Perspectives for mass spectrometry and functional proteomics.

Permission to reproduce this table online was not granted by the copyright holder. Readers are kindly asked to refer to the printed version.

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[33]  R. Aebersold,et al.  Analysis of membrane proteins by two‐dimensional electrophoresis: Comparison of the proteins extracted from normal or Plasmodium falciparum ‐ infected erythrocyte ghosts , 1999, Electrophoresis.

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[39]  Z. Zhang,et al.  De novo peptide sequencing by two-dimensional fragment correlation mass spectrometry. , 2000, Analytical chemistry.

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[48]  J. Whitelegge,et al.  Electrospray‐ionization mass spectrometry of intact intrinsic membrane proteins , 1998, Protein science : a publication of the Protein Society.

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[50]  M. Münchbach,et al.  Proteome analysis of heat shock protein expression in Bradyrhizobium japonicum. , 1999, European journal of biochemistry.

[51]  U. Hellman,et al.  Improvement of an "In-Gel" digestion procedure for the micropreparation of internal protein fragments for amino acid sequencing. , 1995, Analytical biochemistry.

[52]  R. Henderson,et al.  Identification of a peptide recognized by five melanoma-specific human cytotoxic T cell lines. , 1994, Science.

[53]  M E Belov,et al.  Zeptomole-sensitivity electrospray ionization--Fourier transform ion cyclotron resonance mass spectrometry of proteins. , 2000, Analytical chemistry.

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[55]  Pavel A. Pevzner,et al.  De Novo Peptide Sequencing via Tandem Mass Spectrometry , 1999, J. Comput. Biol..

[56]  R. Stoffel,et al.  Phosphatidylinositol 4,5-Bisphosphate (PIP2)-enhanced G Protein-coupled Receptor Kinase (GRK) Activity: LOCATION, STRUCTURE, AND REGULATION OF THE PIP2 BINDING SITE DISTINGUISHES THE GRK SUBFAMILIES* , 1996, The Journal of Biological Chemistry.

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[59]  G. Lubec,et al.  Two‐dimensional map of human brain proteins , 1999, Electrophoresis.

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[61]  Todd Smith,et al.  The Prostate Expression Database (PEDB): status and enhancements in 2000 , 2000, Nucleic Acids Res..

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[64]  R. Aebersold,et al.  Microfabricated device coupled with an electrospray ionization quadrupole time-of-flight mass spectrometer: protein identifications based on enhanced-resolution mass spectrometry and tandem mass spectrometry data. , 1998, Rapid communications in mass spectrometry : RCM.

[65]  S. Gygi,et al.  Absolute quantitation of 2-D protein spots. , 1999, Methods in molecular biology.

[66]  R. Lefkowitz,et al.  Identification of the G Protein-coupled Receptor Kinase Phosphorylation Sites in the Human β2-Adrenergic Receptor* , 1996, The Journal of Biological Chemistry.

[67]  H J Mollenkopf,et al.  A dynamic two‐dimensional polyacrylamide gel electrophoresis database: The mycobacterial proteome via Internet , 1999, Electrophoresis.

[68]  M. Busman,et al.  Mass spectrometric analysis of integral membrane proteins: Application to complete mapping of bacteriorhodopsins and rhodopsin , 1998, Protein science : a publication of the Protein Society.

[69]  M. Wilm,et al.  Error-tolerant identification of peptides in sequence databases by peptide sequence tags. , 1994, Analytical chemistry.

[70]  S. Stevens,et al.  Purification of the yeast U4/U6.U5 small nuclear ribonucleoprotein particle and identification of its proteins. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[71]  A Bairoch,et al.  High-throughput mass spectrometric discovery of protein post-translational modifications. , 1999, Journal of molecular biology.

[72]  M J O'Hare,et al.  Proteomic definition of normal human luminal and myoepithelial breast cells purified from reduction mammoplasties. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[73]  Marc R. Wilkins,et al.  Proteome Research: New Frontiers in Functional Genomics , 1997, Principles and Practice.

