feb;143(2):782-785.e1. doi: 10.1016/j.jaci.2018.09.019. Epub 2018 Oct 9. No abstract available.


Comparative immunogenicity and efficacy of equivalent outer membrane vesicle and glycoconjugate vaccines against nontyphoidal Salmonella.

Micoli F, Rondini S, Alfini R, Lanzilao L, Necchi F, Negrea A, Rossi O, Brandt C, Clare S, Mastroeni P, Rappuoli R, Saul A, MacLennan CA.

Proc Natl Acad Sci U S A. 2018 Oct 9;115(41):10428-10433. doi: 10.1073/pnas.1807655115. Epub 2018 Sep 27.


Alpha kinase 1 controls intestinal inflammation by suppressing the IL-12/Th1 axis.

Ryzhakov G, West NR, Franchini F, Clare S, Ilott NE, Sansom SN, Bullers SJ, Pearson C, Costain A, Vaughan-Jackson A, Goettel JA, Ermann J, Horwitz BH, Buti L, Lu X, Mukhopadhyay S, Snapper SB, Powrie F.

Nat Commun. 2018 Sep 18;9(1):3797. doi: 10.1038/s41467-018-06085-5.


Interleukin-22 promotes phagolysosomal fusion to induce protection against Salmonella enterica Typhimurium in human epithelial cells.

Forbester JL, Lees EA, Goulding D, Forrest S, Yeung A, Speak A, Clare S, Coomber EL, Mukhopadhyay S, Kraiczy J, Schreiber F, Lawley TD, Hancock REW, Uhlig HH, Zilbauer M, Powrie F, Dougan G.

Proc Natl Acad Sci U S A. 2018 Oct 2;115(40):10118-10123. doi: 10.1073/pnas.1811866115. Epub 2018 Sep 14.


Mechanism of Telapristone Acetate (CDB4124) on Progesterone Receptor Action in Breast Cancer Cells.

Davaadelger B, Murphy AR, Clare SE, Lee O, Khan SA, Kim JJ.

Endocrinology. 2018 Oct 1;159(10):3581-3595. doi: 10.1210/en.2018-00559.


New Variant of Multidrug-Resistant Salmonella enterica Serovar Typhimurium Associated with Invasive Disease in Immunocompromised Patients in Vietnam.

Mather AE, Phuong TLT, Gao Y, Clare S, Mukhopadhyay S, Goulding DA, Hoang NTD, Tuyen HT, Lan NPH, Thompson CN, Trang NHT, Carrique-Mas J, Tue NT, Campbell JI, Rabaa MA, Thanh DP, Harcourt K, Hoa NT, Trung NV, Schultsz C, Perron GG, Coia JE, Brown DJ, Okoro C, Parkhill J, Thomson NR, Chau NVV, Thwaites GE, Maskell DJ, Dougan G, Kenney LJ, Baker S.

MBio. 2018 Sep 4;9(5). pii: e01056-18. doi: 10.1128/mBio.01056-18.


What is the evidence base for ambulatory care for acute medical illness?

Lasserson DS, Harris C, Elias T, Bowen J, Clare S.

Acute Med. 2018;17(3):148-153.


Pulmonary metastatic colonisation and granulomas in NOX2-deficient mice.

van der Weyden L, Speak AO, Swiatkowska A, Clare S, Schejtman A, Santilli G, Arends MJ, Adams DJ.

J Pathol. 2018 Nov;246(3):300-310. doi: 10.1002/path.5140. Epub 2018 Sep 19.


Feasibility of Diffusion Tensor and Morphologic Imaging of Peripheral Nerves at Ultra-High Field Strength.

Schmid AB, Campbell J, Hurley SA, Jbabdi S, Andersson JL, Jenkinson M, Bangerter NK, Bennett DL, Tracey I, Frost R, Clare S.

Invest Radiol. 2018 Dec;53(12):705-713. doi: 10.1097/RLI.0000000000000492.


Contralateral Breast Cancer Event Detection Using Nature Language Processing.

Zeng Z, Li X, Espino S, Roy A, Kitsch K, Clare S, Khan S, Luo Y.

