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Items: 21

1.

Mutational landscape of a chemically-induced mouse model of liver cancer.

Connor F, Rayner TF, Aitken SJ, Feig C, Lukk M, Santoyo-Lopez J, Odom DT.

J Hepatol. 2018 Oct;69(4):840-850. doi: 10.1016/j.jhep.2018.06.009. Epub 2018 Jun 26.

2.

Interplay of cis and trans mechanisms driving transcription factor binding and gene expression evolution.

Wong ES, Schmitt BM, Kazachenka A, Thybert D, Redmond A, Connor F, Rayner TF, Feig C, Ferguson-Smith AC, Marioni JC, Odom DT, Flicek P.

Nat Commun. 2017 Oct 23;8(1):1092. doi: 10.1038/s41467-017-01037-x.

3.

Aging increases cell-to-cell transcriptional variability upon immune stimulation.

Martinez-Jimenez CP, Eling N, Chen HC, Vallejos CA, Kolodziejczyk AA, Connor F, Stojic L, Rayner TF, Stubbington MJT, Teichmann SA, de la Roche M, Marioni JC, Odom DT.

Science. 2017 Mar 31;355(6332):1433-1436. doi: 10.1126/science.aah4115. Erratum in: Science. 2019 Dec 20;366(6472):.

4.

Successful transmission and transcriptional deployment of a human chromosome via mouse male meiosis.

Ernst C, Pike J, Aitken SJ, Long HK, Eling N, Stojic L, Ward MC, Connor F, Rayner TF, Lukk M, Klose RJ, Kutter C, Odom DT.

Elife. 2016 Nov 18;5. pii: e20235. doi: 10.7554/eLife.20235.

5.

Enhancer evolution across 20 mammalian species.

Villar D, Berthelot C, Aldridge S, Rayner TF, Lukk M, Pignatelli M, Park TJ, Deaville R, Erichsen JT, Jasinska AJ, Turner JM, Bertelsen MF, Murchison EP, Flicek P, Odom DT.

Cell. 2015 Jan 29;160(3):554-66. doi: 10.1016/j.cell.2015.01.006.

6.

Genome-wide methylation analyses of primary human leukocyte subsets identifies functionally important cell-type-specific hypomethylated regions.

Zilbauer M, Rayner TF, Clark C, Coffey AJ, Joyce CJ, Palta P, Palotie A, Lyons PA, Smith KG.

Blood. 2013 Dec 12;122(25):e52-60. doi: 10.1182/blood-2013-05-503201. Epub 2013 Oct 24.

7.

MiR-210 is induced by Oct-2, regulates B cells, and inhibits autoantibody production.

Mok Y, Schwierzeck V, Thomas DC, Vigorito E, Rayner TF, Jarvis LB, Prosser HM, Bradley A, Withers DR, Mårtensson IL, Corcoran LM, Blenkiron C, Miska EA, Lyons PA, Smith KGC.

J Immunol. 2013 Sep 15;191(6):3037-3048. doi: 10.4049/jimmunol.1301289. Epub 2013 Aug 19.

8.

Genetically distinct subsets within ANCA-associated vasculitis.

Lyons PA, Rayner TF, Trivedi S, Holle JU, Watts RA, Jayne DR, Baslund B, Brenchley P, Bruchfeld A, Chaudhry AN, Cohen Tervaert JW, Deloukas P, Feighery C, Gross WL, Guillevin L, Gunnarsson I, Harper L, Hrušková Z, Little MA, Martorana D, Neumann T, Ohlsson S, Padmanabhan S, Pusey CD, Salama AD, Sanders JS, Savage CO, Segelmark M, Stegeman CA, Tesař V, Vaglio A, Wieczorek S, Wilde B, Zwerina J, Rees AJ, Clayton DG, Smith KG.

N Engl J Med. 2012 Jul 19;367(3):214-23. doi: 10.1056/NEJMoa1108735.

9.

Gene expression profiling of CD8+ T cells predicts prognosis in patients with Crohn disease and ulcerative colitis.

Lee JC, Lyons PA, McKinney EF, Sowerby JM, Carr EJ, Bredin F, Rickman HM, Ratlamwala H, Hatton A, Rayner TF, Parkes M, Smith KG.

J Clin Invest. 2011 Oct;121(10):4170-9. doi: 10.1172/JCI59255. Epub 2011 Sep 26.

10.

Foxp3+ follicular regulatory T cells control the germinal center response.

Linterman MA, Pierson W, Lee SK, Kallies A, Kawamoto S, Rayner TF, Srivastava M, Divekar DP, Beaton L, Hogan JJ, Fagarasan S, Liston A, Smith KG, Vinuesa CG.

