Publications

Primary Publications

Three papers submitted for peer-review.

Lone, M., Kungl, T., Koper, A., Bottenberg, W., Kammerer, R., Klein, M.S., Sweeney, S.T., Auburn, R.P., O’Kane, C., Prokop , A. (2010). The nuclear protein Waharan is required for endosomal-lysosomal trafficking in Drosophila J. Cell Sci. 123(14):2369-74. (Pubmed)

Kosik, O., Auburn, R.P., Russell, S., Hrmova, M., Farkas, V. (2010). Polysaccharide microarrays for screening of multiple transglycosylase activities in plant extracts. Glycoconjugate J. 27(1):79-87. (Pubmed)

Celniker, S.E., Dillon, L.A., Gerstein, M.B., Gunsalus, K.C., Henikoff, S., Karpen, G.H., Kellis, M., Lai, E.C., Lieb, J.D., MacAlpine, D.M., Micklem, G., Piano, F., Snyder, M., Stein, L., White, K.P., Waterston, R.H.; modENCODE Consortium. (2009). Unlocking the secrets of the genome. Nature. 459(7249):927-40. (Pubmed) (modENCODE)

Auburn, R.P., Russell, R., Fischer, B., Meadows, L.A., Sevillano Matilla, S., Russell, S. (2006). SimArray: a user-friendly and user-configurable microarray design tool. BMC Bioinformatics. 7:102. (PubMed)

Auburn, R.P., Kreil, D. P., Meadows, L. A., Fischer, B., Sevillano Matilla, S., Russell, S. (2005). Robotic spotting of cDNA and oligonucleotide microarrays. Trends Biotechnol. 23(7):374-79. (PubMed)

Auburn, R.P. (2000). Screening for genes involved in Drosophila neuromuscular function. Ph.D. Thesis. University of Cambridge, England. (FlyBase)

Acknowledged Contribution

Meadows, L.A., Chan, Y.S., Roote, J., Russell, S. (2010). Neighbourhood continuity is not required for correct testis gene expression in Drosophila. PLoS Biology. 8(11): e1000552 (Article | Commentary)

Calero-Nieto, F.J., Wood, A.D., Wilson, N.K., Kinston, S., Landry, J.R., Gottgens, B. (2010). Transcriptional regulation of Elf-1: locus-wide analysis reveals four distinct promoters, a tissue-specific enhancer, control by PU.1 and the importance of Elf-1 down-regulation for erythroid maturation. Nucleic Acids Res. 38(19):6363-74. (PubMed)

Wilson, N.K., Timms, R.T., Kinston, S.J., Cheng, Y.H., Oram, S.H., Landry, J.R., Mullender, J., Ottersbach, K., Gottgens, B. (2010). Gfi1 expression is controlled by five distinct regulatory regions spread over 100 kilobases, with Scl/Tal1, Gata2, Pu.i, Erg, Meis1 and Runx1 acting as upstream regulators in early hematopieitc cells. Mol Cell Biol. 30(15): 3853-63. (PubMed)

Landry JR, Bonadies N, Kinston S, Knezevic K, Wilson NK, Oram SH, Janes M, Piltz S, Hammett M, Carter J, Hamilton T, Donaldson IJ, Lacaud G, Frampton J, Follows G, Kouskoff V, Göttgens B. (2009). Expression of the leukemia oncogene Lmo2 is controlled by an array of tissue-specific elements disperes over 100 kb and bound by Tal1/Lmo2, Ets, and Gata factors. Blood. 113(23):5783-92. (PubMed)

Russell, S., Meadows, L.M., Russell, R.R. (2008). Microarray technology in Practice. Academic Press, San Diego, USA. [ISBN: 012372516X.]

Pimanda, J.E., Chan, W.Y., Wilson, N.K., Smith, A.M., Kinston, S., Knezevic, K., Janes, M.E., Landry, J.R., Kolb-Kokocinski, A., Frampton, J., Tannahill, D., Ottersbach, K., Follows, G., Lacaud, G., Kouckoff, V., Gottgens, B. (2008). Endoglin expression in blood and endothelium is differentially regulated by modular assembly of the Ets/Gata hemangioblast code. Blood. 112(12): 4512-22. (PubMed)

Kreil, D.P., Russell, R.R., and Russell, S. (2006). Microarray oligonucleotide-probes. Methods Enzymol. 410: 73-98. (PubMed)

Birch-Machin, I., Gao, S., Huen, D., McGirr, R., White, R.A.H., Russell, S. (2005). Genomic analysis of heat-shock factor targets in Drosophila. Genome Biology 6:R63. (PubMed)

Conference abstracts & proceedings

Auburn, R.P., Negre, N., Senderowicz, L., Morrison, C.A., White, R.A.H., Russell, S., White, K.P. (2010). Biological Validation of Drosophila melanogaster Boundary Elements. ENCODE and modENCODE consortium meeting. 10th to 12th March, Washington DC, USA.

Godsey B., Sykacek, P., Meadows, L.A., Fuscher, B., Auburn, R.P., Russell, S., Kreil, D.P. (2008). Assessing RNA labeling and amplification methods in a Bayesian context. European Conference on Computational Biology (ECCB) Satellite Meeting on Probabilistic Modelling in Computaional Biology (PMCB). 22nd September 2008, Cagliari, Sardinia.

