Toward a functional annotation of the human genome using artificial transcription factors.
We have developed a novel, high-throughput approach to collecting randomly perturbed gene-expression profiles from the human genome.A human 293 cell library that stably expresses randomly chosen zinc-finger transcription factors was constructed, and the expression profile of each cell line was obtained using cDNA microarray technology.Gene expression profiles from a total of 132 cell lines were collected and analyzed by (1) a simple clustering method based on expression-profile similarity, and (2) the shortest-path analysis method. These analyses identified a number of gene groups, and further investigation revealed that the genes that were grouped together had close biological relationships. The artificial transcription factor-based random genome perturbation method thus provides a novel functional genomic tool for annotation and classification of genes in the human genome and those of many other organisms.
Lee
Dong-ki
DK
ToolGen, Inc., Yuseong-gu, Daejeon, South Korea, 305-390.
Park
Jin Woo
JW
Kim
Youn-Jae
YJ
Kim
Jiwon
J
Lee
Yangsoon
Y
Kim
Jeonglim
J
Kim
Jin-Soo
JS
D000951:Antigens, Neoplasm / Q000235:genetics / Q000502:physiology; D002460:Cell Line; D019295:Computational Biology / Q000379:methods* / Q000706:statistics & numerical data; D004268:DNA-Binding Proteins / Q000235:genetics / Q000502:physiology; D020869:Gene Expression Profiling / Q000379:methods / Q000706:statistics & numerical data; D005786:Gene Expression Regulation / Q000235:genetics; D008040:Genetic Linkage; D015894:Genome, Human; D006801:Humans; D008545:Melanoma / Q000235:genetics; D005810:Multigene Family; D020411:Oligonucleotide Array Sequence Analysis / Q000379:methods / Q000706:statistics & numerical data; D011994:Recombinant Proteins / Q000032:analysis; D014157:Transcription Factors / Q000235:genetics / Q000502:physiology*; D016335:Zinc Fingers / Q000235:genetics
D000951:Antigens, Neoplasm; D004268:DNA-Binding Proteins; D011994:Recombinant Proteins; D014157:Transcription Factors; C076877:SPIB protein, human