AMIA Annu Symp Proc. 2018 Apr 16;2017:1885-1892. eCollection 2017.


Correction: NK Cells Influence Both Innate and Adaptive Immune Responses after Mucosal Immunization with Antigen and Mucosal Adjuvant.

Hall LJ, Clare S, Dougan G.

J Immunol. 2018 Jul 1;201(1):306. doi: 10.4049/jimmunol.1800632. Epub 2018 May 16. No abstract available.


Interferon lambda is required for interferon gamma-expressing NK cell responses but does not afford antiviral protection during acute and persistent murine cytomegalovirus infection.

Gimeno Brias S, Marsden M, Forbester J, Clement M, Brandt C, Harcourt K, Kane L, Chapman L, Clare S, Humphreys IR.

PLoS One. 2018 May 16;13(5):e0197596. doi: 10.1371/journal.pone.0197596. eCollection 2018.


Preclinical Development of a Novel, Orally-Administered Anti-Tumour Necrosis Factor Domain Antibody for the Treatment of Inflammatory Bowel Disease.

Crowe JS, Roberts KJ, Carlton TM, Maggiore L, Cubitt MF, Clare S, Harcourt K, Reckless J, MacDonald TT, Ray KP, Vossenkämper A, West MR.

Sci Rep. 2018 Mar 21;8(1):4941. doi: 10.1038/s41598-018-23277-7.


A preliminary modeling investigation into the safe correction zone for high tibial osteotomy.

Martay JL, Palmer AJ, Bangerter NK, Clare S, Monk AP, Brown CP, Price AJ.

Knee. 2018 Mar;25(2):286-295. doi: 10.1016/j.knee.2017.12.006. Epub 2018 Feb 1.


Pixelated spatial gene expression analysis from tissue.

Ganguli A, Ornob A, Spegazzini N, Liu Y, Damhorst G, Ghonge T, Thornton B, Konopka CJ, Dobrucki W, Clare SE, Bhargava R, Smith AM, Kosari F, Bashir R.

Nat Commun. 2018 Jan 15;9(1):202. doi: 10.1038/s41467-017-02623-9.


A comparison of 2-hydroxyglutarate detection at 3 and 7 T with long-TE semi-LASER.

Berrington A, Voets NL, Larkin SJ, de Pennington N, Mccullagh J, Stacey R, Schofield CJ, Jezzard P, Clare S, Cadoux-Hudson T, Plaha P, Ansorge O, Emir UE.

NMR Biomed. 2018 Mar;31(3). doi: 10.1002/nbm.3886. Epub 2018 Jan 5.


Template-based field map prediction for rapid whole brain B0 shimming.

Shi Y, Vannesjo SJ, Miller KL, Clare S.

Magn Reson Med. 2018 Jul;80(1):171-180. doi: 10.1002/mrm.27020. Epub 2017 Nov 28.


Spatiotemporal characterization of breathing-induced B0 field fluctuations in the cervical spinal cord at 7T.

Vannesjo SJ, Miller KL, Clare S, Tracey I.

Neuroimage. 2018 Feb 15;167:191-202. doi: 10.1016/j.neuroimage.2017.11.031. Epub 2017 Nov 22.


Near-infrared remotely triggered drug-release strategies for cancer treatment.

Goodman AM, Neumann O, Nørregaard K, Henderson L, Choi MR, Clare SE, Halas NJ.

Proc Natl Acad Sci U S A. 2017 Nov 21;114(47):12419-12424. doi: 10.1073/pnas.1713137114. Epub 2017 Nov 6.


Transcriptome and proteome analysis of Salmonella enterica serovar Typhimurium systemic infection of wild type and immune-deficient mice.

Oshota O, Conway M, Fookes M, Schreiber F, Chaudhuri RR, Yu L, Morgan FJE, Clare S, Choudhary J, Thomson NR, Lio P, Maskell DJ, Mastroeni P, Grant AJ.

PLoS One. 2017 Aug 10;12(8):e0181365. doi: 10.1371/journal.pone.0181365. eCollection 2017.


