The combination of the ChIP process and microarray DNA chip technologies lead to the method of Chip-on-chip [ 5] or ChIP-chip [ 6] that can identify DNA fragments isolated by ChIP using a DNA microarray containing large numbers of probes of known genomic sequences.
The method of ChIP-PCR normalization is explained in the Material and methods section.
To further refine the set of distal DHSs to include only active enhancers, investigators use the method of ChIP-seq and antibodies specific to histone modifications.
To verify the reliability of our ChIP-on-chip results, the method of ChIP-qPCR was used to detect the promoter sequences of randomly selected genes in samples of our output DNA.
Officials say the Albany center's first task will be to develop improved methods of chip lithography, the etching of minute patterns into chips, particularly with ultraviolet light.
These once-novel methods of chip design have done respectably in specialist applications, but have not dethroned Intel as it was suggested they might when they were launched.
Rapid developments in the design of chips and electronic devices for high-performance computers have led to a need for new and more effective methods of chip cooling.
Indeed, the performance of traditional motif finding methods on ChIP sequence sets managed to redeem their bad reputation in several cases, by actually 'discovering' the sites bound by the TF (see among many others [ 80 83]).
Indeed, the recited methods of Chip-PET and ChIP-seq appear to have very high quality.
Their work offers a variety of ways to assess the performance of each algorithm and address the questions as to how to select the most suitable among several available methods of ChIP-seq analysis for peak detection.
We provide a robust, yet simple method for ChIP-seq of 10,000 cells, which should be applicable to almost any histone modification and compatible with most working ChIP protocols.
