Nuclear proteome profile of C57BL/6J mouse liver

Science China Life Sciences

Volumn 56, Issue 6, 2013, Pages 513-523

  Zhang, Yang ^a   Fang, CaiYun ^a   Bao, HuiMin ^a   Fan, HuiZhi ^a   Shen, HuaLi ^a   Yang, PengYuan ^a  

^a FUDAN UNIVERSITY   (China)

Author keywords

bioinformatics; C57 mouse; liver nuclei; proteome

Indexed keywords

NUCLEAR PROTEIN; PROTEOME;

ANIMAL; ARTICLE; C57BL MOUSE; ISOLATION AND PURIFICATION; LIVER; MASS SPECTROMETRY; METABOLISM; METHODOLOGY; MOUSE; PROTEIN PROTEIN INTERACTION; PROTEOMICS; TWO DIMENSIONAL GEL ELECTROPHORESIS;

ANIMALS; ELECTROPHORESIS, GEL, TWO-DIMENSIONAL; LIVER; MASS SPECTROMETRY; MICE; MICE, INBRED C57BL; NUCLEAR PROTEINS; PROTEIN INTERACTION MAPS; PROTEOME; PROTEOMICS;

EID: 84878795665     PISSN: 16747305     EISSN: None     Source Type: Journal    
DOI: 10.1007/s11427-013-4488-y     Document Type: Article

References (37)

