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After filtering, only uniquely paired peaks that had at least 50%% of reads beginning with an unencoded "G" were considered.
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The procedure for G'-filtering is straightforward: it calculates the percent of reads within a peak that begin with an unencoded "G", and selects the high-confidence TSS peaks based on this percentage.
Because of the ability of the reverse transcriptase (RT) enzyme to transcribe the cap structure [ 13], many sequenced reads which are derived from capped mRNAs will begin with an unencoded "G", a "cap signature" which has been previously reported in both CAGE and nanoCAGE data sets [ 9, 14, 15].
Therefore, instead of selecting for reads beginning with unencoded "G"s, we based our filtering approach on selecting for TSS peaks that are marked with a high proportion of reads starting with unencoded "G"s.
It began with an earthquake.
Peter Capaldi begins with an apology.
It began with an obscenity.
I'll begin with an anecdote.
We begin with an archetypal American scene.
Roubini begins with an indisputable paradox.
Her writing begins with an image.
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