S.cerevisiae - Yeastract

Regulation Reference(s)

The Yeastract team, is actively curating each regulation evidence code, association type and environmental condition.

Transcription Factor	Target ORF/Genes	References	Evidence Code	Evidence Experiment	Association Type	Strain	Environmental Condition	Log2FC
Ume6p	YMR045C	PubMed Reimand J et al., Nucleic acids research, 2010 Aug;38(14):4768-77	Indirect	Microarray analysis - WT vs TF Deletion	Positive	BY4741; S288C; R1158	Standard YPD conditions Dataset ewxtracted from The Longhorn Array Database (LAD). Transcription factor gene deletion.	0.90089601673854
		PubMed Harris A et al., Genetics, 2023 Oct 4;225(2):	Indirect	RNA-seq analysis - WT vs TF Deletion	Positive	SK1	Mitotic, 30min: Cells were in mitotic, log-phase growth. They were grown in YPD (1% yeast extract, 2% peptone, 2% dextrose, 22.4 mg/L uracil, 80 mg/L tryptophan) for ~24 h to saturation, then back-diluted into fresh YPD to OD600 = 0.2 and grown ~3 h to log phase (OD600 ≥ 0.5). Once in log phase, β-estradiol (40 nM) was added, followed 30 min later by auxin (200 µM) at t=0min. Sampled at 30 min.	0.542051
			Indirect	RNA-seq analysis - WT vs TF Under-expression	Positive	SK1	Meiotic 0.5h: Cells were transitioning from premeiotic starvation into meiosis. They were grown in YPD for ~24 h to saturation, then inoculated into BYTA (1% yeast extract, 2% bacto tryptone, 1% potassium acetate, 50 mM potassium phthalate) at OD600 = 0.25 and grown 16–18 h at 30 °C to OD600 ≥ 5. Cells were then pelleted, washed with sterile water, and resuspended in SPM (2% KOAc, 0.02% raffinose, amino acid supplements, pH 7) at OD600 = 1.85, shaken at 30 °C and 275 rpm. At 0.5 h in SPM, β-estradiol (5 nM) and auxin (200 µM) were added simultaneously, followed by CuSO4 (50 µM) at 2 h to trigger IME1/4 expression and meiotic entry. Sampled at 0.5 h.	0.923595
			Indirect	RNA-seq analysis - WT vs TF Under-expression	Positive	SK1	Mitotic, 0min: Cells were in mitotic, log-phase growth. They were grown in YPD (1% yeast extract, 2% peptone, 2% dextrose, 22.4 mg/L uracil, 80 mg/L tryptophan) for ~24 h to saturation, then back-diluted into fresh YPD to OD600 = 0.2 and grown ~3 h to log phase (OD600 ≥ 0.5). Once in log phase, β-estradiol (40 nM) was added, followed 30 min later by auxin (200 µM) at t=0min. Sampled at 0 min.	0.379165
			Indirect	RNA-seq analysis - WT vs TF Under-expression	Positive	SK1	Mitotic, 120min: Cells were in mitotic, log-phase growth. They were grown in YPD (1% yeast extract, 2% peptone, 2% dextrose, 22.4 mg/L uracil, 80 mg/L tryptophan) for ~24 h to saturation, then back-diluted into fresh YPD to OD600 = 0.2 and grown ~3 h to log phase (OD600 ≥ 0.5). Once in log phase, β-estradiol (40 nM) was added, followed 30 min later by auxin (200 µM) at t=0min. Sampled at 120 min.	0.336529
			Indirect	RNA-seq analysis - WT vs TF Under-expression	Positive	SK1	Mitotic, 15min: Cells were in mitotic, log-phase growth. They were grown in YPD (1% yeast extract, 2% peptone, 2% dextrose, 22.4 mg/L uracil, 80 mg/L tryptophan) for ~24 h to saturation, then back-diluted into fresh YPD to OD600 = 0.2 and grown ~3 h to log phase (OD600 ≥ 0.5). Once in log phase, β-estradiol (40 nM) was added, followed 30 min later by auxin (200 µM) at t=0min. Sampled at 15 min.	0.416694
			Indirect	RNA-seq analysis - WT vs TF Under-expression	Positive	SK1	Meiotic 2h: Cells were transitioning from premeiotic starvation into meiosis. They were grown in YPD for ~24 h to saturation, then inoculated into BYTA (1% yeast extract, 2% bacto tryptone, 1% potassium acetate, 50 mM potassium phthalate) at OD600 = 0.25 and grown 16–18 h at 30 °C to OD600 ≥ 5. Cells were then pelleted, washed with sterile water, and resuspended in SPM (2% KOAc, 0.02% raffinose, amino acid supplements, pH 7) at OD600 = 1.85, shaken at 30 °C and 275 rpm. At 0.5 h in SPM, β-estradiol (5 nM) and auxin (200 µM) were added simultaneously, followed by CuSO4 (50 µM) at 2 h to trigger IME1/4 expression and meiotic entry. Sampled at 2 h.	1.001697
			Indirect	RNA-seq analysis - WT vs TF Under-expression	Positive	SK1	Mitotic, 30min: Cells were in mitotic, log-phase growth. They were grown in YPD (1% yeast extract, 2% peptone, 2% dextrose, 22.4 mg/L uracil, 80 mg/L tryptophan) for ~24 h to saturation, then back-diluted into fresh YPD to OD600 = 0.2 and grown ~3 h to log phase (OD600 ≥ 0.5). Once in log phase, β-estradiol (40 nM) was added, followed 30 min later by auxin (200 µM) at t=0min. Sampled at 30 min.	0.379725