R J Simpson

Summary

Affiliation: Ludwig Institute for Cancer Research
Country: Australia

Publications

  1. ncbi Cloning and sequence analysis of a cDNA for rat epidermal growth factor
    D S Dorow
    Department of Pathology and Immunology, Monash University, Prahran, Victoria, Australia
    Nucleic Acids Res 16:9338. 1988
  2. ncbi Proteomics-driven cancer biomarker discovery: looking to the future
    Richard J Simpson
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3055, Australia
    Curr Opin Chem Biol 12:72-7. 2008
  3. ncbi Proteomic analysis of the human colon carcinoma cell line (LIM 1215): development of a membrane protein database
    R J Simpson
    Ludwig Institute for Cancer Research and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Electrophoresis 21:1707-32. 2000
  4. ncbi Exosomes: proteomic insights and diagnostic potential
    Richard J Simpson
    Ludwig Institute for Cancer Research, PO Box 2008, Royal Melbourne Hospital, Parkville, Victoria 3050, Australia
    Expert Rev Proteomics 6:267-83. 2009
  5. ncbi Proteomic profiling of exosomes: current perspectives
    Richard J Simpson
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research, Royal Melbourne Hospital, Parkville, Victoria, Australia
    Proteomics 8:4083-99. 2008
  6. ncbi Cancer proteomics: from signaling networks to tumor markers
    R J Simpson
    Laboratory, Ludwig Institute for Cancer Research Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Trends Biotechnol 19:S40-8. 2001
  7. ncbi Micro-sequencing strategies for the human A33 antigen, a novel surface glycoprotein of human gastrointestinal epithelium
    R L Moritz
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Melbourne, Victoria, Australia
    J Chromatogr A 798:91-101. 1998
  8. ncbi Two-dimensional electrophoretic analysis of mixed lineage kinase 2 N-terminal domain binding proteins
    R K Rasmussen
    Trescowthick Research Center, Peter MacCallum Cancer Institute, Melbourne, Victoria, Australia
    Electrophoresis 19:809-17. 1998
  9. ncbi A two-dimensional gel database of human colon carcinoma proteins
    H Ji
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne Branch, Parkville, Victoria, Australia
    Electrophoresis 18:605-13. 1997
  10. ncbi Interleukin-6: structure-function relationships
    R J Simpson
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Melbourne Tumour Biology Branch, Parkville, Victoria, Australia
    Protein Sci 6:929-55. 1997

Detail Information

Publications81

  1. ncbi Cloning and sequence analysis of a cDNA for rat epidermal growth factor
    D S Dorow
    Department of Pathology and Immunology, Monash University, Prahran, Victoria, Australia
    Nucleic Acids Res 16:9338. 1988
  2. ncbi Proteomics-driven cancer biomarker discovery: looking to the future
    Richard J Simpson
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3055, Australia
    Curr Opin Chem Biol 12:72-7. 2008
    ..A better understanding of the limitations of blood for comparative protein profiling and a better appreciation of the advantages of cancer tissue or cancer cell secretomes have the potential to greatly enhance the progress...
  3. ncbi Proteomic analysis of the human colon carcinoma cell line (LIM 1215): development of a membrane protein database
    R J Simpson
    Ludwig Institute for Cancer Research and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Electrophoresis 21:1707-32. 2000
    ..The membrane protein database may be accessed via the World Wide Web (WWW) at http://www.ludwig. edu.au/jpsl/jpslhome.html...
  4. ncbi Exosomes: proteomic insights and diagnostic potential
    Richard J Simpson
    Ludwig Institute for Cancer Research, PO Box 2008, Royal Melbourne Hospital, Parkville, Victoria 3050, Australia
    Expert Rev Proteomics 6:267-83. 2009
    ..New advances in proteomic methods, and both mass spectrometry hardware and informatics tools will be covered briefly...
  5. ncbi Proteomic profiling of exosomes: current perspectives
    Richard J Simpson
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research, Royal Melbourne Hospital, Parkville, Victoria, Australia
    Proteomics 8:4083-99. 2008
    ..The present review aims to summarize the physical properties that define exosomes as specific cell-type secreted membrane vesicles...
  6. ncbi Cancer proteomics: from signaling networks to tumor markers
    R J Simpson
    Laboratory, Ludwig Institute for Cancer Research Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Trends Biotechnol 19:S40-8. 2001
    ....
