== EXPORT :: BEGIN ========
HEADER: [Reference][Year][Description][PMID][#Motifs in DB]

ROW: (Zhu J, Zhang MQ. SCPD: a promoter database of the yeast Saccharomyces cerevisiae. Bioinformatics. 1999 Jul-Aug;15(7-8):607-11.)(1999)(alignments of various mapped sites)(10487868)(20)
ROW: (Williams RM, Primig M, Washburn BK, Winzeler EA, Bellis M, Sarrauste de Menthiere C, Davis RW, Esposito RE. The Ume6 regulon coordinates metabolic and meiotic gene expression in yeast. Proc Natl Acad Sci U S A. 2002 Oct 15;99(21):13431-6. Epub  2002 Oct 7.)(2002)(alignments of various sites under same control)(12370439)(1)
ROW: (Spode I, Maiwald D, Hollenberg CP, Suckow M. ATF/CREB sites present in sub-telomeric regions of Saccharomyces cerevisiae chromosomes are part of promoters and act as UAS/URS of highly conserved COS genes. J Mol Biol. 2002 May 31;319(2):407-20.)(2002)(alignments of various sites under same control)(12051917)(2)
ROW: (Kim TS, Kim HY, Yoon JH, Kang HS. Recruitment of the Swi/Snf complex by Ste12-Tec1 promotes Flo8-Mss11-mediated activation of STA1 expression. Mol Cell Biol. 2004 Nov;24(21):9542-56.)(2004)(analysis of two binding sites)(15485921)(2)
ROW: (Kent NA, Eibert SM, Mellor J. Cbf1p is required for chromatin remodeling at promoter-proximal CACGTG motifs in yeast. J Biol Chem. 2004 Jun 25;279(26):27116-23. Epub  2004 Apr 24.)(2004)(ChIP)(15111622)(1)
ROW: (Eriksson PR, Mendiratta G, McLaughlin NB, Wolfsberg TG, Mariño-Ramírez L, Pompa TA, Jainerin M, Landsman D, Shen CH, Clark DJ. Global regulation by the yeast Spt10 protein is mediated through chromatin structure and the histone upstream activating sequence elements. Mol Cell Biol. 2005 Oct;25(20):9127-37.)(2005)(ChIP, EMSA)(16199888)(1)
ROW: (Wysocki R, Fortier PK, Maciaszczyk E, Thorsen M, Leduc A, Odhagen A, Owsianik G, Ulaszewski S, Ramotar D, Tamás MJ. Transcriptional activation of metalloid tolerance genes in Saccharomyces cerevisiae requires the AP-1-like proteins Yap1p and Yap8p. Mol Biol Cell. 2004 May;15(5):2049-60. Epub  2004 Feb 20.)(2004)(ChIP, expression enrichment)(14978214)(1)
ROW: (Hikkel I, Lucau-Danila A, Delaveau T, Marc P, Devaux F, Jacq C. A general strategy to uncover transcription factor properties identifies a new regulator of drug resistance in yeast. J Biol Chem. 2003 Mar 28;278(13):11427-32. Epub  2003 Jan 14.)(2003)(ChIP, microarray Enrichment)(12529331)(1)
ROW: (Ghosh S, Pugh BF. Sequential recruitment of SAGA and TFIID in a genomic response to DNA damage in Saccharomyces cerevisiae. Mol Cell Biol. 2011 Jan;31(1):190-202. Epub  2010 Oct 18.)(2011)(ChIP-chip)(20956559)(1)
ROW: (Moqtaderi Z, Struhl K. Genome-wide occupancy profile of the RNA polymerase III machinery in Saccharomyces cerevisiae reveals loci with incomplete transcription complexes. Mol Cell Biol. 2004 May;24(10):4118-27.)(2004)(ChIP-chip)(15121834)(1)
ROW: (Lieb JD, Liu X, Botstein D, Brown PO. Promoter-specific binding of Rap1 revealed by genome-wide maps of protein-DNA association. Nat Genet. 2001 Aug;28(4):327-34.)(2001)(ChIP-chip)(11455386)(1)
ROW: (Qi Y, Rolfe A, MacIsaac KD, Gerber GK, Pokholok D, Zeitlinger J, Danford T, Dowell RD, Fraenkel E, Jaakkola TS, Young RA, Gifford DK. High-resolution computational models of genome binding events. Nat Biotechnol. 2006 Aug;24(8):963-70.)(2006)(ChIP-chip)(16900145)(2)
