Proteome analysis in the study of lymphoma cells

Mass Spectrometry Reviews

Volumn 24, Issue 4, 2005, Pages 455-468

  Joubert Caron, Raymonde ^a   Caron, Michel ^a,b,c  

^a UNIVERSITÉ PARIS 13   (France)

^b University of Paris   (France)

^c AVICENNE HOSPITAL   (France)

Author keywords

Electrophoresis; Lymphoma; Mass spectrometry; Proteome; Proteomics

Indexed keywords

LYMPHOMA; LYSIS BUFFER; PROTEOME ANALYSIS; PROTEOMICS;

CELLS; CENTRIFUGATION; CYTOLOGY; DATABASE SYSTEMS; DRUG PRODUCTS; ELECTRIC POTENTIAL; ELECTROPHORESIS; GLYCEROL; MASS SPECTROMETRY; PH EFFECTS; SOLUBILITY;

PROTEINS;

ANTINEOPLASTIC AGENT; PROTEOME; TUMOR PROTEIN;

ANIMAL; DRUG EFFECT; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION; HUMAN; LYMPHOMA; MASS SPECTROMETRY; METABOLISM; METHODOLOGY; PROTEOMICS; REVIEW;

ANIMALS; ANTINEOPLASTIC AGENTS; GENE EXPRESSION PROFILING; GENE EXPRESSION REGULATION, NEOPLASTIC; HUMANS; LYMPHOMA; MASS SPECTROMETRY; NEOPLASM PROTEINS; PROTEOME; PROTEOMICS;

EID: 21844439510     PISSN: 02777037     EISSN: None     Source Type: Journal    
DOI: 10.1002/mas.20029     Document Type: Review

References (45)