NBEAL2 is required for neutrophil and NK cell function and pathogen defense.

Sowerby JM, Thomas DC, Clare S, Espéli M, Guerrero JA, Hoenderdos K, Harcourt K, Marsden M, Abdul-Karim J, Clement M, Antrobus R, Umrania Y, Barton PR, Flint SM, Juss JK, Condliffe AM, Lyons PA, Humphreys IR, Chilvers ER, Ouwehand WH, Dougan G, Smith KG.

J Clin Invest. 2017 Sep 1;127(9):3521-3526. doi: 10.1172/JCI91684. Epub 2017 Aug 7.


Ultra-High-Field Magnetic Resonance Spectroscopy in Psychiatry.

Godlewska BR, Clare S, Cowen PJ, Emir UE.

Front Psychiatry. 2017 Jul 11;8:123. doi: 10.3389/fpsyt.2017.00123. eCollection 2017. Review.


Role of sapA and yfgA in Susceptibility to Antibody-Mediated Complement-Dependent Killing and Virulence of Salmonella enterica Serovar Typhimurium.

Ondari EM, Heath JN, Klemm EJ, Langridge G, Barquist L, Goulding DA, Clare S, Dougan G, Kingsley RA, MacLennan CA.

Infect Immun. 2017 Aug 18;85(9). pii: e00419-17. doi: 10.1128/IAI.00419-17. Print 2017 Sep.


Detection of a microbial metabolite by STING regulates inflammasome activation in response to Chlamydia trachomatis infection.

Webster SJ, Brode S, Ellis L, Fitzmaurice TJ, Elder MJ, Gekara NO, Tourlomousis P, Bryant C, Clare S, Chee R, Gaston HJS, Goodall JC.

PLoS Pathog. 2017 Jun 1;13(6):e1006383. doi: 10.1371/journal.ppat.1006383. eCollection 2017 Jun.


The results of a 7-day working pilot within an acute -respiratory medicine unit.

Chadderton M, Clare S.

Future Healthc J. 2017 Jun;4(Suppl 2):s34. doi: 10.7861/futurehosp.4-2s-s34. No abstract available.


7-day acute respiratory service - a feasibility and impact study.

Rajasekaran A, Hagan G, Chadderton M, Clare S.

Future Healthc J. 2017 Jun;4(Suppl 2):s11. doi: 10.7861/futurehosp.4-2s-s11. No abstract available.


The medical registrar's forum.

Mattar M, Clare S.

Future Healthc J. 2017 Jun;4(Suppl 2):s5. doi: 10.7861/futurehosp.4-2s-s5. No abstract available.


New thinking on improving maternity care: international perspectives.

Clare S.

Pract Midwife. 2017 Jun;20(6):36. No abstract available.


Eros is a novel transmembrane protein that controls the phagocyte respiratory burst and is essential for innate immunity.

Thomas DC, Clare S, Sowerby JM, Pardo M, Juss JK, Goulding DA, van der Weyden L, Storisteanu D, Prakash A, Espéli M, Flint S, Lee JC, Hoenderdos K, Kane L, Harcourt K, Mukhopadhyay S, Umrania Y, Antrobus R, Nathan JA, Adams DJ, Bateman A, Choudhary JS, Lyons PA, Condliffe AM, Chilvers ER, Dougan G, Smith KG.

J Exp Med. 2017 Apr 3;214(4):1111-1128. doi: 10.1084/jem.20161382. Epub 2017 Mar 28.


The antiviral restriction factor IFN-induced transmembrane protein 3 prevents cytokine-driven CMV pathogenesis.

Stacey MA, Clare S, Clement M, Marsden M, Abdul-Karim J, Kane L, Harcourt K, Brandt C, Fielding CA, Smith SE, Wash RS, Brias SG, Stack G, Notley G, Cambridge EL, Isherwood C, Speak AO, Johnson Z, Ferlin W, Jones SA, Kellam P, Humphreys IR.

J Clin Invest. 2017 Apr 3;127(4):1463-1474. doi: 10.1172/JCI84889. Epub 2017 Feb 27.