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[78]  V Hatzimanikatis,et al.  Proteomics: Theoretical and Experimental Considerations , 1999, Biotechnology progress.

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[98]  T. Kirley.  Reduction and fluorescent labeling of cyst(e)ine-containing proteins for subsequent structural analyses. , 1989, Analytical biochemistry.

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[100]  T. Keough,et al.  Sequencing of sulfonic acid derivatized peptides by electrospray mass spectrometry , 2000, Rapid communications in mass spectrometry : RCM.

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[103]  Federico Brianza,et al.  Functional proteomics of signal transduction by membrane receptors , 1999, Electrophoresis.

[104]  M. Mann,et al.  Analysis of receptor signaling pathways by mass spectrometry: identification of vav-2 as a substrate of the epidermal and platelet-derived growth factor receptors. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

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[108]  R D Appel,et al.  Improving protein identification from peptide mass fingerprinting through a parameterized multi‐level scoring algorithm and an optimized peak detection , 1999, Electrophoresis.

[109]  J. Bell,et al.  SR protein kinases: the splice of life. , 1999, Biochemistry and cell biology = Biochimie et biologie cellulaire.

[110]  T. Rabilloud.  Use of thiourea to increase the solubility of membrane proteins in two‐dimensional electrophoresis , 1998, Electrophoresis.

[111]  J. Watson,et al.  Charge derivatization of peptides for analysis by mass spectrometry. , 1998, Mass spectrometry reviews.

[112]  A. Braun,et al.  Structure of the bradykinin B2 receptors' amino terminus. , 1996, Biochemistry.

[113]  J. Vohradský,et al.  Point pattern matching in the analysis of two‐dimensional gel electropherograms , 1999, Electrophoresis.

[114]  Wolfgang Ziegler,et al.  Multiple pathways control protein kinase C phosphorylation , 2000, The EMBO journal.

[115]  K. Palczewski,et al.  Structural and Enzymatic Aspects of Rhodopsin Phosphorylation (*) , 1996, The Journal of Biological Chemistry.

[116]  J. Zeikus,et al.  Evaluation of charge derivatization of a proteolytic protein digest for improved mass spectrometric analysis: de novo sequencing by matrix-assisted laser desorption/ionization post-source decay mass spectrometry. , 1999, Journal of mass spectrometry : JMS.

[117]  T. Rabilloud,et al.  Silver Staining of 2D Electrophoresis Gels. , 2021, Methods in molecular biology.

[118]  Jean-Charles Sanchez,et al.  Two-Dimensional Electrophoresis: The State of the Art and Future Directions , 1997 .

[119]  P. Cao,et al.  Phosphopeptide analysis by on-line immobilized metal-ion affinity chromatography-capillary electrophoresis-electrospray ionization mass spectrometry. , 1999, Journal of chromatography. A.

[120]  Bernhard O. Palsson,et al.  Bioinformatics: What lies beyond bioinformatics? , 1997, Nature Biotechnology.

[121]  H. Niwa,et al.  Phosphopeptide sequencing by in-source decay spectrum in delayed extraction matrix-assisted laser desorption ionization time-of-flight mass spectrometry. , 2000, Analytical biochemistry.

[122]  T. Jukes,et al.  The neutral theory of molecular evolution. , 2000, Genetics.

[123]  S. Gygi,et al.  Correlation between Protein and mRNA Abundance in Yeast , 1999, Molecular and Cellular Biology.

[124]  S. Gygi,et al.  An integrated microfluidics-tandem mass spectrometry system for automated protein analysis. , 1998, Analytical chemistry.

[125]  M. Mann,et al.  A generic strategy to analyze the spatial organization of multi-protein complexes by cross-linking and mass spectrometry. , 2000, Analytical chemistry.

[126]  J. Hacia.  Resequencing and mutational analysis using oligonucleotide microarrays , 1999, Nature Genetics.

[127]  F Hillenkamp,et al.  Analysis of proteins by direct-scanning infrared-MALDI mass spectrometry after 2D-PAGE separation and electroblotting. , 1997, Analytical chemistry.

