PROTEOMICS

Cover image for Vol. 8 Issue 6

Special Issue: HUMAN BRAIN PROTEOMICS

No. 6 March 2008

Volume 8, Issue 6

Pages 1115–1323

Issue edited by: Michael Hamacher, Friedrich Herberg, Marius Ueffing, Helmut E. Meyer

  1. Cover Picture

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Cover Picture: Proteomics 6/2008

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200890018

  2. In this issue

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. In this issue: Proteomics 6/2008

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200890019

  3. Contents

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Contents: Proteomics 6/2008

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200890020

  4. From Our Sister Journal

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
  5. Editorial

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Seven successful years of Omics research: The Human Brain Proteome Project within the National German Research Network (NGFN) (pages 1116–1117)

      Michael Hamacher, Friedrich Herberg, Marius Ueffing and Helmut E. Meyer

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200890017

  6. Animal Proteomics

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Inside SMP proteomics: Six years German Human Brain Proteome Project (HBPP) – A summary (pages 1118–1128)

      Michael Hamacher, Tanja Hardt, Andre van Hall, Christian Stephan, Katrin Marcus and Helmut E. Meyer

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700980

  7. Bioinformatics

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. An easy-to-use Decoy Database Builder software tool, implementing different decoy strategies for false discovery rate calculation in automated MS/MS protein identifications (pages 1129–1137)

      Kai A. Reidegeld, Martin Eisenacher, Michael Kohl, Daniel Chamrad, Gerhard Körting, Martin Blüggel, Helmut E. Meyer and Christian Stephan

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200701073

  8. Cell Biology

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Analysis of the experimental detection of central nervous system-related genes in human brain and cerebrospinal fluid datasets (pages 1138–1148)

      Michael Mueller, Juan Antonio Vizcaíno, Philip Jones, Richard Côté, David Thorneycroft, Rolf Apweiler, Henning Hermjakob and Lennart Martens

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700761

  9. Bioinformatics

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Island clustering analysis for the comparison of the membrane and the soluble protein fractions of human brain proteome (pages 1149–1161)

      Kyung-Hoon Kwon, Gun Wook Park, Jin Young Kim, Sang Kwang Lee, Jeong Hwa Lee, Young Hye Kim, Se-Young Kim, Young Mok Park and Jong Shin Yoo

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700756

    2. BrainProfileDB – a platform for integration of functional genomics data (pages 1162–1164)

      Johannes Schuchhardt, Alexander Glintschert, Daniela Hartl, Martin Irmler, Johannes Beckers, Christian Stephan, Katrin Marcus, Joachim Klose, Helmut E. Meyer and Arif Malik

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700743

  10. Systems Biology

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. An approach to handling and interpretation of ambiguous data in transcriptome and proteome comparisons (pages 1165–1169)

      Martin Irmler, Daniela Hartl, Thorsten Schmidt, Johannes Schuchhardt, Christiane Lach, Helmut E. Meyer, Martin Hrabé de Angelis, Joachim Klose and Johannes Beckers

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700741

  11. Animal Proteomics

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Interlocking transcriptomics, proteomics and toponomics technologies for brain tissue analysis in murine hippocampus (pages 1170–1178)

      Marcus Bode, Martin Irmler, Manuela Friedenberger, Caroline May, Klaus Jung, Christian Stephan, Helmut E. Meyer, Christiane Lach, Reyk Hillert, Andreas Krusche, Johannes Beckers, Katrin Marcus and Walter Schubert

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700742

  12. Cell Biology

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Fluorescence and bioluminescence procedures for functional proteomics (pages 1179–1196)

      Anke Prinz, Gregor Reither, Mandy Diskar and Carsten Schultz

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700802

  13. Technology

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. The myth of automated, high-throughput two-dimensional gel analysis (pages 1197–1203)

      Brittan N. Clark and Howard B. Gutstein

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700709

    2. Towards multidimensional liquid chromatography separation of proteins using fluorescence and isotope-coded protein labelling for quantitative proteomics (pages 1204–1211)

