The postgenomic age: Characterization of proteomes

Experimental Hematology

Volumn 30, Issue 2, 2002, Pages 97-107

  Panisko, Ellen A ^a   Conrads, Thomas P ^b   Goshe, Michael B ^a   Veenstra, Timothy D ^b  

^a PACIFIC NORTHWEST NATIONAL LABORATORY   (United States)

^b SAIC FREDERICK INC   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTIC METHOD; BIOINFORMATICS; BIOLOGY; CELL; CELL CULTURE; CELL FUNCTION; DNA MICROARRAY; GENE EXPRESSION; GENE SEQUENCE; GENETIC TRANSCRIPTION; GENOME; HUMAN; MASS SPECTROMETRY; NONHUMAN; PHENOTYPE; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; PROTEIN MODIFICATION; PROTEIN PHOSPHORYLATION; PROTEIN PROTEIN INTERACTION; PROTEOMICS; QUANTITATIVE ANALYSIS; REVIEW; RNA TRANSLATION; TECHNOLOGY; TISSUE; TWO DIMENSIONAL GEL ELECTROPHORESIS;

EID: 0036143102     PISSN: 0301472X     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0301-472X(01)00771-8     Document Type: Article

References (77)

1. Quantitative monitoring of gene expression patterns with a complementary DNA microarray
2. Accessing genetic information with high-density DNA arrays
3. A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization
4. Exploring the metabolic and genetic control of gene expression on a genomic scale
5. Analysis of gene expression profiles in normal and neoplastic ovarian tissue samples identifies candidate molecular markers of epithelial ovarian cancer
6. Molecular classification of cancer; class discovery and class prediction by gene expression monitoring
7. Identifying intercellular signaling genes expressed in malignant plasma cells by using complementary DNA arrays
8. From proteins to proteomes; large scale protein identification by two-dimensional electrophoresis and amino acid analysis
9. Correlation between protein and mRNA abundance in yeast
10. Tissue-specific microdissection coupled with ProteinChip array technologies; applications in cancer research
11. Mass spectrometry meets chip technology; a new proteomic tool in cancer research?
12. Profiling changes in gene expression during differentiation and maturation of monocyte-derived dendritic cells using both oligonucleotide microarrays and proteomics
13. Large-scale analysis of the yeast proteome by multidimensional protein identification technology
14. Identifying proteins from two-dimensional gels by molecular mass searching of peptide fragments in protein sequence databases
15. Use of mass spectrometric molecular weight information to identify proteins in sequence databases
16. Protein identification in DNA databases by peptide mass fingerprinting
17. Peptide mass maps; a highly informative approach to protein identification
18. Proteomics; quantitative and physical mapping of cellular proteins
19. Two-dimensional gel protein database of Saccharomyces cerevisiae (update 1999)
20. Proteomics in human disease; cancer, heart, and infectious diseases
21. A fast and convenient MALDI-MS-based proteomic approach; identification of components scaffolded by the actin cytoskeleton of activated human thrombocytes
22. UV-induced melanoma cell lines and their potential for proteome analysis; a review
23. Collisional fragmentation of glycopeptides by electrospray ionization LC/MS and LC/MS/MS; methods for selective detection of glycopeptides in protein digests
24. Tandem mass spectrometry of very large protein molecules; serum albumin sequence information from multiply charged ions formed by electrospray ionization
25. Systematic development of on-line membrane preconcentration-capillary electrophoresis-mass spectrometry for the analysis of peptide mixtures
26. Proteome research; complementarity and limitations with respect to the RNA and DNA worlds
27. Analysis of peptide synthesis products by electrospray ionization mass spectrometry
28. Mass spectrometry and the age of the proteome
29. High-throughput profiling of the mitochondrial proteome using affinity fractionation and automation
30. Melanie II-a third-generation software package for analysis of two-dimensional electrophoresis images; I. Features and user interface
31. Evaluation of two-dimensional gel electrophoresis-based proteome analysis technology
32. Towards high-performance two-dimensional gel electrophoresis using ultrazoom gels
33. A comparison of silver stain and SYPRO Ruby Protein Gel Stain with respect to protein detection in two-dimensional gels and identification by peptide mass profiling
34. Improved sensitivity proteomics by postharvest alkylation and radioactive labeling of proteins
35. Mass spectrometric identification of proteins form silver-stained polyacrylamide gel; a method for the removal of silver ions to enhance sensitivity
