Publications by authors named "Thomas A Down"

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Stable chromatin domains separate broadly expressed and developmentally regulated genes.
Kenneth J Evans, Ni Huang, Przemyslaw Stempor, Michael A Chesney, Thomas A Down

Proc Natl Acad Sci U S A· November 2016

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An interactive genome browser of association results from the UK10K cohorts project.
Matthias Geihs, Ying Yan, Klaudia Walter, Jie Huang, Yasin Memari, Thomas A Down

Bioinformatics· December 2015

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A comparison of peak callers used for DNase-Seq data.
Hashem Koohy, Thomas A Down, Mikhail Spivakov, Tim Hubbard

PLoS One· October 2015

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Synergistic mechanisms of DNA demethylation during transition to ground-state pluripotency.
Jamie A Hackett, Sabine Dietmann, Kazuhiro Murakami, Thomas A Down, Harry G Leitch

Stem Cell Reports· May 2015

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Extreme HOT regions are CpG-dense promoters in C. elegans and humans.
Ron A-J Chen, Przemyslaw Stempor, Thomas A Down, Eva Zeiser, Sky K Feuer

Genome Res· July 2014

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Chromatin accessibility data sets show bias due to sequence specificity of the DNase I enzyme.
Hashem Koohy, Thomas A Down, Tim J Hubbard

PLoS One· April 2014

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Binding of TFIIIC to sine elements controls the relocation of activity-dependent neuronal genes to transcription factories.
Luca Crepaldi, Cristina Policarpi, Alessandro Coatti, William T Sherlock, Bart C Jongbloets, Thomas A Down

PLoS Genet· March 2014

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The landscape of RNA polymerase II transcription initiation in C. elegans reveals promoter and enhancer architectures.
Ron A-J Chen, Thomas A Down, Przemyslaw Stempor, Q Brent Chen, Thea A Egelhofer

Genome Res· August 2013

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Inactive or moderately active human promoters are enriched for inter-individual epialleles.
Carolina Gemma, Sreeram V Ramagopalan, Thomas A Down, Huriya Beyan, Mohammed I Hawa

Genome Biol· May 2013

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Germline DNA demethylation dynamics and imprint erasure through 5-hydroxymethylcytosine.
Jamie A Hackett, Roopsha Sengupta, Jan J Zylicz, Kazuhiro Murakami, Caroline Lee, Thomas A Down

Science· January 2013

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A functional methylome map of ulcerative colitis.
Robert Häsler, Zhe Feng, Liselotte Bäckdahl, Martina E Spehlmann, Andre Franke, Thomas A Down

Genome Res· November 2012

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Guthrie card methylomics identifies temporally stable epialleles that are present at birth in humans.
Huriya Beyan, Thomas A Down, Sreeram V Ramagopalan, Kristina Uvebrant, Anita Nilsson

Genome Res· November 2012

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Genome wide analysis of acute myeloid leukemia reveal leukemia specific methylome and subtype specific hypomethylation of repeats.
Marwa H Saied, Jacek Marzec, Sabah Khalid, Paul Smith, Thomas A Down

PLoS One· August 2012

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Comparative methylomics reveals gene-body H3K36me3 in Drosophila predicts DNA methylation and CpG landscapes in other invertebrates.
Lisa Nanty, Guillermo Carbajosa, Graham A Heap, Francis Ratnieks, David A van Heel, Thomas A Down

Genome Res· November 2011

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Identification of type 1 diabetes-associated DNA methylation variable positions that precede disease diagnosis.
Vardhman K Rakyan, Huriya Beyan, Thomas A Down, Mohammed I Hawa, Siarhei Maslau

PLoS Genet· September 2011

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Systematic bias in high-throughput sequencing data and its correction by BEADS.
Ming-Sin Cheung, Thomas A Down, Isabel Latorre, Julie Ahringer

Nucleic Acids Res· August 2011

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Epigenome-wide association studies for common human diseases.
Vardhman K Rakyan, Thomas A Down, David J Balding, Stephan Beck

Nat Rev Genet· July 2011

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Comparative methylome analysis of benign and malignant peripheral nerve sheath tumors.
Andrew Feber, Gareth A Wilson, Lu Zhang, Nadege Presneau, Bernadine Idowu, Thomas A Down

Genome Res· April 2011

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Dalliance: interactive genome viewing on the web.
Thomas A Down, Matias Piipari, Tim J P Hubbard

Bioinformatics· March 2011

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Assessing computational methods of cis-regulatory module prediction.
Jing Su, Sarah A Teichmann, Thomas A Down

PLoS Comput Biol· December 2010

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Integrated genetic and epigenetic analysis identifies haplotype-specific methylation in the FTO type 2 diabetes and obesity susceptibility locus.
Christopher G Bell, Sarah Finer, Cecilia M Lindgren, Gareth A Wilson, Vardhman K Rakyan, Thomas A Down

PLoS One· November 2010

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Genome-wide identification of targets and function of individual MicroRNAs in mouse embryonic stem cells.
Sophie A Hanina, William Mifsud, Thomas A Down, Katsuhiko Hayashi, Dónal O'Carroll

PLoS Genet· October 2010

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Genome-wide conserved consensus transcription factor binding motifs are hyper-methylated.
Mun-Kit Choy, Mehregan Movassagh, Hock-Guan Goh, Martin R Bennett, Thomas A Down

BMC Genomics· September 2010

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Metamotifs--a generative model for building families of nucleotide position weight matrices.
Matias Piipari, Thomas A Down, Tim Jp Hubbard

BMC Bioinformatics· June 2010

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Human aging-associated DNA hypermethylation occurs preferentially at bivalent chromatin domains.
Vardhman K Rakyan, Thomas A Down, Siarhei Maslau, Toby Andrew, Tsun-Po Yang

Genome Res· April 2010

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