TILAC fraction_design table for EstimateFractions
tilac_fraction_design.RdAn example fraction_design table for a TILAC experiment. TILAC was originally
described in Courvan et al., 2022. In this
method, two populations of RNA, one from s^4U fed cells and one from s^6G fed cells, are pooled
and prepped for sequencing together. This allows for internally controlled comparisons of RNA
abundance without spike-ins. s^4U is recoded to a cytosine analog by TimeLapse chemistry
(or similar chemistry) and s^6G is recoded to an adenine analog. Thus, fraction_design includes
columns called TC and GA. A unique aspect of the TILAC fraction_design table is that
one of the possible populations, TC and GA both TRUE, is denoted as not present (present = FALSE).
This is because there is no RNA was exposed to both s^4U and s^6G, thus a population of reads
with both high T-to-C and G-to-A mutational content should not exist.
Format
tilac_fraction_design
A tibble with 4 rows and 3 columns:
- TC
Boolean denoting if population represented by that row has high T-to-C mutational content
- GA
Boolean denoting if population represented by that row has high G-to-A mutational content
- present
Boolean denoting if population represented by that row is expected to be present in this dataset