Genomics and proteomics: The new millennium of drug discovery and development

Journal of Pharmacological and Toxicological Methods

Volumn 44, Issue 1, 2000, Pages 291-300

  Cunningham, Mary Jane ^a  

^a Genometrix Inc   (United States)

Author keywords

Drug development; Genomics; Microarray; Proteomics; Toxicology

Indexed keywords

OLIGONUCLEOTIDE;

ARTICLE; DNA LIBRARY; DNA SEQUENCE; DRUG INDUSTRY; DRUG RESEARCH; FIBER OPTICS; GENE EXPRESSION REGULATION; GENETIC SCREENING; MASS SPECTROMETRY; POLYACRYLAMIDE GEL ELECTROPHORESIS; PROTEIN EXPRESSION;

DRUG INDUSTRY; GENOMICS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PROTEOME; STATISTICS;

EID: 0034460530     PISSN: 10568719     EISSN: None     Source Type: Journal    
DOI: 10.1016/S1056-8719(00)00111-8     Document Type: Article

References (121)

1. Initial assessment of human gene diversity and expression patterns based upon 83 million nucleotides of cDNA sequence
2. Broad patterns of gene expression revealed by clustering analysis of tumor and normal colon tissues probed by oligonucleotide arrays
3. Fluorescent cDNA microarray hybridization reveals complexity and heterogeneity of cellular genotoxic stress responses
4. A comparison of selected mRNA and protein abundances in human liver
5. A two-dimensional gel database of human plasma proteins
6. A two-dimensional gel database of rat liver proteins useful in gene regulation and drug effect studies
7. An updated two-dimensional gel database of rat liver proteins useful in gene regulation and drug effect studies
8. The effects of peroxisome proliferators on protein abundances in mouse liver
9. Expression of cloned sequences in biopsies of human colonic tissue and in colonic carcinoma cells induced to differentiate in vitro
10. A novel method for nucleic acid sequence determination
11. Development of a toxicological gene array and quantitative assessment of this technology
12. Genosensor technology
13. Molecular classification of cutaneous malignant melanoma by gene expression profiling
14. Scintillation proximity assay
15. The integration of microarray information in the drug development process
16. Drug discovery: Filtering out failures early in the game
17. A proximal CCD imaging system for high-throughput detection of microarray-based assays
18. Knowledge-based analysis of microarray gene expression data by using support vector machines
19. Accessing genetic information with high-density DNA arrays
20. Expression analysis with oligonucleotide microarrays reveals that MYC regulates genes involved in growth, cell cycle, signaling and adhesion
21. Cystic fibrosis mutation detection by hybridization to light-generated DNA probe arrays
22. Application of a genome-based screen
23. Gene expression microarray data analysis for toxicity profiling
24. MicroSAGE: A modified procedure for serial analysis of gene expression in limited amounts of tissue
25. Exploring the metabolic and genetic control of gene expression on a genomic scale
26. Use of a cDNA microarray to analyse gene expression patterns in human cancer
27. Trends in drug development costs, times, and risks
28. Sequencing of megabase plus DNA by hybridization: Theory of the method
29. A proteome analysis of livers from obese (ob/ob) mice treated with the peroxisome proliferator WY14,643
30. A microchip for quantitative detection of molecules utilizing luminescent and radioisotope reporter groups
31. High-throughput arrays for efficient screening and analysis
32. A review of microfabricated devices for gene-based diagnostics
33. Genosensors: Microfabricated devices for automated DNA sequence analysis
34. Cluster analysis and display of genome-wide expression patterns
35. A fiber-optic DNA biosensor microarray for the analysis of gene expression
36. Light-directed, spatially addressable parallel chemical synthesis
37. The application of Shannon entropy in the identification of putative drug targets
38. The application of Shannon entropy in the identification of putative drug targets
39. Analysis of cytokine mRNA and DNA: Detection and quantitation by competitive polymerase chain reaction
40. A comparison of liver protein changes in mice and hamsters treated with the peroxisome proliferator Wy-14,643
41. Molecular classification of cancer: Class discovery and class prediction by gene expression monitoring
42. Exploiting chemical libraries, structure and genomics in the search for kinase inhibitors
43. Hybridization fingerprinting of high-density cDNA-library arrays with cDNA pools derived from whole tissues
44. Direct fluorescence analysis of genetic polymorphisms by hybridization with oligonucleotide arrays on glass supports
45. Manual manufacturing of oligonucleotide, DNA and protein microchips
46. Correlation between protein and mRNA abundance in yeast
47. Detection of heterozygous mutations in BRCA1 using high density oligonucleotide arrays and two-colour fluorescence analysis
48. Development of a high-volume in situ mRNA by hybridization assay for the quantification of gene expression utilizing scintillating microplates
49. Fiberoptic DNA sensor array capable of detecting point mutations
50. Discovery and analysis of inflammatory disease-related genes using cDNA microarrays
51. Simultaneous amplification and detection of specific DNA sequences
52. Kinetic PCR analysis: Real-time monitoring of DNA amplification reactions
53. Statistical analysis of array expression data as applied to the problem of tamoxifen resistance
54. Identifying differences in mRNA expression by representational difference analysis of cDNA
55. Global response of Saccharomyces cerevisiae to an alkylating agent
56. Alterations in rabbit kidney protein expression following lead exposure as analyzed by two-dimensional gel electrophoresis
57. Laser desorption ionization of proteins with molecular masses exceeding 10,000 daltons
58. Inhibition of DNA methyltransferase stimulates the expression of signal transducer and activator of transcription 1, 2, and 3 genes in colon tumor cells