  7. ncbi Micro-sequencing strategies for the human A33 antigen, a novel surface glycoprotein of human gastrointestinal epithelium
    R L Moritz
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Melbourne, Victoria, Australia
    J Chromatogr A 798:91-101. 1998
    ..This amino acid sequence information has facilitated the cloning and subsequent sequencing of a cDNA for the A33 antigen which demonstrates that it is a novel human cell surface molecule of the immunoglobulin superfamily...
  8. ncbi Two-dimensional electrophoretic analysis of mixed lineage kinase 2 N-terminal domain binding proteins
    R K Rasmussen
    Trescowthick Research Center, Peter MacCallum Cancer Institute, Melbourne, Victoria, Australia
    Electrophoresis 19:809-17. 1998
    ..The 31,500 protein has been identified as prohibitin, a protein that has been implicated in both signal transduction and cell cycle arrest...
  9. ncbi A two-dimensional gel database of human colon carcinoma proteins
    H Ji
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne Branch, Parkville, Victoria, Australia
    Electrophoresis 18:605-13. 1997
    ..These data, and descriptions of the micro-techniques employed in this laboratory for identifying 2-DE resolved proteins can be accessed via the internet URL: http:(/)/www.ludwig.edu.au...
  10. ncbi Interleukin-6: structure-function relationships
    R J Simpson
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Melbourne Tumour Biology Branch, Parkville, Victoria, Australia
    Protein Sci 6:929-55. 1997
    ..A tentative model for the IL-6 hexameric receptor ligand complex is presented and discussed with respect to the mechanism of action of the other members of the IL-6 family of cytokines...
  11. ncbi The immunoglobulin-like module of gp130 is required for signaling by interleukin-6, but not by leukemia inhibitory factor
    A Hammacher
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne Tumour Biology Branch and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3050, Australia
    J Biol Chem 273:22701-7. 1998
    ....
  12. ncbi Structural characterization of a murine myeloid leukaemia inhibitory factor
    R J Simpson
    Ludwig Institute for Cancer Research Melbourne Tumour Biology Branch Royal Melbourne Hospital, Victoria, Australia
    Eur J Biochem 175:541-7. 1988
    ..The protein sequence data reported here indicate three sites of post-translational modification (N-linked glycosylation)...
  13. ncbi Continuous free-flow electrophoresis separation of cytosolic proteins from the human colon carcinoma cell line LIM 1215: a non two-dimensional gel electrophoresis-based proteome analysis strategy
    P Hoffmann
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Proteomics 1:807-18. 2001
    ..The JPSL proteome database can be accessed through the World Wide Web (WWW) network (http://www.ludwig.edu.au/jpsl/jpslhome.html)...
  14. ncbi Two-dimensional electrophoretic analysis of human breast carcinoma proteins: mapping of proteins that bind to the SH3 domain of mixed lineage kinase MLK2
    R K Rasmussen
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Parkville, Victoria, Australia
    Electrophoresis 18:588-98. 1997
    ..ludwig.edu.au/www/jpsl/jpslhome.htm l)...
  15. ncbi The single mutation Phe173 --> Ala induces a molten globule-like state in murine interleukin-6
    J M Matthews
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne Tumour Biology Branch, P O Box 2008, Royal Melbourne Hospital, Parkville 3050, Victoria, Australia
    Biochemistry 39:1942-50. 2000
    ..By analogy with human IL-6, Phe173 in DeltaN22mIL-6 makes multiple interhelical interactions, the removal of which appear to be sufficient to induce a molten globule-like conformation...
  16. ncbi The conserved SOCS box motif in suppressors of cytokine signaling binds to elongins B and C and may couple bound proteins to proteasomal degradation
    J G Zhang
    Walter and Eliza Hall Institute of Medical Research and the Cooperative Research Centre for Cellular Growth Factors, P O Royal Melbourne Hospital, Victoria 3050, Australia
    Proc Natl Acad Sci U S A 96:2071-6. 1999
    ..Analogous to the family of F-box-containing proteins, it appears that the SOCS proteins may act as adaptor molecules that target activated cell signaling proteins to the protein degradation pathway...
  17. ncbi Fabrication of stable packed capillary reversed-phase columns for protein structural analysis
    D Tong
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne Branch, Parkville, Victoria, Australia
    J Protein Chem 16:425-31. 1997
    ....
