David P Kreil

Summary

Affiliation: University of Cambridge
Country: UK

Publications

  1. ncbi Microarray oligonucleotide probes
    David P Kreil
    Department of Biotechnology, University of Natural Resources and Applied Life Sciences, Vienna, Austria
    Methods Enzymol 410:73-98. 2006
  2. ncbi Expansins are involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana
    Krzysztof Wieczorek
    Institute of Plant Protection, Department of Applied Plant Sciences and Plant Biotechnology, University of Natural Resources and Applied Life Sciences, Vienna, Austria
    Plant J 48:98-112. 2006
  3. ncbi DNA microarray normalization methods can remove bias from differential protein expression analysis of 2D difference gel electrophoresis results
    David P Kreil
    Department of Genetics Inference Group Cavendish Laboratory, University of Cambridge, Cambridge, UK
    Bioinformatics 20:2026-34. 2004
  4. ncbi There is no silver bullet--a guide to low-level data transforms and normalisation methods for microarray data
    David P Kreil
    Dept of Genetics, Univ of Cambridge, Downing Street, Cambridge CB2 3EH, UK
    Brief Bioinform 6:86-97. 2005
  5. ncbi Comparison of sequence masking algorithms and the detection of biased protein sequence regions
    David P Kreil
    Department of Genetics Inference Group Cavendish Laboratory, University of Cambridge, Cambridge, UK
    Bioinformatics 19:1672-81. 2003
  6. ncbi Determining a significant change in protein expression with DeCyder during a pair-wise comparison using two-dimensional difference gel electrophoresis
    Natasha A Karp
    Department of Biochemistry, University of Cambridge, England, UK
    Proteomics 4:1421-32. 2004
  7. ncbi Conservation of unique cell-surface CD antigen mosaics in HIV-1-infected individuals
    Adrian Woolfson
    University of Cambridge School of Clinical Medicine, Addenbrooke s Hospital, Hills Road, Box 111, Cambridge CB2 2SP, United Kingdom
    Blood 106:1003-7. 2005
  8. ncbi Independent component analysis of microarray data in the study of endometrial cancer
    Samir A Saidi
    Department of Obstetrics and Gynaecology, University of Cambridge, Cambridge CB2 2SW, UK
    Oncogene 23:6677-83. 2004
  9. ncbi Robotic spotting of cDNA and oligonucleotide microarrays
    Richard P Auburn
    Department of Genetics, University of Cambridge, Downing Street, Cambridge CB2 3EH, UK
    Trends Biotechnol 23:374-9. 2005
  10. ncbi Effects of aneuploidy on genome structure, expression, and interphase organization in Arabidopsis thaliana
    Bruno Huettel
    Gregor Mendel Institute of Molecular Plant Biology, Austrian Academy of Sciences, Vienna, Austria
    PLoS Genet 4:e1000226. 2008