Nat Med. 2011 Jul 24;17(8):975-82. doi: 10.1038/nm.2425.

11.

Copy number, linkage disequilibrium and disease association in the FCGR locus.

Niederer HA, Willcocks LC, Rayner TF, Yang W, Lau YL, Williams TN, Scott JA, Urban BC, Peshu N, Dunstan SJ, Hien TT, Phu NH, Padyukov L, Gunnarsson I, Svenungsson E, Savage CO, Watts RA, Lyons PA, Clayton DG, Smith KG.

Hum Mol Genet. 2010 Aug 15;19(16):3282-94. doi: 10.1093/hmg/ddq216. Epub 2010 May 27.

12.

A defunctioning polymorphism in FCGR2B is associated with protection against malaria but susceptibility to systemic lupus erythematosus.

Willcocks LC, Carr EJ, Niederer HA, Rayner TF, Williams TN, Yang W, Scott JA, Urban BC, Peshu N, Vyse TJ, Lau YL, Lyons PA, Smith KG.

Proc Natl Acad Sci U S A. 2010 Apr 27;107(17):7881-5. doi: 10.1073/pnas.0915133107. Epub 2010 Apr 12.

13.

Novel expression signatures identified by transcriptional analysis of separated leucocyte subsets in systemic lupus erythematosus and vasculitis.

Lyons PA, McKinney EF, Rayner TF, Hatton A, Woffendin HB, Koukoulaki M, Freeman TC, Jayne DR, Chaudhry AN, Smith KG.

Ann Rheum Dis. 2010 Jun;69(6):1208-13. doi: 10.1136/ard.2009.108043. Epub 2009 Oct 7.

14.

Importing ArrayExpress datasets into R/Bioconductor.

Kauffmann A, Rayner TF, Parkinson H, Kapushesky M, Lukk M, Brazma A, Huber W.

Bioinformatics. 2009 Aug 15;25(16):2092-4. doi: 10.1093/bioinformatics/btp354. Epub 2009 Jun 8.

15.

MAGETabulator, a suite of tools to support the microarray data format MAGE-TAB.

Rayner TF, Rezwan FI, Lukk M, Bradley XZ, Farne A, Holloway E, Malone J, Williams E, Parkinson H.

Bioinformatics. 2009 Jan 15;25(2):279-80. doi: 10.1093/bioinformatics/btn617. Epub 2008 Nov 27.

16.

ArrayExpress update--from an archive of functional genomics experiments to the atlas of gene expression.

Parkinson H, Kapushesky M, Kolesnikov N, Rustici G, Shojatalab M, Abeygunawardena N, Berube H, Dylag M, Emam I, Farne A, Holloway E, Lukk M, Malone J, Mani R, Pilicheva E, Rayner TF, Rezwan F, Sharma A, Williams E, Bradley XZ, Adamusiak T, Brandizi M, Burdett T, Coulson R, Krestyaninova M, Kurnosov P, Maguire E, Neogi SG, Rocca-Serra P, Sansone SA, Sklyar N, Zhao M, Sarkans U, Brazma A.

Nucleic Acids Res. 2009 Jan;37(Database issue):D868-72. doi: 10.1093/nar/gkn889. Epub 2008 Nov 10.

17.

A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB.

Rayner TF, Rocca-Serra P, Spellman PT, Causton HC, Farne A, Holloway E, Irizarry RA, Liu J, Maier DS, Miller M, Petersen K, Quackenbush J, Sherlock G, Stoeckert CJ Jr, White J, Whetzel PL, Wymore F, Parkinson H, Sarkans U, Ball CA, Brazma A.

BMC Bioinformatics. 2006 Nov 6;7:489.

18.

A direct interaction between the N terminus of adenylyl cyclase AC8 and the catalytic subunit of protein phosphatase 2A.

Crossthwaite AJ, Ciruela A, Rayner TF, Cooper DM.

Mol Pharmacol. 2006 Feb;69(2):608-17. Epub 2005 Oct 28.

PMID:
16258073
19.

Direct and novel regulation of cAMP-dependent protein kinase by Mck1p, a yeast glycogen synthase kinase-3.

Rayner TF, Gray JV, Thorner JW.

J Biol Chem. 2002 May 10;277(19):16814-22. Epub 2002 Mar 4.

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21.

Mutations which block the binding of calmodulin to Spc110p cause multiple mitotic defects.

Stirling DA, Rayner TF, Prescott AR, Stark MJ.

J Cell Sci. 1996 Jun;109 ( Pt 6):1297-310.

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