T
Thomas A. Down
Researcher at Wellcome Trust/Cancer Research UK Gurdon Institute
Publications - 46
Citations - 16476
Thomas A. Down is an academic researcher from Wellcome Trust/Cancer Research UK Gurdon Institute. The author has contributed to research in topics: DNA methylation & Epigenetics. The author has an hindex of 34, co-authored 46 publications receiving 15651 citations. Previous affiliations of Thomas A. Down include Wellcome Trust Sanger Institute & Novartis Institute for Tropical Diseases.
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Journal ArticleDOI
NestedMICA: sensitive inference of over-represented motifs in nucleic acid sequence.
Thomas A. Down,Tim Hubbard +1 more
TL;DR: This work investigates the performance of NestedMICA in a range scenario, on synthetic data and a well-characterized set of muscle regulatory regions, and compares it with the popular MEME program to show that the new method is significantly more sensitive than MEME.
Journal ArticleDOI
Synergistic Mechanisms of DNA Demethylation during Transition to Ground-State Pluripotency
Jamie A. Hackett,Jamie A. Hackett,Sabine Dietmann,Kazuhiro Murakami,Kazuhiro Murakami,Thomas A. Down,Harry G. Leitch,Harry G. Leitch,M. Azim Surani,M. Azim Surani +9 more
TL;DR: These processes act synergistically during transition to ground-state pluripotency to promote a robust hypomethylated state.
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Dalliance: interactive genome viewing on the web
TL;DR: Dalliance is a new genome viewer which offers a high level of interactivity while running within a web browser, making it easy to customize the browser and add extra data.
Journal ArticleDOI
Integrating biological data - the Distributed Annotation System
Andrew M. Jenkinson,Mario Albrecht,Ewan Birney,Hagen Blankenburg,Thomas A. Down,Robert D. Finn,Henning Hermjakob,Tim Hubbard,Rafael C. Jimenez,Philip Jones,Andreas Kähäri,Eugene Kulesha,Jose Ramon Macias,Gabrielle A. Reeves,Andreas Prlić +14 more
TL;DR: The various infrastructure components of DAS are described and a new extended version of the DAS specification is presented, which incorporates several recent developments, including its extension to serve new data types and an ontology for protein features.
Journal ArticleDOI
DNA Methylation-mediated Down-regulation of DNA Methyltransferase-1 (DNMT1) Is Coincident with, but Not Essential for, Global Hypomethylation in Human Placenta
Boris Novakovic,Boris Novakovic,Nicholas C. Wong,Mandy Sibson,Hong-Kiat Ng,Ruth Morley,Ursula Manuelpillai,Thomas A. Down,Vardhman K. Rakyan,Stephan Beck,Stefan Hiendleder,Claire T. Roberts,Jeffrey M. Craig,Jeffrey M. Craig,Richard Saffery,Richard Saffery +15 more
TL;DR: Investigation of promoter methylation-mediated epigenetic down-regulation of DNMT genes as a potential regulator of global methylation levels in placental tissue finds specific hypermethylation of the maintenance DNA methyltransferase (DNMT1) gene, which strongly implicates epigenetic regulation of the DNMT gene family in the establishment of the unique epigenetic profile of extraembryonic tissue in humans.