Cavendish Inference Group, David P. Kreil, Publications

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I am now leading my own Bioinformatics research group at Boku University, Vienna, combining analytical and laboratory work.

Meeting Invitation

We are organizing an Intl. Workshop on Probabilistic Modelling in Computational Biology in affiliation with ISMB/ECCB 2007 in Vienna this year and much look forward to seeing you there!

Work with the Inference Group

D. P. Kreil and D. J. C. MacKay, Reproducibility Assessment of Independent Component Analysis of Expression Ratios from DNA microarrays
- Published in print by Comparative and Functional Genomics (2003), 4(3), pp. 300-317. (now available free of charge!) [ bibtex ]
- Online Supplement, Revision 1.2 (Jul 22, 2003). [ 2.1MB pdf | 1.7MB ps.gz | 38KB djvu ]
- Preprint, Revision 1.2 (Mar 30, 2003). [ 3.2MB pdf | 2.1MB ps.gz | 262KB djvu ] lean: (djvu/psnup) [ 1.6MB pdf | 508KB ps.gz | 205KB djvu ]
S. A. Saidi, C. M. Holland, D. P. Kreil, D. J. C. MacKay, D. S. Charnock-Jones, C. G. Print, and S. K. Smith, Independent Component Analysis of Microarray Data in the Study of Endometrial Cancer
- Published in print by Oncogene (2004), 23(39), 6677-6683 (requires subscription)
- Online Supplement (maintained by Sam Saidi)
- Preprint

Other papers

This list is currently not maitained. For new papers, please see the PubMed repository. Here is a link to my papers and a link to papers of members of my group.

D. P. Kreil, R. R. Russell, and S. Russell, Microarray Oligonucleotide-probes
- Published in print by Methods in Enzymology (2006), 410(1), pp. 73-98. (full text not available online)
- Preprint on request.
- Online Supplement, Revision 16 Aug, 2006. [ 151kB pdf ]
T. Kanno, B. Huettel, M. F. Mette, W. Aufsatz, E. Jaligot, L. Daxinger, D. P. Kreil, M. Matzke, and A. J. Matzke, Atypical RNA polymerase subunits required for RNA-directed DNA methylation
- Published in print by Nature Genetics (2005), 37, pp. 761-765.
- Preprint on request.
R. P. Auburn, D. P. Kreil, L. A. Meadows, B. Fischer, S. Sevillano Matilla, and S. Russell, Robotic spotting of cDNA and oligonucleotide microarrays
- Published in print by Trends in Biotechnology (2005), 23(7), pp. 374-379.
- Preprint on request.
D. P. Kreil and R. R. Russell, There is no silver bullet – a guide to low-level data transforms and normalisation methods for microarray data
- Published in print by Briefings in Bioinformatics (2005), 6(1), pp. 86-97. (full text not available online)
- Preprint [242kB pdf]
A. Woolfson, J. Stebbing, B. Tom, K. Stoner, W. Gilks, D. P. Kreil, S. Mulligan, L. Belov, J. Chrisp, W. Errington, A. Wildfire, W. Erber, M. Bower, B. Gazzard, R. Christopherson, and M. Scott, Conservation of unique cell surface CD antigen mosaics in HIV-1 infected individuals
- Published in print by Blood (2005), 106(3), pp. 1003-1007.
- Preprint on request.
R. P. Auburn, D. P. Kreil, L. A. Meadows, B. Fischer, S. Sevillano Matilla, and S. Russell, Robotic spotting of cDNA and oligonucleotide microarrays
- Published in print by Trends in Biotechnology (2005), 23(7), pp. 374-379.
- Preprint [132kB pdf]
- Supplement [49kB pdf]
D. P. Kreil, N. A. Karp, and K. S. Lilley (2004), DNA microarray normalization methods can remove bias from differential protein expression calls in 2-D difference gel electrophoresis
- Published in print by Bioinformatics (2004), 20(13), pp. 2026-2034. (free reprint / full text access)
- Online Supplement, Revision 17 Feb, 2004. [ HTML index ]
N. A. Karp, D. P. Kreil, and K. S. Lilley (2004) Determining a significant change in protein expression with DeCyder for pair-wise comparisons using 2-D difference gel electrophoresis
- Published in print by Proteomics (2004), 4(5), pp. 1421-1432. (requires subscription)
- Preprint [675kB pdf]
T. Kanno, M. F. Mette, D. P. Kreil, W. Aufsatz, M. Matzke, and A. J. Matzke, Involvement of Putative SNF2 Chromatin Remodeling Protein DRD1 in RNA-Directed DNA Methylation
- Published in print by Current Biology (2004), 14(9), pp. 801-805.
- Online Supplement [421kB pdf]
- Preprint [3.3MB pdf]
- Recommended ("must read") by the Faculty of 1000. (requires subscription)
- Editor's choice in Science 14, 930. (requires subscription)
D. P. Kreil and C. A. Ouzounis, Comparison of sequence masking algorithms and the detection of biased protein sequence regions
- Published in print by Bioinformatics (2003), 19(13), pp. 1672-1681. (free reprint / full text access)
- Online Supplement, Revision 1.2 (Jul 22, 2003). [ 184kB pdf | 234kB ps.gz | 89KB djvu ]
D. P. Kreil and C. A. Ouzounis (2001), Identification of thermophilic species by the amino acid compositions deduced from their genomes, Nucleic Acids Research 29(7), 1608-1615. (free reprint / full text access)
D. P. Kreil and G. Kreil (2000), Asparagine repeats are rare in mammalian proteins, Trends Biochem. Sciences 25(6), 270-271. (reprint via ScienceDirect, or drop me a line)
V. J. Promponas, A. J. Enright, S. Tsoka, D. P. Kreil, C. Leroy, S. Hamodrakas, C. Sander, and C. A. Ouzounis (2000), CAST: an iterative algorithm for the Complexity Analysis of Sequence Tracts, Bioinformatics 16(10), 915-922. (free reprint / full text access)
D. P. Kreil and T. Etzold (1999), DATABANKS - a catalogue database of molecular biological databanks, Trends Biochem. Sciences 24(4), 155-157. (reprint via ScienceDirect, or drop me a line)

Books

M. Matzke, T. Kanno, B. Hüttel, E. Jaligot, M. F. Mette, D. P. Kreil, L. Daxinger, P. Rovina, W. Aufsatz, and A. J. M. Matzke (2005), RNA-directed DNA methylation in