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
Gcn4p	YDL170W	PubMed Lee TI et al., Science, 2002 Oct 25;298(5594):799-804	Direct	Chip-on-chip	N/A	S288c	YPD medium; mid-log phase
		PubMed Harbison CT et al., Nature, 2004 Sep 2;431(7004):99-104	Direct	Chip-on-chip	N/A	S288c	SC medium; mid-log phase
		PubMed Kleinschmidt M et al., Mol Genet Genomics, 2005 Jun;273(5):382-93	Indirect	Microarray analysis - wt vs TF mutant	Negative	S288c	3-aminotriazole
		PubMed Ishida C et al., Mol Microbiol, 2006 Mar;59(6):1790-806	Indirect	Northern blot - wt vs TF mutant	Positive	S288c	3-aminotriazole
		PubMed Workman CT et al., Science, 2006 May 19;312(5776):1054-9	Direct	Chip-on-chip	N/A	S288c	N/A
		PubMed Ernst J et al., Mol Syst Biol, 2007;():Ernst J et al., Mol Syst Biol, 2007;():	Direct	Chip-on-chip	N/A	S288c	Methylmethane sulfonate stress
		PubMed Moxley JF et al., Proc Natl Acad Sci U S A, 2009 Apr 21;106(16):6477-82	Indirect	Microarray analysis - wt vs TF mutant	Positive	BY4741	YNB media
		PubMed Staschke KA et al., J Biol Chem, 2010 May 28;285(22):16893-911	Indirect	lacZ - wt vs TF mutant	Positive	EG328-1A	PUGA3-lacZ reporter plasmid was introduced into wt cells or into cells deleted for GCN4 and GLN3. Cells were cultured in synthetic complete medium supplemented with all amino acids except histidine, treated with 3-AT or rapamycin(Rap) for 6h
			Indirect	lacZ - wt vs TF mutant	Positive	EG328-1A	PUGA3-lacZ reporter plasmid was introduced into wt cells or into cells deleted for GCN4. Cells were cultured in synthetic complete medium supplemented with all amino acids except histidine, treated with 3-AT or rapamycin(Rap) for 6h
			Indirect	Microarray analysis - wt vs TF mutant	Positive	EG328-1A	RNA prepared from wt and DELTAgcn4 cells treated for 1 h with 10 mM 3-AT
			Indirect	Microarray analysis - wt vs TF mutant	Positive	EG328-1A	RNA prepared from wt and DELTAgcn4 cells treated for 1 h with 200 nM Rapamycin
			Indirect	Microarray analysis - wt vs TF mutant	Positive	EG328-1A	RNA prepared from wt and DELTAgcn4DELTAgln3 cells treated for 1 h with 10 mM 3-AT
			Indirect	Microarray analysis - wt vs TF mutant	Positive	EG328-1A	RNA prepared from wt and DELTAgcn4DELTAgln3 cells treated for 1 h with 200 nM Rapamycin
		PubMed McIsaac RS et al., Nucleic Acids Res, 2013 Feb 1;41(4):e57	Indirect	Microarray analysis - wt vs TF overexpression	Positive	S288c	YPD medium; mid-log phase
		PubMed Rawal Y et al., Mol Cell, 2018 Apr 19;70(2):297-311	Direct	ChIP-seq	N/A	BY4741	Cells cultured in synthetic complete medium lacking isoleucine and valine (SC-Ilv) to log-phase (OD600=0.6-0.8) supplemented with SM at 1 microg/mL for 25 min to induce Gcn4 synthesis
		PubMed Holland P et al., Nucleic Acids Res, 2019 Jun 4;47(10):4986-5000	Direct	ChIP-exo	N/A	CEN.PK 113-5D	Cells were cultivated in chemostats in anaerobic glucose limited medium with a dilution rate of 0.1 h-1 at 30.C. Samples were collected after steady state was achieved for 48-60 h
			Direct	ChIP-exo	N/A	CEN.PK 113-5D	Cells were cultivated in chemostats in ethanol limited medium with a dilution rate of 0.1 h-1 at 30.C. Samples were collected after steady state was achieved for 48-60 h
			Direct	ChIP-exo	N/A	CEN.PK 113-5D	Cells were cultivated in chemostats in nitrogen limited medium with a dilution rate of 0.1 h-1 at 30.C. Samples were collected after steady state was achieved for 48-60 h
			Direct	ChIP-exo	N/A	CEN.PK 113-5D	Cells were cultivated in chemostats in respiratory glucose limited medium with a dilution rate of 0.1 h-1 at 30.C. Samples were collected after steady state was achieved for 48-60 h
		PubMed Srinivasan R et al., PLoS Genet, 2020 Dec;16(12):e1009252	Direct	ChIP	N/A	CEN.PK	Cells cultured for 1h in MM medium (Yeast Nitrogen Base with glucose as a carbon source) + Met (2mM methionine)
			Indirect	RNA-seq - wt vs TF mutant	Positive	CEN.PK	Cells cultured for 1h in MM medium (Yeast Nitrogen Base with glucose as a carbon source) + Met (2mM methionine)
		PubMed Rossi MJ et al., Nature, 2021 Apr;592(7853):309-314	Direct	ChIP-exo	N/A	BY4741	YPD medium, 25.C