Need to figure out the background for why they did things the way they did them.
Questions and Tasks
[ ] How did they select which RNAi to use?
In the GEO submission they state:
We started with a curated list of transcription factors and related proteins compiled for production of a reagent library at the DRSC (http://www.flyrnai.org/supplement/TranscriptionFactorGenes.xls). We ranked genes on this list as follows - Rank 1: experimental evidence of TF activity and DNA binding, Rank 2: experimental evidence of TF activity and predicted DNA binding, Rank 3: predicted/unknown TF activity and experimental evidence of DNA binding, Rank 4: predicted/unknown TF activity and/or predicted DNA binding, Rank 5: experimental evidence of TF cofactor, Rank 6: predicted TF cofactor, Rank 7: chromatin regulation, Rank 8: little or indirect annotation, Rank 9: no evidence for any TF activity. We then excluded genes with a rank of 8 or 9. We additionally restricted the list to the subset of 483 genes with expression levels higher than signal from intergenic regions in an Drosophila S2R+ RNA-Seq study (Lee et al., 2014. PMID: 25262759).
Story
Need to figure out the background for why they did things the way they did them.
Questions and Tasks
In the GEO submission they state:
Definition of done