Tüchler. T., Sykacek, P., Auburn, R.P., Meadows, L.A., Fischer, B., Micklem, G., Russell, S., Kreil, D.P. (2007). Tenfold improved performance of spatial normalization of microarrays. 17th Annual International Conference on Critical Assessment of Microarray Data Analysis (CAMDA07). 13th to 14th December 2007, Valencia, Spain. (CAMDA07)

Tüchler. T., Sykacek, P., Auburn, R.P., Meadows, L.A., Fischer, B., Micklem, G., Russell, S., Kreil, D.P. (2007). Tenfold improved performance of spatial normalization of microarrays. 15th Annual International Conference on Intelligent Systems for Molecular Biology (ISMB) & 6th European Conference on Computational Biology (ECCB). 21st to 25th July 2007, Vienna, Austria. (ISMB'07/ECCB / Proceedings)

Lone, G.M., Asztalos, Z., Auburn, R., Bottenberg, W., Kammerer, R., O'Kane, C.J., Rocha, J., Sweeney, S.T., Yang, M., Prokop, A. (2006). Discovery and characterisation of genes involved in de novo formation of Drosophila NMJs. A. Dros. Res. Conf. 47:24. (FlyBase)

Lone, G.M., Asztalos, Z., Auburn, R., Bottenberg, W., Kammerer, R., O'Kane, C.J., Rocha, J., Sweeney, S.T., Yang, M., Prokop, A (2006). Waharan, a novel Drosophila protein involved in Uibiquitin-mediated regulation of NMJ size. 11th Annual European Meeting on the Neurogenetics of Drosophila. 2nd to 6th September 2006, Leuven, Belgium.

Jackson, R.A., Ryder, E., Janes, M., Fischer, B., Auburn, R.P., Russell, S., Fallows, G., Ferguson-Smith, A. (2006). Long-range analysis of chromatin encompassing a 1.7Mb imprinted domain. The European Science Foundation. Signalling to chromatin: epigenetics. 6th to 9th June, Wellcome Trust Genome Campus, Hinxton, UK.

Meadows, L., Auburn, R., Fischer, B., Kreil, D., Sevillano-Matilla, S., Micklem, G., Russell, S. (2004). Spatial microarray calibration by abundant spike controls. The Consortium for post-genome science: genomes to systems. September 1st to September 3rd, Manchester International Convention Centre, Manchester, UK. (Consortium)

Kreil, D.P., Auburn, R.P., Meadows, L.A., Fischer, B., Russell, S., Micklem, G. (2003). Quantitative microarray spot profile optimization: a systematic evaluation of buffer/slide combinations. In German Conference in Bioinformatics, GCB 2003, (Mewes, H-W, Frishman, D., Heun, V. and Kramer, S. eds.) v.I, 77-81. (GCB'03)

Kreil, D.P., Auburn, R.P., Meadows, L.A., Russell, A., Micklem G. (2003). Quantitative microarray spot profile optimization: a systematic evaluation of buffer/slide combinations. International Society for Computational Biology conference on Intelligent Systems for Molecular Biology (ISMB), June 29 to July 3, Brisbane, Australia. (ISMB'03)

Lone, M., Asztalos, Z., Auburn, R., O'Kane, C., Prokop, A., Rocha, J., Sweeney, S.T., Yang, M. (2003). Discovery and Characterisation of Genes involved in the Structural Organisation of Drosophila Synapses. Europ. Dros. Res. Conf. 18:O07. (FlyBase)

Meadows, L.A., Ashburner, M., Auburn, R., Brookman, J., Glover, D., McWilliam, L., Micklem, G., O'Kane, C., Russell, S., Skelton, J. (2002). The UK Drosophila Microarray Facility. A. Dros. Res. Conf. 43:945C. (FlyBase)

Meadows, L., Ashburner, M., Auburn, R., Blows, F., Brookman, J., Coulson, D., Drummond, J., Glover, D., McWilliam, L., Micklem, D., Micklem, G., O'Kane, C., Russell, S., Ryder, E., Skelton, J., Wang, S., Webster, J. (2001). The UK Drosophila Microarray Facility. Europ. Dros. Res. Conf. 17:I16. (FlyBase)

O'Kane, C.J., Auburn, R.P., Mehren, J.E., Parmentier, M-L., Sweeney, S.T. (1999). Screening for mutations affecting synapse function in Drosophila melanogaster. Welcome trust neuroscience symposium on 'the life and death of the brain'. August 25th to August 27th, Trinity College, Dublin, Ireland.

Sweeney, S.T., Auburn, R.P., Mehren, J.E., Parmentier, M-L., Deak, P., Glover, D., O'Kane, C.J. (1999). A screen for mutations affecting neuromuscular development and function in Drosophila melanogaster. A. Dros. Res. Conf. 40:577C. (FlyBase)

Auburn, R.P., Sweeney, S.T., Mehren, J.E., Parmentier, M-L., Deak, P., Glover, D., O'Kane, C.J. (1998). A forward genetic screen for neurmuscular development and function in Drosophila melanogaster. The 7th European Symposium on Drosophila Neurobiology. September 6th to September 10th, University of Warwick, Coventry, UK.

Sweeney, S.T., Auburn, R.P., Deak, P., O'Kane, C.J. (1997). Genetics of the brain dead: a mutant screen for defects in synaptic function and development in Drosophila melanogaster. Instituto Juan March de Estudios e Investigaciones workshop on membrane fusion. May 26th to May 28th, Universidad de Sevilla, Madrid, Spain.

Sweeney, S.T., Auburn, R.P., Deak, P., Glover, D., O'Kane, C.J. (1997). Screening for embryonic paralytic mutants. Cold Spring Harbor Laboratory Meeting on Neurobiology of Drosophila. September 24th to September 28th, Cold Spring Harbor, New York, USA. (FlyBase)