[128]  A. Simoes-Barbosa,et al.  Solubilization of delipidated macrophage membrane proteins for analysis by two‐dimensional electrophoresis , 2000, Electrophoresis.

[129]  D. Hochstrasser,et al.  Towards an automated approach for protein identification in proteome projects , 1998, Electrophoresis.

[130]  D. Hochstrasser,et al.  Current challenges and future applications for protein maps and post‐translational vector maps in proteome projects , 1996, Electrophoresis.

[131]  Michael E. Cusick,et al.  The Yeast Proteome Database (YPD) and Caenorhabditis elegans Proteome Database (WormPD): comprehensive resources for the organization and comparison of model organism protein information , 2000, Nucleic Acids Res..

[132]  M Gerstein,et al.  Advances in structural genomics. , 1999, Current opinion in structural biology.

[133]  Y. Shiio,et al.  Epitope tagging. , 1995, Methods in enzymology.

[134]  Peter Roepstorff,et al.  Mapping and identification of HeLa cell proteins separated by immobilized pH‐gradient two‐dimensional gel electrophoresis and construction of a two‐dimensional polyacrylamide gel electrophoresis database , 1999, Electrophoresis.

[135]  G. Anderson,et al.  Initial implementation of an electrodynamic ion funnel with fourier transform ion cyclotron resonance mass spectrometry , 2000, Journal of the American Society for Mass Spectrometry.

[136]  S. Steiner,et al.  Expression profiling in toxicology--potentials and limitations. , 2000, Toxicology letters.

[137]  E V Koonin,et al.  Protein fold recognition using sequence profiles and its application in structural genomics. , 2000, Advances in protein chemistry.

[138]  James C. Schaff,et al.  The Virtual Cell , 1998, Pacific Symposium on Biocomputing.

[139]  W. Blackstock,et al.  Proteomics: quantitative and physical mapping of cellular proteins. , 1999, Trends in biotechnology.

[140]  T. Hunkapiller,et al.  Peptide mass maps: a highly informative approach to protein identification. , 1993, Analytical biochemistry.

[141]  R. Aebersold,et al.  Microfabricated polymer devices for automated sample delivery of peptides for analysis by electrospray ionization tandem mass spectrometry. , 1999, Analytical chemistry.

[142]  F. Lottspeich,et al.  Ultraviolet matrix assisted laser desorption ionization‐mass spectrometry of electroblotted proteins , 1996, Electrophoresis.

[143]  D. Hochstrasser,et al.  Preparation and solubilization of body fluids for 2-D. , 1999, Methods in molecular biology.

[144]  M. Mann,et al.  Identifying proteins and post-translational modifications by mass spectrometry. , 1998, Current opinion in structural biology.

[145]  B. Palsson,et al.  Toward Metabolic Phenomics: Analysis of Genomic Data Using Flux Balances , 1999, Biotechnology progress.

[146]  M. Molloy,et al.  Membrane proteins and proteomics: Un amour impossible? , 2000, Electrophoresis.

[147]  Y. Hannun,et al.  Visualization of Dynamic Trafficking of a Protein Kinase C βII/Green Fluorescent Protein Conjugate Reveals Differences in G Protein-coupled Receptor Activation and Desensitization* , 1998, The Journal of Biological Chemistry.

[148]  R. Baserga,et al.  Differentiation and malignant transformation: Two roads diverged in a wood , 1999, Journal of cellular biochemistry.

[149]  D. Fell,et al.  A general definition of metabolic pathways useful for systematic organization and analysis of complex metabolic networks , 2000, Nature Biotechnology.

[150]  Amos Bairoch,et al.  Detailed peptide characterization using PEPTIDEMASS – a World‐Wide‐Web‐accessible tool , 1997, Electrophoresis.

[151]  M. Mann,et al.  Mapping of phosphorylation sites of gel-isolated proteins by nanoelectrospray tandem mass spectrometry: potentials and limitations. , 1999, Analytical chemistry.