ROW: (Iyer VR, Horak CE, Scafe CS, Botstein D, Snyder M, Brown PO. Genomic binding sites of the yeast cell-cycle transcription factors SBF and MBF. Nature. 2001 Jan 25;409(6819):533-8.)(2001)(ChIP-chip)(11206552)(2)
ROW: (Lavoie H, Hogues H, Mallick J, Sellam A, Nantel A, Whiteway M.  Evolutionary tinkering with conserved components of a transcriptional regulatory network. PLoS Biol. 2010 Mar 9;8(3):e1000329.)(2010)(ChIP-chip)(20231876)(4)
ROW: (Tan K, Feizi H, Luo C, Fan SH, Ravasi T, Ideker TG. A systems approach to delineate functions of paralogous transcription factors: role of the Yap family in the DNA damage response. Proc Natl Acad Sci U S A. 2008 Feb 26;105(8):2934-9. Epub  2008 Feb 19.)(2008)(ChIP-chip)(18287073)(5)
ROW: (Chen X, Guo L, Fan Z, Jiang T. W-AlignACE: an improved Gibbs sampling algorithm based on more accurate position weight matrices learned from sequence and gene expression/ChIP-chip data. Bioinformatics. 2008 May 1;24(9):1121-8. Epub  2008 Mar 5.)(2008)(ChIP-chip)(18325926)(33)
ROW: (Harbison CT, Gordon DB, Lee TI, Rinaldi NJ, Macisaac KD, Danford TW, Hannett NM, Tagne JB, Reynolds DB, Yoo J, Jennings EG, Zeitlinger J, Pokholok DK, Kellis M, Rolfe PA, Takusagawa KT, Lander ES, Gifford DK, Fraenkel E, Young RA. Transcriptional regulatory code of a eukaryotic genome. Nature. 2004 Sep 2;431(7004):99-104.)(2004)(ChIP-chip)(15343339)(65)
ROW: (Lee TI, Rinaldi NJ, Robert F, Odom DT, Bar-Joseph Z, Gerber GK, Hannett NM, Harbison CT, Thompson CM, Simon I, Zeitlinger J, Jennings EG, Murray HL, Gordon DB, Ren B, Wyrick JJ, Tagne JB, Volkert TL, Fraenkel E, Gifford DK, Young RA. Transcriptional regulatory networks in Saccharomyces cerevisiae. Science. 2002 Oct 25;298(5594):799-804.)(2002)(ChIP-chip)(12399584)(100)
ROW: (MacIsaac KD, Wang T, Gordon DB, Gifford DK, Stormo GD, Fraenkel E. An improved map of conserved regulatory sites for Saccharomyces cerevisiae. BMC Bioinformatics. 2006 Mar 7;7:113.)(2006)(ChIP-chip)(16522208)(125)
ROW: (Reddy TE, DeLisi C, Shakhnovich BE. Binding site graphs: a new graph theoretical framework for prediction of transcription factor binding sites. PLoS Comput Biol. 2007 May;3(5):e90. Epub  2007 Apr 10.)(2006)(ChIP-chip)(17500587)(261)
ROW: (Foat BC, Tepper RG, Bussemaker HJ. TransfactomeDB: a resource for exploring the nucleotide sequence specificity and condition-specific regulatory activity of trans-acting factors. Nucleic Acids Res. 2008 Jan;36(Database issue):D125-31. Epub  2007 Oct 18.)(2008)(ChIP-chip)(17947326)(445)
ROW: (Pachkov M, Erb I, Molina N, van Nimwegen E. SwissRegulon: a database of genome-wide annotations of regulatory sites. Nucleic Acids Res. 2007 Jan;35(Database issue):D127-31. Epub  2006 Nov 27.)(2007)(ChIP-chip, conservation, combination of existing motifs)(17130146)(81)
ROW: (Morozov AV, Siggia ED. Connecting protein structure with predictions of regulatory sites. Proc Natl Acad Sci U S A. 2007 Apr 24;104(17):7068-73. Epub  2007 Apr 16.)(2007)(ChIP-chip, structural prior)(17438293)(79)
ROW: (Sarver A, DeRisi J. Fzf1p regulates an inducible response to nitrosative stress in Saccharomyces cerevisiae. Mol Biol Cell. 2005 Oct;16(10):4781-91. Epub  2005 Jul 12.)(2005)(comparative genomics)(16014606)(1)
ROW: (Kellis M, Patterson N, Endrizzi M, Birren B, Lander ES. Sequencing and comparison of yeast species to identify genes and regulatory elements. Nature. 2003 May 15;423(6937):241-54.)(2003)(Conservation)(12748633)(41)
