Tim Clark

Tim Clark

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Tim Clark

Tim Clark

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Cross-sectional analysis of UK research studies in 2015: results from a scoping project with the UK Health Research Authority.

BMJ Open 2018 10 17;8(10):e022340. Epub 2018 Oct 17.

MRC Clinical Trials Unit at UCL, Institute of Clinical Trials and Methodology, University College London, London, UK.

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http://bmjopen.bmj.com/lookup/doi/10.1136/bmjopen-2018-02234
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http://dx.doi.org/10.1136/bmjopen-2018-022340DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6196875PMC
October 2018

Tau induces blood vessel abnormalities and angiogenesis-related gene expression in P301L transgenic mice and human Alzheimer's disease.

Proc Natl Acad Sci U S A 2018 02 22;115(6):E1289-E1298. Epub 2018 Jan 22.

Department of Neurology, MassGeneral Institute for Neurodegenerative Disease, Massachusetts General Hospital, Harvard Medical School, Charlestown, MA 02129;

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http://dx.doi.org/10.1073/pnas.1710329115DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5819390PMC
February 2018

F-Fluoride and F-Fluorodeoxyglucose Positron Emission Tomography After Transient Ischemic Attack or Minor Ischemic Stroke: Case-Control Study.

Circ Cardiovasc Imaging 2017 Mar;10(3)

From the BHF Centre for Cardiovascular Science, University of Edinburgh, United Kingdom (A.T.V., W.S.A.J., A.M., G.S., R.O.F., N.L.M., E.J.R.v.B., M.R.D., D.E.N.); Division of Experimental Medicine and Immunotherapeutics, University of Cambridge, United Kingdom (A.I., J.R., A.P.D.); and Clinical Research Imaging Centre (T.C., G.R., A.F., C.L., E.J.R.v.B., M.R.D., D.E.N.) and Centre for Clinical Brain Sciences (R.A.-S.S., M.D., W.W.), University of Edinburgh, United Kingdom.

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http://dx.doi.org/10.1161/CIRCIMAGING.116.004976DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5367506PMC
March 2017

Crowdsourced estimation of cognitive decline and resilience in Alzheimer's disease.

Authors:
Genevera I Allen Nicola Amoroso Catalina Anghel Venkat Balagurusamy Christopher J Bare Derek Beaton Roberto Bellotti David A Bennett Kevin L Boehme Paul C Boutros Laura Caberlotto Cristian Caloian Frederick Campbell Elias Chaibub Neto Yu-Chuan Chang Beibei Chen Chien-Yu Chen Ting-Ying Chien Tim Clark Sudeshna Das Christos Davatzikos Jieyao Deng Donna Dillenberger Richard J B Dobson Qilin Dong Jimit Doshi Denise Duma Rosangela Errico Guray Erus Evan Everett David W Fardo Stephen H Friend Holger Fröhlich Jessica Gan Peter St George-Hyslop Satrajit S Ghosh Enrico Glaab Robert C Green Yuanfang Guan Ming-Yi Hong Chao Huang Jinseub Hwang Joseph Ibrahim Paolo Inglese Anandhi Iyappan Qijia Jiang Yuriko Katsumata John S K Kauwe Arno Klein Dehan Kong Roland Krause Emilie Lalonde Mario Lauria Eunjee Lee Xihui Lin Zhandong Liu Julie Livingstone Benjamin A Logsdon Simon Lovestone Tsung-Wei Ma Ashutosh Malhotra Lara M Mangravite Taylor J Maxwell Emily Merrill John Nagorski Aishwarya Namasivayam Manjari Narayan Mufassra Naz Stephen J Newhouse Thea C Norman Ramil N Nurtdinov Yen-Jen Oyang Yudi Pawitan Shengwen Peng Mette A Peters Stephen R Piccolo Paurush Praveen Corrado Priami Veronica Y Sabelnykova Philipp Senger Xia Shen Andrew Simmons Aristeidis Sotiras Gustavo Stolovitzky Sabina Tangaro Andrea Tateo Yi-An Tung Nicholas J Tustison Erdem Varol George Vradenburg Michael W Weiner Guanghua Xiao Lei Xie Yang Xie Jia Xu Hojin Yang Xiaowei Zhan Yunyun Zhou Fan Zhu Hongtu Zhu Shanfeng Zhu

Alzheimers Dement 2016 06 11;12(6):645-53. Epub 2016 Apr 11.

