An error-prone-PCR fast-UTR library introduced random mutations into conserved 160-nt human 3′-UTR segments, and doxycycline transcriptional shutoff time courses in BEAS-2B cells were used to estimate reporter mRNA half-lives.
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Doxycycline reduced reporter transcription by >90% but did not completely stop it. The reported primary model was mRNA(t)=mRNA(0)×2^(−t/half-life); an alternative leak-adjusted model gave similar overall results but was sensitive for short half-lives.
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Column dictionary · 10 definitions
segment_id
Identifier for the tested conserved 3′-UTR segment.
gene
Gene symbol associated with the tested 3′-UTR segment.
chromosome
Chromosome from the source supplementary table.
published_start
Start coordinate as reported in Supplementary Data 2.
published_end
End coordinate as reported in Supplementary Data 2.
strand
Reported genomic strand of the source 3′-UTR.
test_sequence_dna_5to3
Published 160-nt reporter test insert in DNA alphabet, in 5′→3′ insert orientation.
sequence_length_nt
Length of the published test insert in nucleotides.
beas2b_half_life_hours
Published BEAS-2B reporter mRNA half-life estimate in hours, fit from the doxycycline time course.
beas2b_log2_steady_state_mrna
Published BEAS-2B log2 steady-state reporter mRNA activity, included as a matched activity covariate when available.
Quality control
The authors summarized half-lives from clone-level RNA measurements after their read/index filters and fit an exponential decay model. The package retains 1967 rows with finite published BEAS-2B half-life values and a matching sequence record; nd values are excluded. The authors did not use ratios below 1/8 for their primary half-life model because of transcriptional leak.
Curation notes
The error-prone conserved library contained 392,252 clones representing 91.2% of designed segments, with a mean of 1.7 substitutions and 0.7 deleted nucleotides per clone according to Supplementary Note 1. Half-life estimates are segment-level medians from Supplementary Data 3, not direct endogenous transcript half-lives.