Protein-DNA interaction mapping using genomic tiling path microarrays in Drosophila.

Analysis of oligo hybridization properties by high-resolution tiling microarrays in rice Analysis of oligo hybridization properties by high-resolution tiling microarrays in rice

Rice genome sequencing and computational annotation provide a static map for understanding this model of Gramineae species. With the development of in situ oligonucleotide synthesis technology, tiling-path microarrays have become a dynamic and efficient way for monitoring large-scale transcriptional activities and detecting novel transcribed elements missed by software. Unlike conventional cDNA...

Analysis of Genomic Tiling Microarrays for Transcript Mapping and the Identification of Transcription Factor Binding Sites

Chromosomal Distribution of PcG Proteins during Drosophila Development

Polycomb group (PcG) proteins are able to maintain the memory of silent transcriptional states of homeotic genes throughout development. In Drosophila, they form multimeric complexes that bind to specific DNA regulatory elements named PcG response elements (PREs). To date, few PREs have been identified and the chromosomal distribution of PcG proteins during development is unknown. We used chrom...

Efficient Computational Design of Tiling Arrays Using a Shortest Path Approach

Genomic tiling arrays are a type of DNA microarrays which can investigate the complete genome of arbitrary species for which the sequence is known. The design or selection of suitable oligonucleotide probes for such arrays is however computationally difficult if features such as oligonucleotide quality and repetitive regions are to be considered. We formulate the minimal cost tiling path proble...

Mapping the genome landscape using tiling array technology.

With the availability of complete genome sequences for a growing number of organisms, high-throughput methods for gene annotation and analysis of genome dynamics are needed. The application of whole-genome tiling microarrays for studies of global gene expression is providing a more unbiased view of the transcriptional activity within genomes. For example, this approach has led to the identifica...