1. Anderson NL, Anderson NG. 1998. Proteome and proteomics: New technologies, new concepts, and new words. Electrophoresis 19:1853-1861.
2. Antonucci F, Chilosi M, Parolini C, Hamdan M, Astner H, Righetti PG. 2003. Two-dimensional molecular profiling of mantle cell lymphoma. Electrophoresis 24:2376-2385.
3. Appel RD, Palagi PM, Walther D, Vargas JR, Sanchez JC, Ravier F, Pasquali C, Hochstrasser DF. 1997a. Melanie II - A third-generation software package for analysis of two-dimensional electrophoresis images: I. Features and user interface. Electrophoresis 18:2724-2734.
4. Appel RD, Vargas JR, Palagi PM, Walther D, Hochstrasser DF. 1997b. Melanie II - A third-generation software package for analysis of two-dimensional electrophoresis images: II. Algorithms. Electrophoresis 18:2735-2748.
5. Bae SH, Harris AG, Hains PG, Chen H, Garfin DE, Hazell SL, Paik YK, Walsh BJ, Cordwell SJ. 2003. Strategies for the enrichment and identification of basic proteins in proteome projects. Proteomics 3:569-579.
6. Baylin SB, Herman JG, Graff JR, Vertino PM, Issa JP. 1998. Alterations in DNA methylation: A fundamental aspect of neoplasia. Adv Cancer Res 72:141-196.
7. Ben-Bassat H, Goldblum N, Mitrani S, Goldblum T, Yoffey JM, Cohen MM, Bentwich Z, Ramot B, Klein E, Klein G. 1977. Establishment in continuous culture of a new type of lymphocyte from a "Burkitt like" malignant lymphoma (line D.G.-75). Int J Cancer 19:27-33.
8. Brockstedt E, Rickers A, Kostka S, Laubersheimer A, Dorken B, Bommert K. 1998. Identification of apoptosis-associated proteins in a human Burkitt lymphoma cell line. J Biol Chem 273:28057-28064.
9. Caron M, Imam-Sghiouar N, Poirier F, Le Caer JP, Labas V, Joubert-Caron R. 2002. Proteomic map and database of lymphoblastoid proteins. J Chromatogr B Analyt Technol Biomed Life Sci 771:197-209.
10. Dreger M. 2003. Subcellular proteomics. Mass Spectrom Rev 22:27-56.
11. Fouillit M, Poirier F, Monostori E, Raphael M, Bladier D, Joubert-Caron R, Caron M. 2000. Analysis of galectin 1-mediated cell signaling by combined precipitation and electrophoresis techniques. Electrophoresis 21:275-280.
12. Hamdan M, Righetti PG. 2003. Assessment of protein expression by means of 2-D gel electrophoresis with and without mass spectrometry. Mass Spectrom Rev 22:272-284.
13. Hanash SM, Strahler JR, Chan Y, et al. 2003. Data base analysis of protein expression patterns during T-cell ontogeny and activation. Proc Natl Acad Sci 8:3314-3318.
14. Harris NL, Jaffe ES, Diebold J, et al. 1999. World Health Organization classification of neaplastic diseases of the hematopoietic and lymphoid tissues: Report of the Clinical Advisory Committee Meeting - Airlie House, VA, November 1997. J Clin Oncol 17:3835-3849.
15. Imam-Sghiouar N, Laude-Lemaire I, Labas V, Pflieger D, Le Caer JP, Caron M, Nabias DK, Joubert-Caron R. 2002. Subproteomics analysis of phosphorylated proteins: Application to the study of B-lymphoblasts from a patient with Scott syndrome. Proteomics 2:828-838.
16. Joubert-Caron R, Feuillard J, Kohanna S, Poirier F, Le Caer JP, Schuhmacher M, Bornkamm GW, Polack A, Caron M, Bladier D, Raphael M. 1999. A computer-assisted two-dimensional gel electrophoresis approach for studying the variations in protein expression related to an induced functional repression of NFkappaB in lymphoblastoid cell lines. Electrophoresis 20:1017-1026.
17. Joubert-Caron R, LeCaer JP, Montandon F, Poirier F, Imam N, Feuillard J, Bladier D, Rossier J, Caron M. 2000. Protein analysis by mass spectrometry and sequence database searching A proteomic approach to identify human lymphoblastoid cell line proteins. Electrophoresis 21:2566-2575.
18. Kyte J, Doolittle RF. 1982. A simple method for displaying the hydropathic character of a protein. J Mol Biol 157:105-132.
19. Lindstrom MS, Wiman KG. 2002. Role of genetic and epigenetic changes in Burkitt lymphoma. Semin Cancer Biol 12:381-387.
20. Lollo BA, Harvey S, Liao J, Stevens AC, Wagenknecht R, Sayen R, Whaley J, Sajjadi FG. 1999. Improved two-dimensional gel electrophoresis representation of serum proteins by using ProtoClear. Electrophoresis 20:854-859.
21. Lombardi A, Beneduce L, Moreno M, Diano S, Colantuoni V, Ursini MV, Lanni A, Goglia F. 2000. 3,5-Diiodo-L-thyronine regulates glucose-6-phosphate dehydrogenase activity in the rat. Endocrinology 141: 1729-1734.
22. Lubbert M. 2000. DNA methylation inhibitors in the treatment of leukemias, myelodysplastic syndroms, hemoglobinopathies: Clinical results and possible mechanisms of action. Curr Top Microbiol Immunol 249:135 - 164.
