A physical model for tiling array analysis

A physical model for tiling array analysis

MOTIVATION Chromatin immunoprecipitation (ChIP) is a powerful experimental approach to identify in vivo binding sites of sequence-specific transcription factors (TFs). These experiments are designed to specifically enrich DNA fragments that are bound to the TF. Tiling arrays have become more and more popular for the identification of these DNA fragments. However, many studies showed that only a...

TAAPP: Tiling Array Analysis Pipeline for Prokaryotes

High-density tiling arrays provide closer view of transcription than regular microarrays and can also be used for annotating functional elements in genomes. The identified transcripts usually have a complex overlapping architecture when compared to the existing genome annotation. Therefore, there is a need for customized tiling array data analysis tools. Since most of the initial tiling arrays ...

Investigation of Submerged Vanes Array for Sediment Control at Intake Using a Physical Model

Investigation of Submerged Vanes Array for Sediment Control at Intake Using a Physical Model

NTAP: for NimbleGen tiling array ChIP-chip data analysis

SUMMARY NTAP is designed to analyze ChIP-chip data generated by the NimbleGen tiling array platform and to accomplish various pattern recognition tasks that are useful especially for epigenetic studies. The modular design of NTAP makes the data processing highly customizable. Users can either use NTAP to perform the full process of NimbleGen tiling array data analysis, or choose post-processing...