  18. ncbi Disulfide bond structure and N-glycosylation sites of the extracellular domain of the human interleukin-6 receptor
    A R Cole
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne Tumour Biology Branch and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3050, Australia
    J Biol Chem 274:7207-15. 1999
    ..Of the four potential N-glycosylation sites, carbohydrate moieties were identified on Asn36, Asn74, and Asn202, but not on Asn226...
  19. ncbi Identification of DIABLO, a mammalian protein that promotes apoptosis by binding to and antagonizing IAP proteins
    A M Verhagen
    The Walter and Eliza Hall Institute of Medical Research, Post Office Royal Melbourne Hospital, Victoria, Australia
    Cell 102:43-53. 2000
    ..As transfection of cells with DIABLO was able to counter the protection afforded by MIHA against UV irradiation, DIABLO may promote apoptosis by binding to IAPs and preventing them from inhibiting caspases...
  20. ncbi Determination of the disulfide structure and N-glycosylation sites of the extracellular domain of the human signal transducer gp130
    R L Moritz
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne Tumor Biology Branch and the Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3050, Australia
    J Biol Chem 276:8244-53. 2001
    ..Furthermore, we postulate that domain 5 may play a role in the disulfide-linked homodimerization and activation process of gp130...
  21. ncbi Ligand-specific utilization of the extracellular membrane-proximal region of the gp130-related signalling receptors
    A Hammacher
    Ludwig Institute for Cancer Research, Royal Melbourne Hospital, Victoria 3050, Australia
    Biochem J 345:25-32. 2000
    ....
  22. ncbi Identification, purification, and characterization of a soluble interleukin (IL)-13-binding protein. Evidence that it is distinct from the cloned Il-13 receptor and Il-4 receptor alpha-chains
    J G Zhang
    Walter and Eliza Hall Institute of Medical Research and the Cooperative Research Centre for Cellular Growth Factors, P O Royal Melbourne Hospital, Victoria 3050, Australia
    J Biol Chem 272:9474-80. 1997
    ..Finally, unlike the cloned receptor, the IL-13BP acts as a potent inhibitor of IL-13 binding to its cell surface receptor, raising the possibility that it may be used to modulate the effects of IL-13 in vivo...
  23. ncbi The disulfide bond arrangement of leukemia inhibitory factor: homology to oncostatin M and structural implications
    N A Nicola
    Walter and Eliza Hall Institute of Medical Research, Royal Melbourne Hospital, Parkville, Victoria, Australia
    Biochem Biophys Res Commun 190:20-6. 1993
    ..The spatial organization of the cysteine residues in the predicted four alpha-helical bundle structure of LIF (Bazan, Neuron 7,197;1991) is compatible with these disulfide assignments...
  24. ncbi Structural characterisation of native and recombinant forms of the neurotrophic cytokine MK
    L Fabri
    Melbourne Tumour Biology Branch, Ludwig Institute for Cancer Research Melbourne Branch, Royal Melbourne Hospital, Victoria, Australia
    J Chromatogr 646:213-25. 1993
    ..The disulphide bond assignment of MK is C12-C36, C20-C45, C27-C49, C59-C91 and C69-C101, and is equivalent to that of PTN...
  25. ncbi Murine hybridoma/plasmacytoma growth factor. Complete amino-acid sequence and relation to human interleukin-6
    R J Simpson
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Parkville, Victoria, Australia
    Eur J Biochem 176:187-97. 1988
    ....
  26. ncbi Characterization of a recombinant murine interleukin-6: assignment of disulfide bonds
    R J Simpson
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Melbourne Branch, Australia
    Biochem Biophys Res Commun 157:364-72. 1988
    ..It has been shown that there are disulfide bonds between Cys46-Cys52 and Cys75-Cys85...
  27. ncbi C-terminal extension of truncated recombinant proteins in Escherichia coli with a 10Sa RNA decapeptide
    G F Tu
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne Branch, Parkville, Victoria, Australia
    J Biol Chem 270:9322-6. 1995
    ..A mutant strain of E. coli in which the chromosomal 10Sa RNA gene (ssrA) is disrupted does not produce this C-terminal modification, confirming that the tag peptide originates from the ssrA gene...
  28. ncbi Complete amino acid sequence of a new murine T-cell growth factor P40
    R J Simpson
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne Branch, Royal Melbourne Hospital, Parkville, Victoria, Australia
    Eur J Biochem 183:715-22. 1989
    ..No similarity was revealed when the amino acid sequence of P40 was compared with other proteins whose biochemical structure is known. The protein sequence data reported here predict four N-linked glycosylation sites in the P40 molecule...
