Genome-wide location analysis, or ChIP-CHIP analysis (chromatin immunoprecipitation (ChIP) followed by DNA microarrays (CHIP)) allows the identification of direct targets of a defined TF on a genomic scale [ 14].
Coupled with whole-genome DNA microarrays, ChIPs allow one to determine the entire spectrum of in vivo DNA binding sites for any given protein.
The advent of the microarray, or cDNA chip, allows investigators to search through thousands of genes simultaneously, making the process very efficient.
Moreover, a major concern is that microarray chip surfaces allow non-specific binding of endogenous cellular proteins.
The approach outlined here, termed RNP immunoprecipitation-microarray (RIP-Chip), allows the identification of discrete subsets of RNAs associated with multi-targeted RNA-binding proteins and provides information regarding changes in the intracellular composition of mRNPs in response to physical, chemical or developmental inducements of living systems.
The advent of high-throughput technologies, such as transcript microarray chips, has allowed simultaneous interrogation of multiple molecular components at any given time.
In particular, the use of DNA microarray methodology (ChIP-on-chip) allows for high-throughput analysis of thousands of genomic sequences simultaneously [ 3].
Each dot represents data associated with a specific biological perturbation that was obtained from analysis of at least four different microarray chips and thus allows performing a significance test.
Our cell microarray chip has been improved to allow the regular dispersion of an erythrocyte suspension in a nuclear staining fluorescence dye in the microchambers, with the formation of a monolayer, and analysis with a microarray scanner for detection of the presence of fluorescence-positive nuclei in erythrocytes (Fig. 1a-c).
The erythrocyte suspension was dispersed manually on the cell microarray chip using a pipette, followed by 10 min standing, to allow the erythrocytes to settle down into the microchambers under gravitational force, and then nuclear staining with SYTO 59.