[152]  A. Newton,et al.  Regulation of protein kinase C. , 1997, Current opinion in cell biology.

[153]  D. Hochstrasser,et al.  Two‐dimensional gel electrophoresis for proteome projects: The effects of protein hydrophobicity and copy number , 1998, Electrophoresis.

[154]  R. Aebersold,et al.  Nanoflow solvent gradient delivery from a microfabricated device for protein identifications by electrospray ionization mass spectrometry. , 1998, Analytical chemistry.

[155]  E. Marcotte,et al.  Computational genetics: finding protein function by nonhomology methods. , 2000, Current opinion in structural biology.

[156]  V. Regitz-Zagrosek,et al.  A two‐dimensional electrophoresis database of rat heart proteins , 1999, Electrophoresis.

[157]  P. Courchesne,et al.  Identification of proteins by matrix-assisted laser desorption/ionization mass spectrometry using peptide and fragment ion masses. , 1999, Methods in molecular biology.

[158]  F. Neidhardt,et al.  Preparation of Escherichia coli samples for 2-D gel analysis. , 1999, Methods in molecular biology.

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[160]  J R Yates,et al.  Protein structure analysis by mass spectrometry. , 1996, Methods in enzymology.

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[162]  J. Celis,et al.  2D protein electrophoresis: can it be perfected? , 1999, Current opinion in biotechnology.

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[164]  P. Parker,et al.  The extended protein kinase C superfamily. , 1998, The Biochemical journal.

[165]  W. Tansey.  How Cells Use Proteolysis to Control Their Growth , 1999, Molecular medicine.

[166]  J. Pines,et al.  Four-dimensional control of the cell cycle , 1999, Nature Cell Biology.

[167]  A L Burlingame,et al.  Direct mass spectrometric peptide profiling and sequencing of single neurons reveals differential peptide patterns in a small neuronal network. , 1998, Biochemistry.

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[181]  D. Ramkrishna,et al.  Mathematical models of metabolic pathways. , 1999, Current opinion in biotechnology.

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[184]  Annabel E. Todd,et al.  From protein structure to function. , 1999, Current opinion in structural biology.

[185]  Ruedi Aebersold,et al.  High throughput protein characterization by automated reverse‐phase chromatography/electrospray tandem mass spectrometry , 1998, Protein science : a publication of the Protein Society.

[186]  C. Adessi,et al.  Improvement of the solubilization of proteins in two‐dimensional electrophoresis with immobilized pH gradients , 2006, Electrophoresis.

[187]  D. Pappin,et al.  The potential use of laser capture microdissection to selectively obtain distinct populations of cells for proteomic analysis — Preliminary findings , 1999, Electrophoresis.

[188]  Amess,et al.  Proteomics: a major new technology for the drug discovery process. , 1999, Drug discovery today.

[189]  Ting Chen,et al.  Modeling Gene Expression with Differential Equations , 1998, Pacific Symposium on Biocomputing.

[190]  Josette Banroques,et al.  Identification by mass spectrometry and functional analysis of novel proteins of the yeast [U4/U6·U5] tri‐snRNP , 1999, The EMBO journal.

[191]  A. Hinnebusch,et al.  Identification of phosphorylation sites in proteins separated by polyacrylamide gel electrophoresis. , 1998, Analytical chemistry.

[192]  Pierre Thibault,et al.  Rapid and sensitive separation of trace level protein digests using microfabricated devices coupled to a quadrupole ‐ time‐of‐flight mass spectrometer , 2000, Electrophoresis.

[193]  T. Rabilloud.  Solubilization of proteins in 2-D electrophoresis. An outline. , 1999, Methods in molecular biology.

[194]  M. Mann,et al.  Proteomics to study genes and genomes , 2000, Nature.

[195]  P Berndt,et al.  Reliable automatic protein identification from matrix‐assisted laser desorption/ionization mass spectrometric peptide fingerprints , 1999, Electrophoresis.

[196]  Pumin Zhang,et al.  The cell cycle and development: redundant roles of cell cycle regulators. , 1999, Current opinion in cell biology.

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