School of Computer Science, Fudan University, Shanghai, Shanghai, China; Shanghai Key Lab of Intelligent Information Processing, Fudan University, Shanghai, Shanghai, China; Centre for Computational Systems Biology, Fudan University, Shanghai, China.

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http://dx.doi.org/10.1016/j.jalz.2016.02.006DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5474755PMC
June 2016

20D-dynamic representation of protein sequences.

Genomics 2016 Jan 17;107(1):16-23. Epub 2015 Dec 17.

Computer-Chemie-Centrum and Interdisciplinary Center for Molecular Materials, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nägelsbachstrasse 25, 91052 Erlangen, Germany.

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http://dx.doi.org/10.1016/j.ygeno.2015.12.003DOI Listing
January 2016

Atomistic modeling of a KRT35/KRT85 keratin dimer: folding in aqueous solution and unfolding under tensile load.

Phys Chem Chem Phys 2015 Sep 3;17(34):21880-4. Epub 2015 Aug 3.

Lehrstuhl für Theoretische Chemie/Computer Chemie Centrum, Friedrich-Alexander Universität Erlangen-Nürnberg, Nägelsbachstraße 25, 91052 Erlangen, Germany.

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http://dx.doi.org/10.1039/c5cp02676hDOI Listing
September 2015

Micropublications: a semantic model for claims, evidence, arguments and annotations in biomedical communications.

J Biomed Semantics 2014 4;5:28. Epub 2014 Jul 4.

School of Computer Science, University of Manchester, Oxford Road, Manchester M13 9PL, UK.

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http://dx.doi.org/10.1186/2041-1480-5-28DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4530550PMC
August 2015

Structure-based evolution of subtype-selective neurotensin receptor ligands.

ChemistryOpen 2014 Oct 23;3(5):206-18. Epub 2014 Sep 23.

Department of Chemistry and Pharmacy, Emil Fischer Center, Friedrich Alexander University Schuhstraße 19, 91052 Erlangen (Germany) E-mail:

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http://dx.doi.org/10.1002/open.201402031DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4234217PMC
October 2014

Semantic Web repositories for genomics data using the eXframe platform.

J Biomed Semantics 2014 3;5(Suppl 1 Proceedings of the Bio-Ontologies Spec Interest G):S3. Epub 2014 Jun 3.

Massachusetts General Hospital, Partners Research Building, 65 Landsdowne St, Cambridge, MA, 02139, USA ; Harvard Medical School, 25 Shattuck St, Boston, MA, 02115, USA.

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http://dx.doi.org/10.1186/2041-1480-5-S1-S3DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4108874PMC
August 2014

Pain Research Forum: application of scientific social media frameworks in neuroscience.

Front Neuroinform 2014 11;8:21. Epub 2014 Mar 11.

MassGeneral Institute for Neurodegenerative Disease, Massachusetts General Hospital Cambridge, MA, USA ; Department of Neurology, Harvard Medical School Boston, MA, USA ; School of Computer Science, University of Manchester Manchester, UK.

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http://dx.doi.org/10.3389/fninf.2014.00021DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3949323PMC
March 2014

Simulating "soft" electronics.

Authors:
Tim Clark

J Cheminform 2014 Mar 11;6(Suppl 1):O19. Epub 2014 Mar 11.

Computer-Chemie-Centrum, Department Chemie und Pharmazie, Friedrich-Alexander-Universität Erlangen-Nürnberg, Nägelsbachstraße 25, 91052 Erlangen, Germany.