  29. ncbi Internal amino acid sequencing of proteins by in situ cyanogen bromide cleavage in polyacrylamide gels
    W Jahnen
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Melbourne Branch, Parkville, Victoria, Australia
    Biochem Biophys Res Commun 166:139-45. 1990
    ..These approaches yielded sequence data at subnanomole levels for a wide range of CNBr fragments recovered from gel-separated proteins...
  30. ncbi Primary structure of ovine pituitary basic fibroblast growth factor
    R J Simpson
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research Melbourne, Victoria, Australia
    FEBS Lett 224:128-32. 1987
    ..There is only one positional difference between the ovine and bovine basic FGFs, but there are 3 positional differences between ovine and human basic FGFS...
  31. ncbi Isolation of cDNA encoding a newly identified major allergenic protein of rye-grass pollen: intracellular targeting to the amyloplast
    M B Singh
    School of Botany, University of Melbourne, Parkville, Victoria, Australia
    Proc Natl Acad Sci U S A 88:1384-8. 1991
    ..Lol pIb is synthesized in pollen as a pre-allergen with a transit peptide targeting the allergen to amyloplasts. Epitope mapping of the fusion protein localized the IgE binding determinant in the C-terminal domain...
  32. ncbi The human A33 antigen is a transmembrane glycoprotein and a novel member of the immunoglobulin superfamily
    J K Heath
    Ludwig Institute for Cancer Research, Melbourne, Victoria, Australia
    Proc Natl Acad Sci U S A 94:469-74. 1997
    ..These data indicate that the A33 antigen is a novel cell surface receptor or cell adhesion molecule in the immunoglobulin superfamily...
  33. ncbi Structural studies on the murine granulocyte colony-stimulating factor
    R J Simpson
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Biol Chem Hoppe Seyler 368:1327-31. 1987
    ....
  34. ncbi Proteomic analysis of colonic crypts from normal, multiple intestinal neoplasia and p53-null mice: a comparison with colonic polyps
    A R Cole
    Ludwig Institute for Cancer Research, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Electrophoresis 21:1772-81. 2000
    ..ludwig.edu.au/jpsl/jpslhome. html)...
  35. ncbi Molecular cloning and expression of cDNA encoding a murine myeloid leukaemia inhibitory factor (LIF)
    D P Gearing
    Walter and Eliza Hall Institute of Medical Research, Royal Melbourne Hospital, Victoria, Australia
    EMBO J 6:3995-4002. 1987
    ..Cloning, sequencing and expressing LIF has resolved several discrepancies in the literature concerning the identity of factors capable of inducing differentiation of murine myeloid leukaemic cells in vitro...
  36. ncbi Proteomic analysis of colorectal cancer: discovering novel biomarkers
    Anita R Skandarajah
    Department of Surgery, Royal Melbourne Hospital, University of Melbourne, Grattan Street, Parkville 3050, Victoria, Australia
    Expert Rev Proteomics 2:681-92. 2005
    ..This review aims to highlight the role of current proteomic technologies in the discovery and validation of potential biomarkers with a view to translation to the clinic...
  37. ncbi Restoration of full-length adenomatous polyposis coli (APC) protein in a colon cancer cell line enhances cell adhesion
    Maree C Faux
    Ludwig Institute for Cancer Research, Parkville, Victoria 3050, Australia
    J Cell Sci 117:427-39. 2004
    ..By regulating the intracellular transport of junctional proteins, we propose that APC plays a role in cell adhesion in addition to its known role in beta-catenin transcriptional signalling...
  38. ncbi Plasmin activates the lymphangiogenic growth factors VEGF-C and VEGF-D
    Bradley K McColl
    Ludwig Institute for Cancer Research, Royal Melbourne Hospital, Melbourne, Victoria 3050, Australia
    J Exp Med 198:863-8. 2003
    ..Identification of an enzyme that activates the lymphangiogenic growth factors will facilitate development of inhibitors of metastasis...
  39. ncbi Proteomics analysis of A33 immunoaffinity-purified exosomes released from the human colon tumor cell line LIM1215 reveals a tissue-specific protein signature
    Suresh Mathivanan
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria 3050, Australia
    Mol Cell Proteomics 9:197-208. 2010
    ..The LIM1215-specific exosomal proteins identified in this study may provide insights into colon cancer biology and potential diagnostic biomarkers...
