For each target gene, we identify its TF from either literature survey or ChIP-chip data.
We performed a systematic survey of ChIP quality for publicly available vertebrate ChIP-seq datasets and found that more than half score as high quality by our measures.
This broad survey of ChIP-Seq data from diverse studies provides greater clarity about the properties of the data that impact the quality of interpretation.
Overall, this paper presents a timely and useful survey of CHIP-seq computational pipelines and while it might be of most interest for a relatively narrow community of bioinformaticians involved with NGS-seq data analysis, it is also could serve as a guide for the growing number of bio-medical researchers involved in translational and clinical applications of NGS technologies.
Despite the fact that microarray-based chromatin immuneprecipitation (ChIP) method, ChIP-chip, is gradually being replaced by the emerging sequencing-based method such as ChIP seq, both methods are currently being used in many laboratories as a major tool to survey transcription factor binding patterns, study various histone modifications in an unbiased manner.
First the two scenarios: The consensus forecast is based on the Blue Chip survey and the Survey of Professional Forecasters, as of February.
Compare the institute's forecast with the latest Blue Chip survey, which was released on Friday.
"Failure by Republicans in Congress to repeal and replace the Affordable Care Act and to pass tax reform legislation this year would likely prompt panelists to cut their forecasts of economic growth for 2017 and 2018," Randell E. Moore, the executive editor of the Blue Chip survey, noted recently.
Analysing rural data from the China Household Income Project (CHIP) survey 2002, Zeng and Xie (2014) show for instance that the effect of coresident grandparents' education on grandchildren's educational attainment is as large as that of parental education (while this is not the case for non-coresident grandparents).
Our gene chip survey of gene expression shows that whereas 89% of the protein coding genes in mouse stem cells do not respond to the applied terahertz radiation, certain genes are activated, while other are repressed.
With a limited survey of the ChIP DNA pool, it is difficult to distinguish between genuine signal and noise.