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http://dx.doi.org/10.1186/1758-2946-6-S1-O19DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3980059PMC
March 2014

PAV ontology: provenance, authoring and versioning.

J Biomed Semantics 2013 Nov 22;4(1):37. Epub 2013 Nov 22.

Department of Neurology, Massachusetts General Hospital, 55 Fruit Street, Boston, MA 02114, USA.

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http://dx.doi.org/10.1186/2041-1480-4-37DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4177195PMC
November 2013

Rheumatoid nodules may cause cholecystitis.

Am Surg 2013 Feb;79(2):216-7

Department of Surgery, Wyckoff Heights Medical Center, Brooklyn, NY, USA.

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February 2013

Open semantic annotation of scientific publications using DOMEO.

J Biomed Semantics 2012 Apr 24;3 Suppl 1:S1. Epub 2012 Apr 24.

Harvard Medical School and Massachusetts General Hospital, Boston MA, USA.

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http://dx.doi.org/10.1186/2041-1480-3-S1-S1DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3337259PMC
April 2012

eXframe: reusable framework for storage, analysis and visualization of genomics experiments.

BMC Bioinformatics 2011 Nov 21;12:452. Epub 2011 Nov 21.

Department of Pediatric Oncology, Dana-Farber Cancer Institute and Harvard Medical School, Boston, MA 02115, USA.

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http://bmcbioinformatics.biomedcentral.com/articles/10.1186/
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http://dx.doi.org/10.1186/1471-2105-12-452DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3235155PMC
November 2011

Electron-vibron coupling in halogenated acenaphthenequinone upon O K-edge soft x-ray absorption.

J Chem Phys 2011 Oct;135(14):144301

Interdisciplinary Center of Molecular Materials (ICMM), Universität Erlangen, Egerlandstrasse 3, D-91058 Erlangen, Germany.

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http://dx.doi.org/10.1063/1.3646732DOI Listing
October 2011

An open annotation ontology for science on web 3.0.

J Biomed Semantics 2011 May 17;2 Suppl 2:S4. Epub 2011 May 17.

Harvard Medical School and Massachusetts General Hospital, Boston MA, USA.

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http://dx.doi.org/10.1186/2041-1480-2-S2-S4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3102893PMC
May 2011

Using Spherical Harmonic Surface Property Representations for Ligand-Based Virtual Screening.

Mol Inform 2011 Mar 22;30(2-3):151-9. Epub 2010 Dec 22.

Equipe Orpailleur, INRIA Nancy - Grand Est, LORIA, 54506 Vandoeuvre-lès-Nancy, France.

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http://dx.doi.org/10.1002/minf.201000149DOI Listing
March 2011

The Future of Research Communication.

Dagstuhl Rep 2011;1(8):29-52

University of Southern California - Marina del Rey, US.

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http://dx.doi.org/10.4230/DagRep.1.8.29DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4548999PMC
January 2011

Building biomedical web communities using a semantically aware content management system.

Brief Bioinform 2009 Mar 6;10(2):129-38. Epub 2008 Dec 6.

Initiative in Innovative Computing, Harvard University, 60 Oxford Street, Cambridge, MA, USA.

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http://dx.doi.org/10.1093/bib/bbn052DOI Listing
March 2009

The SWAN biomedical discourse ontology.

J Biomed Inform 2008 Oct 4;41(5):739-51. Epub 2008 May 4.

Massachusetts General Hospital, Boston, MA 02129, USA; Harvard Medical School, Boston, MA 02115, USA.

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http://dx.doi.org/10.1016/j.jbi.2008.04.010DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4536833PMC
October 2008

Extruding Kolmogorov-type phase screen ribbons.

J Opt Soc Am A Opt Image Sci Vis 2008 Feb;25(2):463-8

P.O. Box 680, Moss Landing, California 95039, USA.