  40. ncbi Peptide sequencing of the chick oviduct progesterone receptor form B
    R J Simpson
    Ludwig Institute for Cancer Research, Melbourne Tumor Biology Branch Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Mol Cell Endocrinol 52:177-84. 1987
    ..One of the peptides showed a striking homology with sequences of the putative steroid binding domain of the human glucocorticoid receptor; this region is also conserved in the human and chick estrogen receptor...
  41. ncbi N-terminal derivatization and fragmentation of neutral peptides via ion--molecule reactions with acylium ions: toward gas-phase Edman degradation?
    G E Reid
    School of Chemistry, University of Melbourne, Parkville, Victoria, Australia, 3010
    J Am Chem Soc 123:1184-92. 2001
    ..Analogies are made between the reactions observed here and the derivatization and N-terminal cleavage reactions employed in the condensed-phase Edman degradation method...
  42. ncbi Simultaneous isolation of insulin-like growth factors I and II from adult sheep serum
    A W Hey
    Department of Physiology, Monash University, Clayton, Victoria, Australia
    Biochim Biophys Acta 997:27-35. 1989
    ..The isolation procedure represents one of general utility that can be easily modified to facilitate the isolation of recombinant IGFs from culture fluid...
  43. ncbi Development of a database of amino acid sequences for human colon carcinoma proteins separated by two-dimensional polyacrylamide gel electrophoresis
    L D Ward
    Ludwig Institute for Cancer Research, Royal Melbourne Hospital, Victoria, Parkville, Australia
    Electrophoresis 11:883-91. 1990
    ....
  44. ncbi Isolation of extracellular membranous vesicles for proteomic analysis
    Rommel A Mathias
    Ludwig Institute for Cancer Research, Melbourne, Australia
    Methods Mol Biol 528:227-42. 2009
    ..Morphological visualisation and characterisation is based on electron microscopy and western blotting, whilst protein identification is achieved using a combination of 1D SDS-PAGE and LC-MS/MS...
  45. ncbi Purification of basolateral integral membrane proteins by cationic colloidal silica-based apical membrane subtraction
    Robert J A Goode
    Ludwig Institute for Cancer Research, Melbourne, Australia
    Methods Mol Biol 528:177-87. 2009
    ..Based on the abundance of peptides from basolateral marker proteins, this method efficiently captures basolateral integral membrane proteins, with minimal contamination from other membranes and basic proteins...
  46. ncbi Stem cell markers: insights from membrane proteomics?
    Sung Min Ahn
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research and theWalter and Eliza Hall Institute of Medical Research, Melbourne, Australia
    Proteomics 8:4946-57. 2008
    ..The need to standardize biological SC models before embarking on international SC proteomics efforts is discussed...
  47. ncbi NMR studies of the solution properties of recombinant murine interleukin-6
    C J Morton
    Joint Protein Structure Laboratory, Ludwig Institute for Cancer Research, Parkville, Vic, Australia
    Biochim Biophys Acta 1249:189-203. 1995
    ..An N-terminal mutant lacking the first 22 residues of the murine IL-6 sequence and known to possess full biological activity was also examined and shown to have essentially retained the tertiary fold of the native molecule...
  48. ncbi Biosynthesis of vascular endothelial growth factor-D involves proteolytic processing which generates non-covalent homodimers
    S A Stacker
    Ludwig Institute for Cancer Research, Royal Melbourne Hospital, Parkville, Victoria 3050, Australia
    J Biol Chem 274:32127-36. 1999
    ..In situ hybridization demonstrated that embryonic lung is a major site of expression of the VEGF-D gene. Processed forms of VEGF-D were detected in embryonic lung indicating that VEGF-D is proteolytically processed in vivo...
  49. ncbi Complete nucleotide sequence, expression, and chromosomal localisation of human mixed-lineage kinase 2
    D S Dorow
    Research Division, Peter MacCallum Cancer Institute, Melbourne, Victoria, Australia
    Eur J Biochem 234:492-500. 1995
    ..8 kb that was expressed at highest levels in RNA from brain and skeletal muscle. The 3454-bp cDNA was also used for fluorescence in situ hybridisation to localise the MLK2 gene to human chromosome 19 q13.2...