36. Improvement of resolution, mass accuracy, and reproducibility in reflected mode DE-MALDI-TOF analysis of DNA using fast evaporation-overlayer sample preparations
37. Quantitative analysis of complex protein mixtures using isotope-coded affinity tags
38. Two-dimensional electrophoresis of proteins; an updated protocol and implications for a functional analysis of the genome
39. Identification of human myocardial proteins separated by two-dimensional electrophoresis with matrix-assisted laser desorption/ionization mass spectrometry
40. Distribution of isoforms of the microtubule-associated protein tau in grey and white matter areas of human brain; a two-dimensional gel electrophoretic analysis
41. Analysis of the mouse proteome. Brain proteins; separation by two-dimensional electrophoresis and identification by mass spectrometry and genetic variation
42. Proteasomal proteomics; identification of nucleotide-sensitive proteasome-interacting proteins by mass spectrometric analysis of affinity-purified proteasomes
43. Observations on the reproducibility and matching efficiency of two-dimensional electrophoresis gels; consequences for comprehensive data analysis
44. Interlaboratory reproducibility of yeast protein patterns analyzed by immobilized pH gradient two-dimensional gel electrophoresis
45. Proteomic analysis of laser capture microdissected human prostate cancer and in vitro prostate cell lines
46. High-resolution, IPG-based, mini two-dimensional gel electrophoresis
47. Identification of precursor forms of free prostate-specific antigen in serum of prostate cancer patients by immunosorption and mass spectrometry
48. Detection of aberrantly methylated hMLH1 promoter DNA in the serum of patients with microsatellite unstable colon cancer
49. Global analysis of gene expression in cells of the immune system; I. Analytical limitations in obtaining sequence information on polypeptides in two-dimensional gel spots
50. Profiling changes in gene expression during differentiation and maturation of monocyte-derived dendritic cells using both oligonucleotide arrays and proteomics
51. A fast and convenient MALDI-MS based proteomic approach; identification of components scaffolded by the actin cytoskeleton of activated human thrombocytes
52. The interaction of Arp2:3 complex with actin; nucleation, high affinity pointed end capping, and formation of branching networks
53. Coronin promotes the assembly and cross-linking of actin filaments and may link the actin and microtubule cytoskeletons
54. Utility of accurate mass tags for proteome-wide protein identification
55. Accurate mass determination of a metabolite of a potential diagnostic imaging drug candidate by high performance liquid chromatography with time-of-flight mass spectrometry
56. High-throughput proteome-wide measurements of protein expression using mass spectrometry
57. A high-throughput strategy for proteomics; two-dimensional electrophoretic/chromatographic separations combined with electrospray ionization FTICR mass spectrometry for identification and quantitation of proteomes
58. Accurate quantitation of protein expression and site-specific phosphorylation
59. 15N-metabolic labeling
60. Signaling through scaffold, anchoring, and adaptor proteins
61. The role of phosphorylation in neural and hormonal control of cellular activity
62. Signal integration at the level of protein kinases, protein phosphatases and their substrates
63. Phosphopeptide mapping and phosphoamino acid analysis by electrophoresis and chromatography on thin-layer cellulose plates
64. Phosphorylation of ATPase subunits of the 26S proteasome
65. Identification of the receptor component of the IκBα-ubiquitin ligase
66. Mapping the phosphorylation sites of proteins using on-line immobilized metal affinity chromatography/capillary electrophoresis/electrospray ionization multiple stage tandem mass spectrometry
67. Phosphoprotein isotope-coded affinity tag (PhIAT) approach for isolating and quantitating phosphopeptides in proteome-wide analyses
68. Enrichment analysis of phosphorylated proteins as a tool for probing the phosphoproteome
69. Profiling of amyloid β peptide variants using SELDI ProteinChip arrays
70. The use of SELDI ProteinChip arrays to monitor production of Alzheimer's β-amyloid in transfected cells
71. Printing proteins as microarrays for high-throughput function determination
72. Identification of the proteins of the yeast U1 small nuclear ribonucleoprotein complex by mass spectrometry
73. Proteasomal proteomics; identification of nucleotide-sensitive proteasome-interacting proteins by mass spectrometric analysis of affinity-purified proteasomes
74. UPA, a universal protein array system for quantitative detection of protein-protein, protein-DNA, protein-RNA, and protein-ligand interactions