From Genome to Proteome: Advances in the Practice and Application of Proteomics

Cover......Page 1
From Genome to Proteome: Advances in the Practice and Application of Proteomics......Page 2
Title......Page 3
Copyright......Page 4
Preface......Page 5
Contents......Page 6
Proteome Analysis: A Pathway to the Functional Analysis of Proteins......Page 10
Diagnosis of cellular states of microbial organisms using proteomics......Page 26
Candida albicans pathogenicity: A proteomic perspective......Page 37
Proteomics for genetic and physiological studies in plants......Page 47
Proteomics in human disease: Cancer, heart and infectious diseases......Page 61
Genotypes and phenotypes......Page 72
Replication-induced protein synthesis and its importance to proteomics......Page 82
Advances in protein solubilisation for two-dimensional electrophoresis......Page 89
Proteomics and automation......Page 93
Genomes and proteomes: Towards a multidimensional view of biology......Page 107
The potential use of laser capture microdissection to selectively obtain distinct populations of cells for proteomic analysis - Preliminary findings......Page 118
Extraction of Escherichia coli proteins with organic solvents prior to two-dimensional electrophoresis......Page 130
Towards the recovery of hydrophobic proteins on two-dimensional electrophoresis gels......Page 134
Recent developments in two-dimensional gel electrophoresis with immobilized pH gradients: Wide pH gradients up to pH 12, longer separation distances and simplified procedures......Page 141
Steady-state electrolysis of a solution of nonamphotheric compounds......Page 147
Modified immobilized pH gradient gel strip equilibration procedure in SWISS-2DPAGE protocols......Page 152
Microchannel networks for electrophoretic separations......Page 156
Proteome analysis of polyacrylamide gel-separated proteins visualized by reversible negative staining using imidazole-zinc salts......Page 161
Studies of quantitative analysis of protein expression in Saccharomyces cerevisiae......Page 167
High sensitivity mass spectrometric methods for obtaining intact molecular weights from gelseparated proteins......Page 172
Method for identification and quantitative analysis of protein lysine methylation using matrix-assisted laser desorption/ionization - time-of-flight mass spectrometry and amino acid analysis......Page 178
New algorithmic approaches to protein spot detection and pattern matching in two-dimensional electrophoresis gel databases......Page 184
Mining protein data from two-dimensional gels: Tools for systematic post-planned analyses......Page 195
Effects of interferon gamma on Chlamydia trachomatis serovar A and L2 protein expression investigated by two-dimensional gel electrophoresis......Page 204
Induction of heat shock proteins in response to primary alcohols in Acinetobacter calcoaceticus......Page 210
Characterization of periplasmic Escherichia coli protein expression at high cell densities......Page 219
Proteome analysis of factor for inversion stimulation (Fis) overproduction in Escherichia coli......Page 227
Investigation of translation dynamics under cell-free protein biosynthesis conditions using high-resolution two-dimensional gel electrophoresis......Page 235
Regulation of virulence genes by environmental signals in Salmonella typhimurium......Page 242
Proteome analysis of the model microsymbiont Sinorhizobium meliloti: Isolation and characterisation of novel proteins......Page 247
Comparison of yeast cell protein solubilization procedures for two-dimensional electrophoresis......Page 255
A nondenaturing protein map of human plasma proteins correlated with a denaturing polypeptide map combining techniques of micro two-dimensional gel electrophoresis......Page 259
Proteins of rat serum: III. Gender-related differences in protein concentration under baseline conditions and upon experimental inflammation as evaluated by two-dimensional electrophoresis......Page 265
Proteins of rat serum IV. Time-course of acute-phase protein expression and its modulation by indomethacine......Page 275
Improved two-dimensional gel electrophoresis representation of serum proteins by using ProtoClearTM......Page 283
Identification of proteins in a human pleural exudate using two-dimensional preparative liquid-phase electrophoresis and matrix-assisted laser desorption/ionization mass spectrometry......Page 289
Two-dimensional polyacrylamide gel electrophoresis map of bovine ovarian fluid proteins......Page 295
Two-dimensional electrophoresis and computer imaging: Quantitation of human milk casein......Page 299
Analysis of tear protein patterns by a neural network as a diagnostical tool for the detection of dry eyes......Page 304
Demonstration of different forms of the anti-inflammatory proteins lipocortin-1 and Clara cell protein-16 in human nasal and bronchoalveolar lavage fluids......Page 310
A two-dimensional electrophoresis database of rat heart proteins......Page 320
Bovine dilated cardiomyopathy: Proteomic analysis of an animal model of human dilated cardiomyopathy......Page 327
Two-dimensional map of human brain proteins......Page 336
Analysis of proteins from membrane-enriched cerebellar preparations by two-dimensional gel electrophoresis and mass spectrometry......Page 346
Decreased levels of synaptosomal associated protein 25 in the brain of patients with Down Syndrome and Alzheimer\'s disease......Page 357
A proteome analysis of livers from obese (ob/ob) mice treated with the peroxisome proliferator WY14,643......Page 364
Regional protein alterations in rat kidneys induced by lead exposure......Page 372
Functional proteomics of signal transduction by membrane receptors......Page 381
Modulation of signal transduction pathways and global protein composition of macrophages by ionizing radiation......Page 391
Characterisation of stem cell expression using two-dimensional electrophoresis......Page 398
The characterization of human spermatozoa membrane proteins - surface antigens and immunological infertility......Page 400
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......Page 406
apping and identification of interferon gammaregulated HeLa cell proteins separated by immobilized pH gradient two-dimensional gel electrophoresis......Page 413
A two-dimensional protein map of Chinese hamster ovary cells......Page 423
Two-dimensional gel electrophoresis as analytical tool for identifying Candida albicans immunogenic proteins......Page 430
Biochemical analysis of membrane proteins from an early maturation stage of phagosomes......Page 440
A computer-assisted two-dimensional gel electrophoresis approach for studying the variations in protein expression related to an induced functional repression of NFkB in lymphoblastoid cell lines......Page 446
Technology development at the interface of proteome research and genomics: Mapping nonpolymorphic proteins on the physical map of mouse chromosomes......Page 456
Active dissociation of the fluorescent dye Hoechst 33342 from DNA in a living cell: Who could do it?......Page 462
Two-dimensional gel analysis of protein expression in ovarian tumors shows a low degree of intratumoral heterogeneity......Page 468
The analysis of S100A9 and S100A8 expression in matched sets of macroscopically normal colon mucosa and colorectal carcinoma: The S100A9 and S100A8 positive cells underlie and invade tumor mass......Page 476
Characterization of colonic polyps by two-dimensional gel electrophoresis......Page 484
Protein changes associated with ionizing radiation-induced apoptosis in human prostate epithelial tumor cells......Page 494
Two-dimensional electrophoresis of prostate-specific antigen in sera of men with prostate cancer or benign prostate hyperplasia......Page 504
A novel isoform ratio switch of the polypyrimidine tract binding protein......Page 511
Glial fibrillary acidic protein and its fragments discriminate astrocytoma from oligodendroglioma......Page 516
Identification of HSP-60 as the specific antigen of IgM produced by BRG-Iymphoma cells......Page 521
Separation and characterization of needle and xylem maritime pine proteins......Page 527
Two-dimensional electrophoretic analysis of proteins associated with somatic embryogenesis development in Cupressus sempervirens L.......Page 538
Index......Page 549