  50. ncbi Breast cancer protein StarD10 identified by three-dimensional separation using free-flow electrophoresis, reversed-phase high-performance liquid chromatography, and sodium dodecyl sulfate-polyacrylamide gel electrophoresis
    Peter Hoffmann
    St Vincent s Institute and CSIRO Health Sciences and Nutrition, Victoria, Australia
    Electrophoresis 26:1029-37. 2005
    ..Thus, free-flow electrophoresis is a powerful high-capacity complementary technique to RP-HPLC and SDS-PAGE for the purification of proteins from complex cell lysates...
  51. ncbi Secretome-based proteomic profiling of Ras-transformed MDCK cells reveals extracellular modulators of epithelial-mesenchymal transition
    Rommel A Mathias
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    J Proteome Res 8:2827-37. 2009
    ..Many of the secretome proteins identified in this study have not been previously identified in the context of EMT and may shed light on the underlying mechanisms associated with this cellular process...
  52. ncbi Enrichment of human platelet membranes for proteomic analysis
    David W Greening
    Ludwig Institute for Cancer Research, Melbourne, Australia
    Methods Mol Biol 528:245-58. 2009
    ..This method allowed the identification, and characterization of 207 platelet membrane proteins (PMP) from approximately 9.95 x 10(9) platelets (16)...
  53. ncbi Deriving statistical models for predicting peptide tandem MS product ion intensities
    F Schutz
    Division of Genetics and Bioinformatics, The Walter and Eliza Hall Institute of Medical Research, Parkville 3050, Victoria, Australia
    Biochem Soc Trans 31:1479-83. 2003
    ....
  54. ncbi Isolation of transferrin from porcine gastric mucosa: comparison with porcine serum transferrin
    G S Baldwin
    Ludwig Institute for Cancer Research, P O Royal Melbourne Hospital, Victoria, Australia
    Comp Biochem Physiol B 95:261-8. 1990
    ..8 mg/ml) contaminating the tissue. 4. A role for transferrin in the uptake of dietary iron by the gastrointestinal tract is proposed...
  55. ncbi Enhanced analysis of the mouse plasma proteome using cysteine-containing tryptic glycopeptides
    Oliver K Bernhard
    Joint ProteomicS Laboratory, The Ludwig Institute for Cancer Research and the Walter and Eliza Hall Instititute, Royal Melbourne Hospital, Parkville, Victoria 3050, Australia
    J Proteome Res 6:987-95. 2007
    ....
  56. ncbi Analysis of Ras-induced oncogenic transformation of NIH-3T3 cells using differential-display 2-DE proteomics
    Hong Ji
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Electrophoresis 28:1997-2008. 2007
    ..Significantly, we report for the first time the expression of the newly discovered cytokine IL-25 (or IL-17E) in mouse embryonic fibroblast cells and its down-regulation (2.1-fold) upon Ras-induced oncogenic transformation...
  57. ncbi Application of 2-D free-flow electrophoresis/RP-HPLC for proteomic analysis of human plasma depleted of multi high-abundance proteins
    Robert L Moritz
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research (Melbourne Branch, The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Proteomics 5:3402-13. 2005
    ....
  58. ncbi An evaluation, comparison, and accurate benchmarking of several publicly available MS/MS search algorithms: sensitivity and specificity analysis
    Eugene A Kapp
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research (Melbourne Branch)/Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Proteomics 5:3475-90. 2005
    ..e., the use of multiple (at least two) search algorithms to reduce the number of FPs. complement...
  59. ncbi A centrifugal ultrafiltration strategy for isolating the low-molecular weight (<or=25K) component of human plasma proteome
    David W Greening
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research and Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    J Proteomics 73:637-48. 2010
    ..g., fibrinogen, clusterin, Factor XIIIa, transferrin, kinogen-1, and inter-alpha-trypsin inhibitor), presumably derived by ex vivo proteolysis, were observed...
  60. ncbi The phosphoprotein StarD10 is overexpressed in breast cancer and cooperates with ErbB receptors in cellular transformation
    Monilola A Olayioye
    The Walter and Eliza Hall Institute of Medical Research and Bone Marrow Research Laboratories, Royal Melbourne Hospital, Parkville, Victoria, Australia
    Cancer Res 64:3538-44. 2004
    ..Taken together, these data suggest that overexpression of this lipid-binding protein contributes to breast oncogenesis...