1. Chromy B A, Gonzales A D, Perkins J, et al. Proteomic analysis of human serum by two-dimensional differential gel electrophoresis after depletion of high-abundant proteins. J Proteome Res, 2004, 3: 1120-1127.
2. Freeman W M, Lull M E, Guilford M T, et al. Depletion of abundant proteins from non-human primate serum for biomarker studies. Proteomics, 2006, 6: 3109-3113.
3. Lull M E, Freeman W M, Myers J L, et al. Plasma proteomics: a noninvasive window on pathology and pediatric cardiac surgery. ASAIO J, 2006, 52: 562-566.
4. Foster L J, de Hoog C L, Zhang Y, et al. A mammalian organelle map by protein correlation profiling. Cell, 2006, 125: 187-199.
5. Kislinger T, Cox B, Kannan A, et al. Global survey of organ and organelle protein expression in mouse: combined proteomic and transcriptomic profiling. Cell, 2006, 125: 173-186.
6. Grigoryev S A, Bulynko Y A, Popova E Y. The end adjusts the means: heterochromatin remodelling during terminal cell differentiation. Chromosome Res, 2006, 14: 53-69.
7. Schardin M, Cremer T, Hager H D, et al. Specific staining of human chromosomes in chinese hamster X man hybrid cell lines demonstrates interphase chromosome territories. Hum Genet, 1985, 71: 281-287.
8. Andersen J S, Lam Y W, Leung A K, et al. Nucleolar proteome dynamics. Nature, 2005, 433: 77-83.
9. Ahmad Y, Boisvert F M, Gregor P, et al. Nopdb: nucleolar proteome database-2008 update. Nucleic Acids Res, 2009, 37: D181-184.
10. Szafron D, Lu P, Greiner R, et al. Proteome analyst: custom predictions with explanations in a web-based tool for high-throughput proteome annotations. Nucleic Acids Res, 2004, 32: W365-371.
11. Lu P, Szafron D, Greiner R, et al. Pa-gosub: a searchable database of model organism protein sequences with their predicted gene ontology molecular function and subcellular localization. Nucleic Acids Res, 2005, 33: D147-153.
12. Brameier M, Krings A, MacCallum R M. Nucpred-predicting nuclear localization of proteins. Bioinformatics, 2007, 23: 1159-1160.
13. Guda C. Ptarget: a web server for predicting protein subcellular localization. Nucleic Acids Res, 2006, 34: W210-213.
14. Guda C, Subramaniam S. Ptarget: a new method for predicting protein subcellular localization in eukaryotes. Bioinformatics, 2005, 21: 3963-3969.
15. Horton P, Park K J, Obayashi T, et al. Wolf psort: protein localization predictor. Nucleic Acids Res, 2007, 35: W585-587.
16. Plowman J E. The proteomics of keratin proteins. J Chromatogr B Analyt Technol Biomed Life Sci, 2007, 849: 181-189.
17. Zhang J, Xu X, Shen H, et al. Analysis of nuclear proteome in C57 mouse liver tissue by a nano-flow 2-D-LC-ESI-MS/MS approach. J Sep Sci, 2006, 29: 2635-2646.
18. Sprenger J, Lynn Fink J, Karunaratne S, et al. Locate: a mammalian protein subcellular localization database. Nucleic Acids Res, 2008, 36: D230-233.
19. Kielkopf C L, Lucke S, Green M R. U2AF homology motifs: protein recognition in the RRM world. Genes Dev, 2004, 18: 1513-1526.
20. Bochkarev A, Barwell J A, Pfuetzner R A, et al. Crystal structure of the DNA-binding domain of the epstein-barr virus origin-binding protein, EBNA1, bound to DNA. Cell, 1996, 84: 791-800.
21. Chenuil A, Solignac M, Bernard M. Evolution of the large-subunit ribosomal RNA binding site for protein L23/25. Mol Biol Evol, 1997, 14: 578-588.
22. Bandziulis R J, Swanson M S, Dreyfuss G. RNA-binding proteins as developmental regulators. Genes Dev, 1989, 3: 431-437.
23. Query C C, Bentley R C, Keene J D. A common RNA recognition motif identified within a defined U1 RNA binding domain of the 70K U1 snRNP protein. Cell, 1989, 57: 89-101.
24. Dreyfuss G, Swanson M S, Pinol-Roma S. Heterogeneous nuclear ribonucleoprotein particles and the pathway of mrna formation. Trends Biochem Sci, 1988, 13: 86-91.
25. Chambers J C, Kenan D, Martin B J, et al. Genomic structure and amino acid sequence domains of the human la autoantigen. J Biol Chem, 1988, 263: 18043-18051.
26. Sachs A B, Davis R W, Kornberg R D. A single domain of yeast poly(A)-binding protein is necessary and sufficient for rna binding and cell viability. Mol Cell Biol, 1987, 7: 3268-3276.
27. Moreno F, Ahuatzi D, Riera A, et al. Glucose sensing through the HXK2-dependent signalling pathway. Biochem Soc Trans, 2005, 33: 265-268.
28. Gorlich D, Kutay U. Transport between the cell nucleus and the cytoplasm. Annu Rev Cell Dev Biol, 1999, 15: 607-660.
29. Nierhaus K H, Wilson D H, eds. Protein Synthesis and Ribosome Structure: Translating the Genome. Weinheim: Wiley-VCH, 2004.
30. Lamond A I, Earnshaw W C. Structure and function in the nucleus. Science, 1998, 280: 547-553.
31. Kurz A, Lampel S, Nickolenko J E, et al. Active and inactive genes localize preferentially in the periphery of chromosome territories. J Cell Biol, 1996, 135: 1195-1205.
32. Rothfield N F, Stollar B D. The relation of immunoglobulin class, pattern of anti-nuclear antibody, and complement-fixing antibodies to DNA in sera from patients with systemic lupus erythematosus. J Clin Invest, 1967, 46: 1785-1794.
33. Barned S, Goodman A D, Mattson D H. Frequency of anti-nuclear antibodies in multiple sclerosis. Neurology, 1995, 45: 384-385.
34. Hernandez-Verdun D. Nucleolus: from structure to dynamics. Histochem Cell Biol, 2006, 125: 127-137.
35. Lamond A I, Sleeman J E. Nuclear substructure and dynamics. Curr Biol, 2003, 13: R825-828.
36. Cioce M, Lamond A I. Cajal bodies: a long history of discovery. Annu Rev Cell Dev Biol, 2005, 21: 105-131.
37. Dundr M, Misteli T. Functional architecture in the cell nucleus. Biochem J, 2001, 356: 297-310.