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In keeping with the freelance atmosphere of military control in the capital, Reuters journalists said they saw Mr. Dorda, a former prime minister who ran Colonel Qaddafi's foreign intelligence service, being held in a private house by a rebel unit calling itself the Brigades of the Martyr Abdelati Ghaddour.
This is similar to the genome-wide transcription unit calling algorithm in that it uses binary observation values, but also similar to the regional transition point calling in that it is done in individual genes.
Also, genes that have premature termination before the annotated 3′ ends and/or the 60 kb/150 kb mark are removed using a regional transcription unit calling algorithm (described below in this section).
First, we selected genes longer than a sufficient cut-off for each time-point (30 kb for 5 min and 12.5 min, 60 kb for 25 min, and 150 kb for 50 min), that have corresponding transcription units at the annotated TSS, but do not contain intragenic transcription units defined by the genome-wide transcription unit calling algorithm (described below in this section).
Using untreated GRO-seq data, we generated binary bins from TSSs defined by the genome-wide transcription unit calling algorithm to 50 kb downstream of the annotated 3′ end in each individual gene, and used these values to estimate the probability parameters of the HMM.
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