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http://dx.doi.org/10.1364/josaa.25.000463DOI Listing
February 2008

Determinants of response to fluticasone propionate and salmeterol/fluticasone propionate combination in the Gaining Optimal Asthma controL study.

J Allergy Clin Immunol 2007 Nov 1;120(5):1036-42. Epub 2007 Nov 1.

Department of Pediatrics, University of Southern Denmark, Pediatric Research Unit, Kolding Hospital, Kolding, Denmark.

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http://linkinghub.elsevier.com/retrieve/pii/S009167490701387
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http://dx.doi.org/10.1016/j.jaci.2007.07.016DOI Listing
November 2007

AlzPharm: integration of neurodegeneration data using RDF.

BMC Bioinformatics 2007 May 9;8 Suppl 3:S4. Epub 2007 May 9.

Interdepartmental Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT, USA.

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http://dx.doi.org/10.1186/1471-2105-8-S3-S4DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1892101PMC
May 2007

Alzforum and SWAN: the present and future of scientific web communities.

Brief Bioinform 2007 May 17;8(3):163-71. Epub 2007 May 17.

Alzheimer Research Forum, Boston, MA, USA.

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http://dx.doi.org/10.1093/bib/bbm012DOI Listing
May 2007

Clinical outcome in patients with bipolar I disorder, obsessive compulsive disorder or both.

Hum Psychopharmacol 2006 Apr;21(3):189-93

Schizophrenia and Bipolar Disorder Program, McLean Hospital, Belmont 02478, and Department of Psychiatry, Harvard Medical School, Cambridge, MA, USA.

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http://dx.doi.org/10.1002/hup.760DOI Listing
April 2006

Can guideline-defined asthma control be achieved? The Gaining Optimal Asthma ControL study.

Am J Respir Crit Care Med 2004 Oct 15;170(8):836-44. Epub 2004 Jul 15.

UCT Lung Institute, P.O. Box 34560, Groote Schuur 7937, Cape Town, South Africa.

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http://www.atsjournals.org/doi/abs/10.1164/rccm.200401-033OC
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http://dx.doi.org/10.1164/rccm.200401-033OCDOI Listing
October 2004

Molecular dynamics simulation links conformation of a pore-flanking region to hyperekplexia-related dysfunction of the inhibitory glycine receptor.

Chem Biol 2004 Oct;11(10):1339-50

Institut für Biochemie, Emil-Fischer-Zentrum, Friedrich-Alexander-Universität, Erlangen-Nürnberg, Erlangen, Germany.

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http://dx.doi.org/10.1016/j.chembiol.2004.07.008DOI Listing
October 2004

The activation of tertiary carboxamides in metal complexes: an experimental and theoretical study on the methanolysis of acylated bispicolylamine copper(II) complexes.

Inorg Chem 2004 Jul;43(15):4663-73

Institute of Inorganic Chemistry, University of Erlangen-Nürnberg, Egerlandstr. 1, D-91058 Erlangen, Germany.

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http://pubs.acs.org/doi/abs/10.1021/ic0496774
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http://dx.doi.org/10.1021/ic0496774DOI Listing
July 2004

Globally distributed object identification for biological knowledgebases.

Brief Bioinform 2004 Mar;5(1):59-70

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http://dx.doi.org/10.1093/bib/5.1.59DOI Listing
March 2004

The structure and stability of Si60 and Ge60 cages: a computational study.

J Comput Chem 2003 Jun;24(8):948-53

Institut für Organische Chemie, Universität Erlangen-Nürnberg, Henkestrasse 42, 91054 Erlangen, Germany.

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http://dx.doi.org/10.1002/jcc.10266DOI Listing
June 2003

Identity and interoperability in bioinformatics.

Authors:
Tim Clark

Brief Bioinform 2003 Mar;4(1):4-6

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http://dx.doi.org/10.1093/bib/4.1.4DOI Listing
March 2003