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Therefore, approaches that integrate expression and histone modification data are essential to curate transcription units.
However, simpler models, for instance, predicting gene expression from histone modification data are already very useful.
Although chromatin immunoprecipitation-based histone modification data are often used as proxies for chromatin accessibility, the association between these variables and expression often depends upon the presence of other epigenetic markers (e.g. DNA methylation or histone variants).
Even though the histone modification data are from human sperms rather than testis where meiotic recombination takes place, the consistency between human sperm data and mouse testis data (figs. 3 and 4) indicates that the overrepresentation of H3K4me3 is likely to be a robust trait of recombination hotspots.
In general, all the above-mentioned molecular mechanisms support the hypothesis that ORF histone modification data are better associated with TF binding at the promoter than the promoter histone modification data, further investigation is still needed to determine and verify the underlying mechanism.
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Chromatin modification data was used to predict the functional sites and to further remove false positives.
Histone modification data is quite useful compared to conservation studies because histone modifications strongly correlate with specific biological activities.
The chromatin modification data was obtained from [ 23, 17].
The histone modification data was obtained from Pokholok et al. [ 21].
Histone modification data were taken from ChromatinDB [ 11], a database of genome-wide histone modification patterns for Saccharomyces cerevisiae.
Histone modification data were taken from ChromationDB [ 33], a database of genome-wide histone modification patterns for Saccharomyces cerevisiae.
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