59. Gene expression profiling of alveolar rhabdomyosarcoma with cDNA microarrays
60. An oligonucleotide hybridization approach to DNA sequencing
61. A method for DNA sequencing by hybridization with oligonucleotide matrix
62. Protein mapping by combined isoelectric focusing and electrophoresis of mouse tissues. A novel approach to testing for induced point mutations in mammals
63. Extensive polymorphisms observed in HIV-1 clade B protease gene using high-density oligonucleotide arrays
64. Direct detection of nucleic acid hybridization on the surface of a charge coupled device
65. Whole genome analysis: Experimental access to all genome sequenced segments through larger-scale efficient oligonucleotide synthesis and PCR
66. Yeast microarrays for genome wide parallel genetic and gene expression analysis
67. High-throughput DNA chips for efficient screening and analysis
68. Detection of peroxisome proliferators using a reporter construct derived from the rat acyl-CoA oxidase promoter in the rat liver cell line H-4-II-E
69. Comparative expressed-sequence-tag analysis of differential gene expression profiles in PC-12 cells before and after nerve growth factor treatment
70. Hybridization analyses of arrayed cDNA libraries
71. Differential display of eukaryotic messenger RNA by means of the polymerase chain reaction
72. Cloning the differences between two complex genomes
73. Theoretical analysis of the kinetics of DNA hybridization with gel-immobilized oligonucleotides
74. Expression monitoring by hybridization to high-density oligonucleotide arrays
75. Protein microarrays for gene expression and antibody screening
76. Rapid identification of yeast proteins on two-dimensional gels
77. Identification and verification of differential display cDNAs using gene-specific primers and hybridization arrays
78. Parallel analysis of oligodeoxyribonucleotide (oligonucleotide) interactions: I. Analysis of factors influencing oligonucleotide duplex formation
79. Oligonucleotide hybridizations on glass supports: A novel linker for oligonucleotide synthesis and hybridization properties of oligonucleotides synthesized in situ
80. A study of oligonucleotide reassociation using large arrays of oligonucleotides synthesized on a glass support
81. Biopolymer synthesis on polypropylene supports: Oligonucleotide arrays
82. Light-directed synthesis of high-density oligonucleotide arrays using semiconductor photoresists
83. High-throughput microarray-based enzyme-linked immunosorbent assay (ELISA)
84. Randomly ordered addressable high-density optical sensor arrays
85. A protein expression database for the molecular pharmacology of cancer
86. Differential gene expression in the murine thymus assayed by quantitative hybridization of arrayed cDNA clones
87. High resolution two-dimensional electrophoresis of proteins
88. Large scale cDNA sequencing for analysis of quantitative and qualitative aspects of gene expression
89. Light-generated oligonucleotide arrays for rapid DNA sequence analysis
90. Distinctive gene expression patterns in human mammary epithelial cells and breast cancers
91. Antisense RNA amplification: A linear amplification method for analyzing the mRNA population from single living cells
92. Signaling and circuitry of multiple MAPK pathways revealed by a matrix of global gene expression profiles
93. Recent advances in molecular biological techniques and their relevance to pulmonary research
94. Quantitative monitoring of gene expression patterns with a complementary DNA microarray
95. Parallel human genome analysis: Microarray-based expression monitoring of 1000 genes
96. A gene expression database for the molecular pharmacology of cancer
97. A DNA microarray system for analyzing complex DNA samples using two-color fluorescent probe hybridization
98. Quantification of cytokine mRNA in peripheral blood mononuclear cells using branched DNA (bDNA) technology
99. Analyzing and comparing nucleic acid sequences by hybridization to arrays of oligonucleotides: Evaluation using experimental models
100. Screening unlabeled DNA targets with randomly-ordered fiber-optic gene arrays
101. DNA sequencing by hybridization: 100 bases read by a non-gel-based method
102. Interpreting patterns of gene expression with self-organizing maps: Methods and application to hematopoietic differentiation
103. Systematic determination of genetic network architecture
104. Hybridization of denatured RNA and small DNA fragments transferred to nitrocellulose
105. Toxicity screening of a combinatorial library: Correlation of cytotoxicity and gene induction to compound structure
106. Analysis of gene expression data using self-organizing maps
107. Serial analysis of gene expression
108. Gene microarray identification of redox and mitochondrial elements that control resistance or sensitivity to apoptosis
109. Rapid analysis of gene expression (RAGE) facilitates universal expression profiling
110. Quantitation of mRNA by the polymerase chain reaction
111. Monitoring gene expression profile changes in ovarian carcinomas using cDNA microarray
112. An information-intensive approach to the molecular pharmacology of cancer
113. Large-scale temporal gene expression mapping of central nervous system development
114. Analysis of differential protein expression in normal and neoplastic human breast epithelial cell lines
115. Regional protein alterations in rat kidneys induced by lead exposure
116. Genome-wide expression monitoring in Saccharomyces cerevisiae
117. Identification of differentially expressed genes in human prostate cancer using subtraction and microarray
118. DNA analysis and diagnostics on oligonucleotide microchips
119. Whole genome amplification from a single cell: Implications for genetic analysis
120. Single-base mutational analysis of cancer and genetic diseases using membrane bound modified oligonucleotides
121. High-density cDNA filter analysis: A novel approach for large-scale, quantitative analysis of gene expression