  61. ncbi The 60- to 90-kDa parietal cell autoantigen associated with autoimmune gastritis is a beta subunit of the gastric H+/K(+)-ATPase (proton pump)
    B H Toh
    Department of Pathology and Immunology, Monash University Medical School, Prahran, Victoria, Australia
    Proc Natl Acad Sci U S A 87:6418-22. 1990
    ....
  62. ncbi Isolation and characterization of a novel receptor-type protein tyrosine kinase (hek) from a human pre-B cell line
    A W Boyd
    Lions Clinical Cancer Research Laboratory, Walter and Eliza Hall Institute of Medical Research, Royal Melbourne Hospital, Victoria, Australia
    J Biol Chem 267:3262-7. 1992
    ..These studies show hek to be a novel human tumor-associated protein tyrosine kinase, which by analogy with previously characterized protein tyrosine kinase proto-oncogenes, may have a role in tumorigenesis...
  63. ncbi Extracellular remodelling during oncogenic Ras-induced epithelial-mesenchymal transition facilitates MDCK cell migration
    Rommel A Mathias
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research, Parkville, Victoria, Australia
    J Proteome Res 9:1007-19. 2010
    ..Transient silencing of MMP-1 in 21D1 cells via siRNA-mediated knockdown attenuated cell migration. Many of the secretome proteins identified broaden our understanding of the EMT process...
  64. ncbi In situ phosphorylation of immobilized receptors on biosensor surfaces: application to E-cadherin/beta-catenin interactions
    Bruno Catimel
    Ludwig Institute for Cancer Research, Royal Melbourne Hospital, Parkville, Vic. 3052, Australia
    Anal Biochem 357:277-88. 2006
    ..Interestingly, phosphorylation of E-cadherin by CK1 or CK2 prevented the inhibition of beta-catenin binding by src phosphorylation...
  65. ncbi Towards understanding epithelial-mesenchymal transition: a proteomics perspective
    Rommel A Mathias
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research and The Walter and Eliza Hall Institute of Medical Research, Parkville, Victoria, Australia
    Biochim Biophys Acta 1794:1325-31. 2009
    ..Recent advances in sub-proteome sample preparation, proteomic tools including mass spectrometry instrumentation and protein quantitation, will further refine and extend our understanding of the cellular EMT process...
  66. ncbi Difference gel electrophoresis analysis of Ras-transformed fibroblast cell-derived exosomes
    Hong Ji
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research, Parkville, Victoria, Australia
    Electrophoresis 29:2660-71. 2008
    ..Significantly, the 10.4-fold increase in v-Ha-Ras p21 protein in exosomes derived from Ras-transformed NIH3T3 cells suggests that exosome secretion may be implicated in eradication of obsolete proteins...
  67. ncbi HtrA2 promotes cell death through its serine protease activity and its ability to antagonize inhibitor of apoptosis proteins
    Anne M Verhagen
    Walter and Eliza Hall Institute of Medical Research, Post Office Royal Melbourne Hospital, Victoria 3050, Australia
    J Biol Chem 277:445-54. 2002
    ....
  68. ncbi SOCS-6 binds to insulin receptor substrate 4, and mice lacking the SOCS-6 gene exhibit mild growth retardation
    Danielle L Krebs
    The Walter and Eliza Hall Institute of Medical Research and the Cooperative Research Centre for Cellular Growth Factors, Royal Melbourne Hospital, Victoria 3050, Australia
    Mol Cell Biol 22:4567-78. 2002
    ..However, both male and female SOCS-6(-/-) mice weighed approximately 10% less than wild-type littermates...
  69. ncbi CHOMPER: a bioinformatic tool for rapid validation of tandem mass spectrometry search results associated with high-throughput proteomic strategies
    James S Eddes
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research and The Walter and Eliza Hall Institute of Medical Research, Victoria, Australia
    Proteomics 2:1097-103. 2002
    ....
  70. ncbi Ankyrin repeat and suppressors of cytokine signaling box protein asb-9 targets creatine kinase B for degradation
    Marlyse A Debrincat
    Division of Cancer and Haematology, The Walter and Eliza Hall Institute of Medical Research, 1G Royal Parade, Parkville, Victoria 3050, Australia
    J Biol Chem 282:4728-37. 2007
    ..The targeting of CKB for degradation by Asb-9 was primarily SOCS box-dependent and suggests that Asb-9 acts as a specific ubiquitin ligase regulating levels of this evolutionarily conserved enzyme...