Collaborators

Detail Information

Publications12

  1. ncbi Microarray oligonucleotide probes
    David P Kreil
    Department of Biotechnology, University of Natural Resources and Applied Life Sciences, Vienna, Austria
    Methods Enzymol 410:73-98. 2006
    ..Finally, this chapter notes and discusses an emerging trend in recent computational work toward a focus on signal interpretation rather than probe sequence design...
  2. ncbi Expansins are involved in the formation of nematode-induced syncytia in roots of Arabidopsis thaliana
    Krzysztof Wieczorek
    Institute of Plant Protection, Department of Applied Plant Sciences and Plant Biotechnology, University of Natural Resources and Applied Life Sciences, Vienna, Austria
    Plant J 48:98-112. 2006
    ..We conclude that syncytium formation involves the specific regulation of expansin genes, indicating that the encoded expansins take part in cell growth and cell wall disassembly during syncytium formation...
  3. ncbi DNA microarray normalization methods can remove bias from differential protein expression analysis of 2D difference gel electrophoresis results
    David P Kreil
    Department of Genetics Inference Group Cavendish Laboratory, University of Cambridge, Cambridge, UK
    Bioinformatics 20:2026-34. 2004
    ..To address this need, we assessed a series of same-same comparisons, evaluating how random experimental variance influenced differential expression analysis...
  4. ncbi There is no silver bullet--a guide to low-level data transforms and normalisation methods for microarray data
    David P Kreil
    Dept of Genetics, Univ of Cambridge, Downing Street, Cambridge CB2 3EH, UK
    Brief Bioinform 6:86-97. 2005
    ..In this tutorial paper we review the problem and a selection of solutions, explaining the basic principles behind normalisation procedures and providing guidance for their application...
  5. ncbi Comparison of sequence masking algorithms and the detection of biased protein sequence regions
    David P Kreil
    Department of Genetics Inference Group Cavendish Laboratory, University of Cambridge, Cambridge, UK
    Bioinformatics 19:1672-81. 2003
    ..This is not the case for sequence bias, which hence seems to be a genuinely biological phenomenon in contrast to patches of low complexity...
  6. ncbi Determining a significant change in protein expression with DeCyder during a pair-wise comparison using two-dimensional difference gel electrophoresis
    Natasha A Karp
    Department of Biochemistry, University of Cambridge, England, UK
    Proteomics 4:1421-32. 2004
    ..When combined with a standardizing function, this allowed gel-independent thresholds for 90% confidence. The new approach, detailed here, represents a method to greatly improve the success of DIGE data analysis...
  7. ncbi Conservation of unique cell-surface CD antigen mosaics in HIV-1-infected individuals
    Adrian Woolfson
    University of Cambridge School of Clinical Medicine, Addenbrooke s Hospital, Hills Road, Box 111, Cambridge CB2 2SP, United Kingdom
    Blood 106:1003-7. 2005
    ..Their invariant nature indicates an irreversible component to retroviral infection and suggests the utility of CD antigen expression patterns in other disease settings...
  8. ncbi Independent component analysis of microarray data in the study of endometrial cancer
    Samir A Saidi
    Department of Obstetrics and Gynaecology, University of Cambridge, Cambridge CB2 2SW, UK
    Oncogene 23:6677-83. 2004
    ..In particular, several genes involved in lipid metabolism that are differentially expressed in endometrial carcinoma were only found using this method. This report highlights the potential of ICA in the analysis of microarray data...
  9. ncbi Robotic spotting of cDNA and oligonucleotide microarrays
    Richard P Auburn
    Department of Genetics, University of Cambridge, Downing Street, Cambridge CB2 3EH, UK
    Trends Biotechnol 23:374-9. 2005
    ..Advancing towards the ultimate goal of delivering calibrated, truly quantitative gene-expression measurements on a genomic scale, microarray technology remains at the forefront of post-genomic systems biology...
  10. ncbi Effects of aneuploidy on genome structure, expression, and interphase organization in Arabidopsis thaliana
    Bruno Huettel
    Gregor Mendel Institute of Molecular Plant Biology, Austrian Academy of Sciences, Vienna, Austria
    PLoS Genet 4:e1000226. 2008
    ....
  11. ncbi Involvement of putative SNF2 chromatin remodeling protein DRD1 in RNA-directed DNA methylation
    Tatsuo Kanno
    Gregor Mendel Institute of Molecular Plant Biology, Austrian Academy of Sciences, UZAII, Althanstrasse 14, A 1090 Vienna, Austria
    Curr Biol 14:801-5. 2004
    ..DRD1 is the first SNF2-like protein implicated in an RNA-guided, epigenetic modification of the genome...
  12. ncbi Novel insights into the unfolded protein response using Pichia pastoris specific DNA microarrays
    Alexandra Graf
    Institute of Applied Microbiology, Department of Biotechnology, University of Natural Resources and Applied Life Sciences Vienna, Muthgasse 18, 1190 Vienna, Austria
    BMC Genomics 9:390. 2008
    ..pastoris and analyzed the unfolded protein response (UPR) in this yeast species, as compared to S. cerevisiae...