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  • ecSeq Bioinformatics
    Senior Member
    • May 2012
    • 499
    #1

    RNA-DNA binding site in Alu Repeat: Why you should allow multiple mapping positions

    In a recent publication a RNA binding site in an Alu repeat was found. The signal was lost, when turning off the multiple mapping parameter of the mapping algorithm.

    Thus, we highly recommend to allow multiple mappings, when analyzing ChIPseq data. You might find fancy stuff!


    Publication:

    Holdt LM, Hoffmann S, Sass K, Langenberger D, Scholz M, et al. (2013) Alu Elements in ANRIL Non-Coding RNA at Chromosome 9p21 Modulate Atherogenic Cell Functions through Trans-Regulation of Gene Networks. PLoS Genet 9(7): e1003588. doi:10.1371/journal.pgen.1003588
    ecSeq Bioinformatics is Europe’s leading provider of hands-on bioinformatics workshops and professional data analysis in the field of Next-Generation Sequencing (NGS).
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