  71. ncbi Liquid-based free-flow electrophoresis-reversed-phase HPLC: a proteomic tool
    Robert L Moritz
    Joint ProteomicS Laboratory, Ludwig Institute for Cancer Research (Melbourne Branch) and The Walter and Eliza Hall Institute of Medical Research, Parkville, 3050, Victoria, Australia
    Nat Methods 2:863-73. 2005
  72. ncbi [From genome to proteome--aim of human proteomics]
    Kazuyuki Nakamura
    Department of Biochemistry and Biomolecular Recognition, Fatulty of Medicine, Yamaguchi University, 1-1-1 Minami-Kogushi, Ube, Yamaguchi 755-8505, Japan
    Seikagaku 76:1271-4. 2004
  73. ncbi Overview of the HUPO Plasma Proteome Project: results from the pilot phase with 35 collaborating laboratories and multiple analytical groups, generating a core dataset of 3020 proteins and a publicly-available database
    Gilbert S Omenn
    Internal Medicine, University of Michigan, Ann Arbor, MI 48109 0656, USA
    Proteomics 5:3226-45. 2005
    ....
  74. ncbi Guidelines for the next 10 years of proteomics
    Marc R Wilkins
    Department of Biotechnology and Biomolecular Biosciences, University of New South Wales, Sydney, NSW 2052, Australia
    Proteomics 6:4-8. 2006
    ..These guidelines will serve as a set of criteria which editors of PROTEOMICS will use for assessment of future submissions to the Journal...
  75. ncbi A proteomic approach for unraveling the oncogenic H-Ras protein networks in NIH/3T3 mouse embryonic fibroblast cells
    Jung Wook Park
    Department of Biochemistry, College of Science, Yonsei University, Seoul, Korea
    Proteomics 6:1175-86. 2006
    ..Taken together, the results presented here show that comparative analysis of the proteome from the oncogenic H-Ras-expressing cells yielded interpretable data to elucidate protein networks directly and/or indirectly...
  76. ncbi The effects of intensive, moderate and downhill treadmill running on human blood lymphocytes expressing the adhesion/activation molecules CD54 (ICAM-1), CD18 (beta2 integrin) and CD53
    Richard J Simpson
    Biomedicine and Sport and Exercise Science Research Group, School of Life Sciences, Napier University, 10 Colinton Road, EH10 5DT, Edinburgh, Scotland, UK
    Eur J Appl Physiol 97:109-21. 2006
    ..This effect appears to be influenced by exercise intensity and not muscle damage...
  77. ncbi Insulin and oleate promote translocation of inosine-5' monophosphate dehydrogenase to lipid bodies
    Jonathan P Whitehead
    Department of Diabetes and Obesity, Garvan Institute of Medical Research, 384 Victoria Street, Darlinghurst, Sydney, NSW 2010, Australia
    Traffic 5:739-49. 2004
    ..These data support a role for IMPDH in the dynamic regulation of lipid bodies and fatty acid metabolism and regulation of its activity by subcellular redistribution in response to extracellular factors that modify lipid metabolism...
  78. ncbi Human microglial cells synthesize albumin in brain
    Sung Min Ahn
    Center for Genomics and Proteomics, Lee Gil Ya Cancer and Diabetes Institute, Gachon University of Medicine and Science, Incheon, Korea
    PLoS ONE 3:e2829. 2008
    ..These data indicate that microglial cells may play a beneficial role in AD by secreting albumin that not only inhibits Abeta polymerization but also increases its clearance...
  79. ncbi High-intensity exercise elicits the mobilization of senescent T lymphocytes into the peripheral blood compartment in human subjects
    Richard J Simpson
    Biomedicine and Sports Science Research Group, School of Life Sciences, Napier University, Edinburgh, Scotland EH10 5DT, UK
    J Appl Physiol 103:396-401. 2007
    ....
  80. ncbi Senescent T-lymphocytes are mobilised into the peripheral blood compartment in young and older humans after exhaustive exercise
    Richard J Simpson
    Biomedicine and Sports Science Research Group, School of Life Sciences, Napier University, 10 Colinton Road, Edinburgh EH10 5DT, UK
    Brain Behav Immun 22:544-51. 2008
    ....
  81. ncbi Human Proteinpedia enables sharing of human protein data
    Suresh Mathivanan
    Nat Biotechnol 26:164-7. 2008