Genomics Inform.
2015 Dec;13(4):152-155. 10.5808/GI.2015.13.4.152.
Building the Frequency Profile of the Core Promoter Element Patterns in the Three ChromHMM Promoter States at 200bp Intervals: A Statistical Perspective
- Affiliations
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- 1Bioinformatics Laboratory, School of Engineering, Ewha Womans University, Seoul 03760, Korea. neo@ewha.ac.kr
- 2Human Language Technology Program, Department of Linguistics, University of Arizona, Tucson, AZ 85721, USA.
- KMID: 2166531
- DOI: http://doi.org/10.5808/GI.2015.13.4.152
Abstract
- Recently, the Encyclopedia of DNA Elements (ENCODE) Analysis Working Group converted data from ChIP-seq analyses from the Broad Histone track into 15 corresponding chromatic maps that label sequences with different kinds of histone modifications in promoter regions. Here, we publish a frequency profile of the three ChromHMM promoter states, at 200-bp intervals, with particular reference to the existence of sequence patterns of promoter elements, GC-richness, and transcription starting sites. Through detailed and diligent analysis of promoter regions, researchers will be able to uncover new and significant information about transcription initiation and gene function.
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