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	YOL058W	PubMed Natarajan K et al., Mol Cell Biol, 2001 Jul;21(13):4347-68	Indirect	Microarray analysis - wt vs TF mutant	Positive	S288c	SC medium + 100mM 3-aminotriazole
		PubMed Turner SD et al., Mol Cell Biol, 2002 Jun;22(12):4011-9	Indirect	lacZ - wt vs TF mutant	Positive	S288c	cells grown in rich medium (ariginine-repressing conditions)
		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 Yin Z et al., Proteomics, 2004 Aug;4(8):2425-36	Indirect	Proteomics - wt vs TF mutant	Positive	S288c	SC-HIS medium + 3-aminotriazole
		PubMed Yoon S et al., Proc Natl Acad Sci U S A, 2004 Aug 10;101(32):11713-8	Indirect	Northern blot - wt vs TF mutant	Positive	S288c	cells grown in synthetic medium without arginine, treated with sulfometuron methyl (induction of Gcn4 synthesis by isoleucine-valine starvation)
		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	Positive	S288c	3-aminotriazole
		PubMed Conesa C et al., Mol Cell Biol, 2005 Oct;25(19):8631-42	Indirect	Microarray analysis - wt vs TF mutant	Positive	YNN282	Constitutive derepression conditions;
		PubMed Kim SJ et al., Mol Cell Biol, 2005 Dec;25(24):11171-83	Direct	ChIP	N/A	S288c	exposure to sulfometuron methyl
		PubMed Chua G et al., Proc Natl Acad Sci U S A, 2006 Aug 8;103(32):12045-50	Indirect	Microarray analysis - wt vs TF overexpression	Positive	N/A	Cells grown in selective medium supplemented with 2% raffinose before induction with 2% galactose for 3 h
		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 Shirra MK et al., J Biol Chem, 2008 Dec 19;283(51):35889-98	Indirect	Northern blot - wt vs TF mutant	Positive	S288c	SC medium; mid-log phase
		PubMed Yoon S et al., Biochem Biophys Res Commun, 2009 Mar 27;381(1):123-8	Direct	ChIP	N/A	S288c	N/A
		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	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 Hong S et al., Amino Acids, 2011 Feb;40(2):623-31	Direct	Northern blot - wt vs mutant promoter sequence	Positive	S288c	arginine starvation
		PubMed Fendt SM et al., Mol Syst Biol, 2010;():	Indirect	Microarray analysis - wt vs TF mutant	Positive	S288c	YPD medium; mid-log phase
		PubMed Uluisik I et al., PLoS One, 2011;6(11):e27772	Indirect	Microarray analysis - wt vs TF mutant	Positive	BY4741	20 mM boric acid for 1h
		PubMed Crisucci EM et al., Mol Cell Biol, 2012 Mar;32(6):1150-63	Direct	ChIP	N/A	S288c	YPD medium; mid-log phase
		PubMed Mousley CJ et al., Cell, 2012 Feb 17;148(4):702-15	Direct	ChIP	N/A	S288c	3-aminotriazole
		PubMed Rosonina E et al., Genes Dev, 2012 Feb 15;26(4):350-5	Direct	ChIP	N/A	S288c	aa starvation (Ile and Val)
		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 Qiu H et al., Genome Res, 2016 Feb;26(2):211-25	Direct	ChIP	N/A	S288c	CellsÂ grown in synthetic complete medium lacking isoleucine and valine (SC-Ilv) to log-phase (OD600Â = 0.6â€“0.8), and SM was added at 1 microg/mL for 30 min to induce Gcn4.Â
		PubMed Mittal N et al., Nat Commun, 2017 Sep 6;8(1):457	Direct	ChIP-seq	N/A	BY4741	Cells grown on YPD and collected in mid-log phase at OD600 of 0.4-0.8
		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 Walvekar AS et al., Mol Biol Cell, 2018 Oct 24;29(26):3183-3200	Indirect	RNA-seq - wt vs TF mutant	Positive	CEN.PK	RM (1% yeast extract, 2% peptone, and 2% lactate) medium grown cells shifted to MM (0.17% yeast nitrogen base without amino acids, 0.5% ammonium sulfate, and 2% lactate) medium with methionine supplementation
		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