Optimising oligonucleotide array design for ChIP-on-chip

Multiple Testing Methods For ChIP - Chip High Density Oligonucleotide Array Data

Cawley et al. (2004) have recently mapped the locations of binding sites for three transcription factors along human chromosomes 21 and 22 using ChIP-Chip experiments. ChIP-Chip experiments are a new approach to the genomewide identification of transcription factor binding sites and consist of chromatin (Ch) immunoprecipitation (IP) of transcription factor-bound genomic DNA followed by high den...

Microbubble array for on-chip worm processing

Starr: Simple Tiling ARRay analysis for Affymetrix ChIP-chip data

Starr is an extension of the Ringo [6] package for the analysis of ChIP-chip projects. Whereas the latter is specialized to the processing of Nimblegen and Agilent arrays, the former provides all corresponding features for Affymetrix arrays. Data can be read in from Affymetrix CEL-files, or from text files in gff format. Standard quality assessment and data normalization tools are available. St...

design of an analog fuzzy logic controller chip

fuzzy logic has been developed over the past three decades into a widely applied techinque in classification and control engineering. today fuzzy logic control is one of the most important applications of fuzzy set theory and specially fuzzy logic. there are two general approachs for using of fuzzy control, software and hardware. integrated circuits as a solution for hardware realization are us...

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...