23. Lutomski D, Fouillit M, Bourin P, Mellottee D, Denize N, Pontet M, Bladier D, Caron M, Joubert-Caron R. 1997. Externalization and binding of galectin-1 on cell surface of K562 cells upon erythroid differentiation. Glycobiology7:1193-1199.
24. Merril CR, Goldman D, Van Keuren ML. 1984. Gel protein stains: Silver stain. Methods Enzymol 104:441-447.
25. Molloy MP, Herbert BR, Walsh BJ, Tyler MI, Traini M, Sanchez JC, Hochstrasser DF, Williams KL, Gooley AA. 1998. Extraction of membrane proteins by differential solubilization for separation using two-dimensional gel electrophoresis. Electrophoresis 19:837-844.
26. Moscato S, Pratesi F, Sabbatini A, Chimenti D, Scavuzzo M, Passatino R, Bombardieri S, Giallongo A, Migliorini P. 2000. Surface expression of a glycolytic enzyme, alpha-enolase, recognized by autoantibodies in connective tissue disorders. Eur J Immunol 30:3575-3584.
27. Nakai K, Horton P. 1999. PSORT: A program for detecting sorting signals in proteins and predicting their subcellular localization. Trends Biochem Sci 24:34-36.
28. Ng PW, Porter AG, Janicke RU. 1999. Molecular cloning and characterization of two novel pro-apoptotic isoforms of caspase-10. J Biol Chem 274: 10301-10308.
29. Poirier F, Pontet M, Labas V, Le Caer JP, Sghiouar-Imam N, Raphael M, Caron M, Joubert-Caron R. 2001a. Two-dimensional database of a Burkitt lymphoma cell line (DG 75) proteins: Protein pattern changes following treatment with 5′-azycytidine. Electrophoresis 22:1867-1877.
30. Poirier F, Bourin P, Bladier D, Joubert-Caron R, Caron M. 2001b. Effect of 5-azacytidine and galectin-1 on growth and differentiation of the human b lymphoma cell line b136. Cancer Cell Int 1:2.
31. Poirier F, Joubert-Caron R, Labas V, Caron M. 2003. Proteomic analysis of a lymphoma-derived cell line (DG75) following treatment with a demethylating drug: Modification of membrane-associated proteins. Proteomics 3:1028-1036.
32. Pratesi F, Moscato S, Sabbatini A, Chimenti D, Bombardieri S, Migliorini P. 2000. Autoantibodies specific for alpha-enolase in systemic autoimmune disorders. J Rheumatol 27:109-115.
33. Rabilloud T, Valette C, Lawrence JJ. 1994. Sample application by in-gel rehydration improves the resolution of two-dimensional electrophoresis with immobilized pH gradients in the first dimension. Electrophoresis 15:1552-1558.
34. Richel DJ, Colly LP, Kluin-Nelemans JC, Willemze R. 1991. The antileukaemic activity of 5-Aza-2 deoxycytidine (Aza-dC) in patients with relapsed and resistant leukaemia. Br J Cancer 64:144-148.
35. Riggs AD. 1975. X inactivation, differentiation, and DNA methylation. Cytogenet Cell Genet 14:9-25.
36. Righetti PG, Castagna A, Antonucci F, Piubelli C, Cecconi D, Campostrini N, Zanusso G, Monaco S. 2003. The proteome: Anno Domini 2002. Clin Chem Lab Med 41:425-438.
37. Sanchez-Beato M, Sanchez-Aguilera A, Piris MA. 2003. Cell cycle deregulation in B-cell lymphomas. Blood 101:1220-1235.
38. Schepens I, Johansson K, Decottignies P, Gillibert M, Hirasawa M, Knaff DB, Miginiac-Maslow M. 2000. Inhibition of the thioredoxin-dependent activation of the NADP-malate dehydrogenase and cofactor specificity. J Biol Chem 275:20996-21001.
39. Silverman LR, Holland JF, Weinberg RS, Alter BP, Davis RB, Ellison RR, Demakos EP, Cornell CJ, Jr., Carey RW, Schiffer C, et al. 1993. Effects of treatment with 5-azacytidine on the in vivo and in vitro hematopoiesis in patients with myelodysplastic syndromes. Leukemia 7(Suppl 1): 21-29.
40. Singal R, Ginder GD. 1999. DNA methylation. Blood 93:4059-4070.
41. Steel LF, Trotter MG, Nakajima PB, Mattu TS, Gonye G, Block T. 2003. Efficient and specific removal of albumin from human serum samples. Mol Cell Proteomics 2:262-270.
42. Tamir I, Cambier JC. 1998. Antigen receptor signaling: Integration of protein tyrosine kinase functions. Oncogene 17:1353-1364.
43. Terry DE, Desiderio DM. 2003. Between-gel reproducibility of the human cerebrospinal fluid proteome. Proteomics 3:1962-1979.
44. Toda T, Sugimoto M. 2003. Proteome analysis of Epstein-Barr virus-transformed B-lymphoblasts and the proteome database. J Chromatogr B Analyt Technol Biomed Life Sci 787:197-206.
45. Yanagi S, Sugawara H, Kurosaki M, Sabe H, Yamamura H, Kurosaki T. 1996. CD45 modulates phosphorylation of both autophosphorylation and negative regulatory tyrosines of Lyn in B cells. J Biol Chem 271:30487-30492.