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Phenotype specific analyses reveal distinct regulatory mechanism for chronically activated p53.
Kirschner K, Samarajiwa SA, Cairns JM, Menon S, Pérez-Mancera PA, Tomimatsu K, Bermejo-Rodriguez C, Ito Y, Chandra T, Narita M, Lyons SK, Lynch AG, Kimura H, Ohbayashi T, Tavaré S, Narita M. Kirschner K, et al. Among authors: cairns jm. PLoS Genet. 2015 Mar 19;11(3):e1005053. doi: 10.1371/journal.pgen.1005053. eCollection 2015 Mar. PLoS Genet. 2015. PMID: 25790137 Free PMC article.
BayesPeak--an R package for analysing ChIP-seq data.
Cairns J, Spyrou C, Stark R, Smith ML, Lynch AG, Tavaré S. Cairns J, et al. Bioinformatics. 2011 Mar 1;27(5):713-4. doi: 10.1093/bioinformatics/btq685. Epub 2011 Jan 17. Bioinformatics. 2011. PMID: 21245054 Free PMC article.
BASH: a tool for managing BeadArray spatial artefacts.
Cairns JM, Dunning MJ, Ritchie ME, Russell R, Lynch AG. Cairns JM, et al. Bioinformatics. 2008 Dec 15;24(24):2921-2. doi: 10.1093/bioinformatics/btn557. Epub 2008 Oct 25. Bioinformatics. 2008. PMID: 18953044 Free PMC article.
Lineage-specific dynamic and pre-established enhancer-promoter contacts cooperate in terminal differentiation.
Rubin AJ, Barajas BC, Furlan-Magaril M, Lopez-Pajares V, Mumbach MR, Howard I, Kim DS, Boxer LD, Cairns J, Spivakov M, Wingett SW, Shi M, Zhao Z, Greenleaf WJ, Kundaje A, Snyder M, Chang HY, Fraser P, Khavari PA. Rubin AJ, et al. Nat Genet. 2017 Oct;49(10):1522-1528. doi: 10.1038/ng.3935. Epub 2017 Aug 14. Nat Genet. 2017. PMID: 28805829 Free PMC article.
CHiCAGO: robust detection of DNA looping interactions in Capture Hi-C data.
Cairns J, Freire-Pritchett P, Wingett SW, Várnai C, Dimond A, Plagnol V, Zerbino D, Schoenfelder S, Javierre BM, Osborne C, Fraser P, Spivakov M. Cairns J, et al. Genome Biol. 2016 Jun 15;17(1):127. doi: 10.1186/s13059-016-0992-2. Genome Biol. 2016. PMID: 27306882 Free PMC article.
44 results