TABLE 2.
The upregulated and downregulated transcription factor genes in fts2Δ cells identified by RNA-Seqa
| Direction of regulation | Tup1-regulated only | Ssn6-regulated only | Tup1-Ssn6-coregulated | Non-Tup1-Ssn6 -regulated |
|---|---|---|---|---|
| Up High (≥5-fold) 6 genes |
E14971 (U37)b,c, C09482 (U76), MHY1 (B21582, U77)b,c, D10681 (U114)b,c, BRG1 (E31757, U127)b,c, E34925 (U151)b,c | |||
| Low (≥2-fold, <5-fold)35 genes | C10010 (U289), C03564 (U366), YAP1 (F03388, U637), PPR1 (B09713, U677), C13178 (U706) B11902 (U530)d | GZF1 (D20482, U299), F03135 (U402), F03157 (U592) F15543 (U273)e | D14872 (U190)b,c, B13354 (U199)b,c, AZF1 (A16841, U203)b,c, PHD1 (B19602, U208)b,c, STP3 (B05478, U221)b, HOY1 (A18469, U223)b, E15510 (U262)b, B12716 (U264)b, NRG1 (C12364, U300)b,c, D05041 (U320)b,c, WOR4 (F19822, U394)b,c, MSN4 (C13750, U403)b,c, F25861 (U463), C01463 (U454)b, F16511 (U478), F17468 (U482), D04466 (U485)b, FTS1 (B04510, U505)b, TEC1 (F15169, U566)b, GZF2 (F17886, U605)b, C11858 (U606), SFL1 (D04785, U727), C08327 (U738)b,c | B13200 (U537), E11693 (U585) |
| Down High (≥5-fold)0 gene |
||||
| Low (≥2-fold, <5-fold)1 gene | E17215 (D99)b,d,e |
For simplicity, “YALI0” in the systematic name of each gene was omitted as “E22286” stands for “YALI0E22286”. Numbers in parentheses indicate each gene’s ranking in the full list of RNA-Seq data set. Genes that displayed significant differential expression (≥2-fold, P < 0.05) in Yltup1Δ or Ylssn6Δ cells compared with wild-type cells are defined as YlTup1-regulated or YlSsn6-regulated. Genes that displayed highly differential expression (≥5-fold, P < 0.05) in Yltup1Δ or Ylssn6Δ cells are in bold.
Genes that are highly differentially expressed in Yltup1Δ cells.
Genes that are highly differentially expressed in Ylssn6Δ cells.
The regulation on this gene by YlTup1 is opposite to the regulation by Fts2.
The regulation on this gene by YlSsn6 is opposite to the regulation by Fts2.