Increasing Lateralized Motor Activity in Younger and Older Adults using Real-time fMRI during Executed Movements.

Neyedli HF, Sampaio-Baptista C, Kirkman MA, Havard D, Lührs M, Ramsden K, Flitney DD, Clare S, Goebel R, Johansen-Berg H.

Neuroscience. 2018 May 15;378:165-174. doi: 10.1016/j.neuroscience.2017.02.010. Epub 2017 Feb 15.


Ultra-High-Field fMRI Reveals a Role for the Subiculum in Scene Perceptual Discrimination.

Hodgetts CJ, Voets NL, Thomas AG, Clare S, Lawrence AD, Graham KS.

J Neurosci. 2017 Mar 22;37(12):3150-3159. doi: 10.1523/JNEUROSCI.3225-16.2017. Epub 2017 Feb 17.


"Big Data" for Breast Cancer: Where to look and what you will find.

Clare SE, Shaw PL.

NPJ Breast Cancer. 2016;2. pii: 16031. doi: 10.1038/npjbcancer.2016.31. Epub 2016 Nov 2.


Optical dosimetry probes to validate Monte Carlo and empirical-method-based NIR dose planning in the brain: publisher's note.

Verleker AP, Shaffer M, Fang Q, Choi MR, Clare S, Stantz KM.

Appl Opt. 2017 Feb 1;56(4):1131. doi: 10.1364/AO.56.001131.


Motivations for contralateral prophylactic mastectomy as a function of socioeconomic status.

Baptiste DF, MacGeorge EL, Venetis MK, Mouton A, Friley LB, Pastor R, Hatten K, Lagoo J, Clare SE, Bowling MW.

BMC Womens Health. 2017 Feb 1;17(1):10. doi: 10.1186/s12905-017-0366-2.


Understanding Resonant Light-Triggered DNA Release from Plasmonic Nanoparticles.

Goodman AM, Hogan NJ, Gottheim S, Li C, Clare SE, Halas NJ.

ACS Nano. 2017 Jan 24;11(1):171-179. doi: 10.1021/acsnano.6b06510. Epub 2016 Nov 30.


Genome-wide in vivo screen identifies novel host regulators of metastatic colonization.

van der Weyden L, Arends MJ, Campbell AD, Bald T, Wardle-Jones H, Griggs N, Velasco-Herrera MD, Tüting T, Sansom OJ, Karp NA, Clare S, Gleeson D, Ryder E, Galli A, Tuck E, Cambridge EL, Voet T, Macaulay IC, Wong K; Sanger Mouse Genetics Project, Spiegel S, Speak AO, Adams DJ.

Nature. 2017 Jan 12;541(7636):233-236. doi: 10.1038/nature20792. Epub 2017 Jan 4.


Perceptually relevant remapping of human somatotopy in 24 hours.

Kolasinski J, Makin TR, Logan JP, Jbabdi S, Clare S, Stagg CJ, Johansen-Berg H.

Elife. 2016 Dec 30;5. pii: e17280. doi: 10.7554/eLife.17280.


Combined immunodeficiency with severe inflammation and allergy caused by ARPC1B deficiency.

Kuijpers TW, Tool ATJ, van der Bijl I, de Boer M, van Houdt M, de Cuyper IM, Roos D, van Alphen F, van Leeuwen K, Cambridge EL, Arends MJ, Dougan G, Clare S, Ramirez-Solis R, Pals ST, Adams DJ, Meijer AB, van den Berg TK.

J Allergy Clin Immunol. 2017 Jul;140(1):273-277.e10. doi: 10.1016/j.jaci.2016.09.061. Epub 2016 Dec 10. No abstract available.


Optical dosimetry probes to validate Monte Carlo and empirical-method-based NIR dose planning in the brain.

Verleker AP, Shaffer M, Fang Q, Choi MR, Clare S, Stantz KM.

Appl Opt. 2016 Dec 1;55(34):9875-9888. doi: 10.1364/AO.55.009875. Erratum in: Appl Opt. 2017 Feb 1;56(4):1131.

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