      Florian Tribl, Christiane Lohaus, Tanja Dombert, Elmar Langenfeld, Heike Piechura, Bettina Warscheid, Helmut E. Meyer and Katrin Marcus

      Version of Record online: 13 FEB 2008 | DOI: 10.1002/pmic.200700736

    3. Systematic interpretation of cyclic nucleotide binding studies using KinetXBase (pages 1212–1220)

      Sonja Schweinsberg, Daniela Moll, Nicole C. G. Burghardt, Claudia Hahnefeld, Frank Schwede, Bastian Zimmermann, Stephan Drewianka, Lars Werner, Frank Kleinjung, Hans-Gottfried Genieser, Johannes Schuchhardt and Friedrich W. Herberg

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200700731

  14. Cell Biology

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Proteasome subunit proteins and neuropathology in tauopathies and synucleinopathies: Consequences for proteomic analyses (pages 1221–1236)

      Mohamed Zouambia, David F. Fischer, Barbara Hobo, Rob A. I. De Vos, Elly M. Hol, Ian M. Varndell, Paul W. Sheppard and Fred W. Van Leeuwen

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700679

    2. Leukemia inhibitory factor induces an antiapoptotic response in oligodendrocytes through Akt-phosphorylation and up-regulation of 14-3-3 (pages 1237–1247)

      Helena Slaets, Debora Dumont, Joris Vanderlocht, Jean-Paul Noben, Pierre Leprince, Johan Robben, Jerome Hendriks, Piet Stinissen and Niels Hellings

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200700641

  15. Systems Biology

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Systematic gene expression profiling of mouse model series reveals coexpressed genes (pages 1248–1256)

      Marion Horsch, Sandra Schädler, Valerie Gailus-Durner, Helmut Fuchs, Helmut Meyer, Martin Hrabé de Angelis and Johannes Beckers

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200700725

  16. Cell Biology

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Transcriptome and proteome analysis of early embryonic mouse brain development (pages 1257–1265)

      Daniela Hartl, Martin Irmler, Irmgard Römer, Michael T. Mader, Lei Mao, Claus Zabel, Martin Hrabé de Angelis, Johannes Beckers and Joachim Klose

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700724

  17. Animal Proteomics

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Proteome analysis of ventral midbrain in MPTP-treated normal and L1cam transgenic mice (pages 1266–1275)

      Madeleine Diedrich, Lei Mao, Christian Bernreuther, Claus Zabel, Grit Nebrich, Ralf Kleene and Joachim Klose

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200700754

  18. Cell Biology

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. Assessing quantitative post-mortem changes in the gray matter of the human frontal cortex proteome by 2-D DIGE (pages 1276–1291)

      Anna Crecelius, Andrea Götz, Thomas Arzberger, Thomas Fröhlich, Georg J. Arnold, Isidro Ferrer and Hans A. Kretzschmar

      Version of Record online: 18 FEB 2008 | DOI: 10.1002/pmic.200700728

  19. Technology

    1. Top of page
    2. Cover Picture
    3. In this issue
    4. Contents
    5. From Our Sister Journal
    6. Editorial
    7. Animal Proteomics
    8. Bioinformatics
    9. Cell Biology
    10. Bioinformatics
    11. Systems Biology
    12. Animal Proteomics
    13. Cell Biology
    14. Technology
    15. Cell Biology
    16. Systems Biology
    17. Cell Biology
    18. Animal Proteomics
    19. Cell Biology
    20. Technology
    1. A fusion PET–MRI system with a high-resolution research tomograph-PET and ultra-high field 7.0 T-MRI for the molecular-genetic imaging of the brain (pages 1302–1323)

      Zang-Hee Cho, Young-Don Son, Hang-Keun Kim, Kyoung-Nam Kim, Se-Hong Oh, Jae-Yong Han, In-Ki Hong and Young-Bo Kim

      Version of Record online: 14 MAR 2008 | DOI: 10.1002/pmic.200700744

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