Assistant Professor of Neurology, Harvard Medical School
Lab Phone: 617-724-3685
Tim Clark is an Assistant Professor of Neurology at Harvard Medical School and Director of the Biomedical Informatics Research Core at the Massachusetts General Hospital. He also serves on the Executive Committee of the Massachusetts Alzheimer Disease Research Center, where he co-directs the Data and Statistics Core. His current research focus is on bio- and neuro-informatics, scientific social media, web annotation, and next-generation scientific publishing using semantic technologies.
Tim Clark currently holds an PhD degree in Computer Science from the University of Manchester and a B.S. in Biology. He began his work in life science informatics at the National Center for Biotechnology Information, National Institutes of Health, in the U.S., working on database infrastructure for the GenBank, Entrez and PubMed platforms. He continued and extended this work at a biotechnology company, where he led a large team developing an integrated bioinformatics platform for genomics-based drug discovery research, which was successfully licensed and tech-transferred to several global pharmaceutical firms. He serves on the Editorial Board of Briefings in Bioinformatics, and on several other international advisory boards. He has been an ad hoc reviewer for 19 peer-reviewed journals, and the co-organizer of a Dagstuhl Perspectives Workshop (The Future of Research Communication, http://www.dagstuhl.de/11331). He has published 53 peer-reviewed articles and editorials, 28 of them as first or senior author, since 2003, when he first began publishing as an academic
- Clark T, Ciccarese P, Goble C. Micropublications: A Semantic Model for Claims, Evidence, Arguments and Annotations in Biomedical Communications. Journal of Biomedical Semantics 5:28
- McFarland KN, Das S, Sun TT, Leyfer D, Kim M-O, Xia E, Sangrey GR, Kuhn A, Luthi-Carter R, Clark T, Sadri-Vakili G, Cha JH: Genome-Wide Increase in Histone H2A Ubiquitylation in a Mouse Model of Huntington's Disease. Journal of Huntington's Disease 2013, 2(3):263-277.
- Ciccarese P, Soiland-Reyes S, Clark T. Web Annotation as a First-Class Object. IEEE Internet Computing, Nov/Dec 2013. PMID: 25062675
- Das S, McCaffrey PG, Talkington MWT, Andrews NA, Corlosquet S, Ivinson AJ, Clark T. Pain Research Forum: Application of Scientific Social Media Frameworks in Neuroscience. Frontiers in Neuroinformatics Mar 11;8:21. doi: 10.3389/fninf.2014.00021. eCollection 2014. PMID:24653693; PMCID: PMC3949323
- Sansone SA, Rocca-Serra P, Field D, Maguire E, Taylor C, Hide W, Oliver Hofmann, Fang H, Neumann S, Tong W, Amaral-Zettler L, Begley K, Booth T, Bougueleret L, Burns G, Chapman B, Clark T, Coleman LA, Das S, de Daruvar A, de Matos P, Dix I, Edmunds S, Evelo CT, Forster M, Gaudet P, Gilbert J, Goble CA, Griffin JL, Jacob D, Kleinjans J, Harland L, Haug K, Hermjakob H, Sui SH, Laederach A, Liang S, Merrill EM, Roux M, Saito JT, Scheuerman RH, Steinbeck C, Trefethen A, Williams-Jones B, Wolstencroft K, Xenarios I. Towards interoperable bioscience data. Nature Genetics 2012 44,:21–126. doi:10.1038/ng.1054. PMID: 22281772. (Also accepted for presentation, Highlights Track, Intelligent Systems in Molecular Biology 2012)
- McFarland KN, Das S, Sun TT, Leyfer D, Kim M-O, Xia E, Kuhn A, Luthi-Carter R, Clark T, Sadri-Vakili G, Cha JH: (2012) Genome-wide histone acetylation is altered in a transgenic mouse model of Huntington's disease. PLoS One 7(7):e41423 July 2012. PMID: 22848491; PMCID: PMC3407195
- Ciccarese P, Ocana M, Garcia-Castro LJ, Das S, Clark T. An Open Annotation Ontology for Science on Web 3.0. Journal of Biomedical Semantics 2011 2(Suppl2):S4. PMID: 17493287, PMCID: PMC3102893
- Sinha A, Merrill ME, Armstrong S, Clark T and Das S. eXframe: Reusable Framework for Storage, Analysis and Visualization of Genomics Experiments. BMC Bioinformatics 2011 Nov 21;12(1):452 (a BMC “Highly Accessed Article”). PMID 22103807, PMCID: PMC3235155
- Benn CL, Sun T, Sadri-Vakili G, McFarland K, DiRocco DP, Yohrling G, Clark T, Bouzou B, and Cha JH (2008) Huntingtin modulates transcription, occupies gene promoters in vivo and binds directly to DNA in a polyglutamine-dependent manner. The Journal of Neuroscience. 2008 Oct 15;28(42):10720-33. PMID: 18923047, PMCID: PMC2586288
- Sadri-Vakili G, Bouzou B, Benn CL, Cattaneo E, Kim MO, Chawla P, Overland RP, Glajch KE, Xia E, Qiu Z, Hersch SM, Clark TW, MacDonald ME, Yohrling GJ, Cha JH (2007) Histones Associated with Downregulated Genes are Hypo-acetylated in Huntington’s Disease Models. Human Molecular Genetics 2007 Jun 1;16(11):1293-306. PMID: 17409194