ACT: aggregation and correlation toolbox for analyses of genome tracks
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AbstractWe have implemented aggregation and correlation toolbox ( ACT), an efficient, multifaceted toolbox for analyzing continuous signal and discrete region tracks from high-throughput genomic experiments, such as RNA-seq or ChIP-chip signal profiles from the ENCODE and modENCODE projects, or lists of single nucleotide polymorphisms from the 1000 genomes project. It is able to generate aggregate profiles of a given track around a set of specified anchor points, such as transcription start sites. It is also able to correlate related tracks and analyze them for saturation-i.e. how much of a certain feature is covered with each new succeeding experiment. The ACT site contains downloadable code in a variety of formats, interactive web servers ( for use on small quantities of data), example datasets, documentation and a gallery of outputs. Here, we explain the components of the toolbox in more detail and apply them in various contexts.
All Author(s) ListJee J, Rozowsky J, Yip KY, Lochovsky L, Bjornson R, Zhong GN, Zhang ZD, Fu YT, Wang J, Weng ZP, Gerstein M
Journal nameBioinformatics
Detailed descriptionTo ORKTS: I am one of the co-first authors.

2012 ISI journal impact factor: 5.323
Volume Number27
Issue Number8
PublisherOxford University Press (OUP): Policy B - Oxford Open Option B
Pages1152 - 1154
LanguagesEnglish-United Kingdom
Web of Science Subject CategoriesBiochemical Research Methods; BIOCHEMICAL RESEARCH METHODS; Biochemistry & Molecular Biology; Biotechnology & Applied Microbiology; BIOTECHNOLOGY & APPLIED MICROBIOLOGY; Computer Science; Computer Science, Interdisciplinary Applications; Mathematical & Computational Biology; MATHEMATICAL & COMPUTATIONAL BIOLOGY; Mathematics; Statistics & Probability

Last updated on 2020-04-04 at 10:37