User:Tim F. Rayner

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Contact Info

Tim F. Rayner (an artistic interpretation)

• Tim F. Rayner
• Cancer Research UK Cambridge Institute,
• Li Ka Shing Centre,
• Robinson Way,
• Cambridge
• CB2 0RE

• Email me through OpenWetWare

I work in the Odom Lab (now part of the University of Cambridge).

Education

Please refer to my LinkedIn profile

Research interests

1. Interest 1
2. Interest 2
3. Interest 3

Publications

1. Lee JC, Lyons PA, McKinney EF, Sowerby JM, Carr EJ, Bredin F, Rickman HM, Ratlamwala H, Hatton A, Rayner TF, Parkes M, and Smith KG. Gene expression profiling of CD8+ T cells predicts prognosis in patients with Crohn disease and ulcerative colitis. J Clin Invest. 2011 Oct;121(10):4170-9. DOI:10.1172/JCI59255 |
2. 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, and Vinuesa CG. Foxp3+ follicular regulatory T cells control the germinal center response. Nat Med. 2011 Jul 24;17(8):975-82. DOI:10.1038/nm.2425 |
3. 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, and Smith KG. Copy number, linkage disequilibrium and disease association in the FCGR locus. Hum Mol Genet. 2010 Aug 15;19(16):3282-94. DOI:10.1093/hmg/ddq216 |
4. Willcocks LC, Carr EJ, Niederer HA, Rayner TF, Williams TN, Yang W, Scott JA, Urban BC, Peshu N, Vyse TJ, Lau YL, Lyons PA, and Smith KG. A defunctioning polymorphism in FCGR2B is associated with protection against malaria but susceptibility to systemic lupus erythematosus. Proc Natl Acad Sci U S A. 2010 Apr 27;107(17):7881-5. DOI:10.1073/pnas.0915133107 |
5. Lyons PA, McKinney EF, Rayner TF, Hatton A, Woffendin HB, Koukoulaki M, Freeman TC, Jayne DR, Chaudhry AN, and Smith KG. Novel expression signatures identified by transcriptional analysis of separated leucocyte subsets in systemic lupus erythematosus and vasculitis. Ann Rheum Dis. 2010 Jun;69(6):1208-13. DOI:10.1136/ard.2009.108043 |
6. Kauffmann A, Rayner TF, Parkinson H, Kapushesky M, Lukk M, Brazma A, and Huber W. Importing ArrayExpress datasets into R/Bioconductor. Bioinformatics. 2009 Aug 15;25(16):2092-4. DOI:10.1093/bioinformatics/btp354 |
7. Rayner TF, Rezwan FI, Lukk M, Bradley XZ, Farne A, Holloway E, Malone J, Williams E, and Parkinson H. MAGETabulator, a suite of tools to support the microarray data format MAGE-TAB. Bioinformatics. 2009 Jan 15;25(2):279-80. DOI:10.1093/bioinformatics/btn617 |
8. 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, and Brazma A. ArrayExpress update--from an archive of functional genomics experiments to the atlas of gene expression. Nucleic Acids Res. 2009 Jan;37(Database issue):D868-72. DOI:10.1093/nar/gkn889 |
9. Sansone SA, Rocca-Serra P, Brandizi M, Brazma A, Field D, Fostel J, Garrow AG, Gilbert J, Goodsaid F, Hardy N, Jones P, Lister A, Miller M, Morrison N, Rayner T, Sklyar N, Taylor C, Tong W, Warner G, Wiemann S, and Members of the RSBI Working Group. The first RSBI (ISA-TAB) workshop: "can a simple format work for complex studies?". OMICS. 2008 Jun;12(2):143-9. DOI:10.1089/omi.2008.0019 |
10. Parkinson H, Kapushesky M, Shojatalab M, Abeygunawardena N, Coulson R, Farne A, Holloway E, Kolesnykov N, Lilja P, Lukk M, Mani R, Rayner T, Sharma A, William E, Sarkans U, and Brazma A. ArrayExpress--a public database of microarray experiments and gene expression profiles. Nucleic Acids Res. 2007 Jan;35(Database issue):D747-50. DOI:10.1093/nar/gkl995 |
11. 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, and Brazma A. A simple spreadsheet-based, MIAME-supportive format for microarray data: MAGE-TAB. BMC Bioinformatics. 2006 Nov 6;7:489. DOI:10.1186/1471-2105-7-489 |

    Key paper describing the MAGE-TAB data exchange file format.

12. Crossthwaite AJ, Ciruela A, Rayner TF, and Cooper DM. A direct interaction between the N terminus of adenylyl cyclase AC8 and the catalytic subunit of protein phosphatase 2A. Mol Pharmacol. 2006 Feb;69(2):608-17. DOI:10.1124/mol.105.018275 |
13. Mukherjee G, Abeygunawardena N, Parkinson H, Contrino S, Durinck S, Farne A, Holloway E, Lilja P, Moreau Y, Oezcimen A, Rayner T, Sharma A, Brazma A, Sarkans U, and Shojatalab M. Plant-based microarray data at the European Bioinformatics Institute. Introducing AtMIAMExpress, a submission tool for Arabidopsis gene expression data to ArrayExpress. Plant Physiol. 2005 Oct;139(2):632-6. DOI:10.1104/pp.105.063156 |
14. Parkinson H, Sarkans U, Shojatalab M, Abeygunawardena N, Contrino S, Coulson R, Farne A, Lara GG, Holloway E, Kapushesky M, Lilja P, Mukherjee G, Oezcimen A, Rayner T, Rocca-Serra P, Sharma A, Sansone S, and Brazma A. ArrayExpress--a public repository for microarray gene expression data at the EBI. Nucleic Acids Res. 2005 Jan 1;33(Database issue):D553-5. DOI:10.1093/nar/gki056 |
15. Sarkans U, Parkinson H, Lara GG, Oezcimen A, Sharma A, Abeygunawardena N, Contrino S, Holloway E, Rocca-Serra P, Mukherjee G, Shojatalab M, Kapushesky M, Sansone SA, Farne A, Rayner T, and Brazma A. The ArrayExpress gene expression database: a software engineering and implementation perspective. Bioinformatics. 2005 Apr 15;21(8):1495-501. DOI:10.1093/bioinformatics/bti157 |
16. Rayner TF, Gray JV, and Thorner JW. Direct and novel regulation of cAMP-dependent protein kinase by Mck1p, a yeast glycogen synthase kinase-3. J Biol Chem. 2002 May 10;277(19):16814-22. DOI:10.1074/jbc.M112349200 |
17. Rayner TF and Stark MJ. Identification and characterization of the KlCMD1 gene encoding Kluyveromyces lactis calmodulin. Yeast. 1998 Jun 30;14(9):869-75. DOI:10.1002/(SICI)1097-0061(19980630)14:9<869::AID-YEA278>3.0.CO;2-U |
18. Stirling DA, Rayner TF, Prescott AR, and Stark MJ. Mutations which block the binding of calmodulin to Spc110p cause multiple mitotic defects. J Cell Sci. 1996 Jun;109 ( Pt 6):1297-310. DOI:10.1242/jcs.109.6.1297 |

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