ROW: (Sato T, Lopez MC, Sugioka S, Jigami Y, Baker HV, Uemura H. The E-box DNA binding protein Sgc1p suppresses the gcr2 mutation, which is involved in transcriptional activation of glycolytic genes in Saccharomyces cerevisiae. FEBS Lett. 1999 Dec 17;463(3):307-11.)(1999)(DNase footprinting)(10606743)(1)
ROW: (Mamnun YM, Pandjaitan R, Mahé Y, Delahodde A, Kuchler K. The yeast zinc finger regulators Pdr1p and Pdr3p control pleiotropic drug resistance (PDR) as homo- and heterodimers in vivo. Mol Microbiol. 2002 Dec;46(5):1429-40.)(2002)(DNase footprinting)(12453227)(2)
ROW: (Hallstrom TC, Moye-Rowley WS. Divergent transcriptional control of multidrug resistance genes in Saccharomyces cerevisiae. J Biol Chem. 1998 Jan 23;273(4):2098-104.)(1998)(DNase footprinting, site-turns-on-gene)(9442049)(2)
ROW: (Roy A, Exinger F, Losson R. cis- and trans-acting regulatory elements of the yeast URA3 promoter. Mol Cell Biol. 1990 Oct;10(10):5257-70.)(1990)(DNase protection)(2204810)(1)
ROW: (Kim JH, Polish J, Johnston M. Specificity and regulation of DNA binding by the yeast glucose transporter gene repressor Rgt1. Mol Cell Biol. 2003 Aug;23(15):5208-16.)(2003)(DNase protection, methylation protection, EMSA, ChIP)(12861007)(1)
ROW: (Hagen DC, Bruhn L, Westby CA, Sprague GF Jr. Transcription of alpha-specific genes in Saccharomyces cerevisiae: DNA sequence requirements for activity of the coregulator alpha 1. Mol Cell Biol. 1993 Nov;13(11):6866-75.)(1993)(DNase/methyl protection, mutational analysis)(8413280)(1)
ROW: (Li D, Dong Y, Jiang Y, Jiang H, Cai J, Wang W. A de novo originated gene depresses budding yeast mating pathway and is repressed by the protein encoded by its antisense strand. Cell Res. 2010 Apr;20(4):408-20. Epub  2010 Mar 2.)(2010)(EMSA)(20195295)(1)
ROW: (Heise B, van der Felden J, Kern S, Malcher M, Brückner S, Mösch HU. The TEA transcription factor Tec1 confers promoter-specific gene regulation by Ste12-dependent and -independent mechanisms. Eukaryot Cell. 2010 Apr;9(4):514-31. Epub  2010 Jan 29.)(2010)(EMSA)(20118212)(1)
ROW: (Li S, Dean S, Li Z, Horecka J, Deschenes RJ, Fassler JS. The eukaryotic two-component histidine kinase Sln1p regulates OCH1 via the transcription factor, Skn7p. Mol Biol Cell. 2002 Feb;13(2):412-24.)(2002)(EMSA)(11854400)(1)
ROW: (Proft M, Serrano R. Repressors and upstream repressing sequences of the stress-regulated ENA1 gene in Saccharomyces cerevisiae: bZIP protein Sko1p confers HOG-dependent osmotic regulation. Mol Cell Biol. 1999 Jan;19(1):537-46.)(1999)(EMSA)(9858577)(1)
ROW: (Huang M, Zhou Z, Elledge SJ. The DNA replication and damage checkpoint pathways induce transcription by inhibition of the Crt1 repressor. Cell. 1998 Sep 4;94(5):595-605.)(1998)(EMSA)(9741624)(1)
ROW: (Reardon BJ, Gordon D, Ballard MJ, Winter E. DNA binding properties of the Saccharomyces cerevisiae DAT1 gene product. Nucleic Acids Res. 1995 Dec 11;23(23):4900-6.)(1995)(EMSA)(8532535)(1)
ROW: (Passmore S, Elble R, Tye BK.  A protein involved in minichromosome maintenance in yeast binds a transcriptional enhancer conserved in eukaryotes. Genes Dev. 1989 Jul;3(7):921-35.)(1989)(EMSA)(2673922)(1)
ROW: (Soontorngun N, Larochelle M, Drouin S, Robert F, Turcotte B. Regulation of gluconeogenesis in Saccharomyces cerevisiae is mediated by activator and repressor functions of Rds2. Mol Cell Biol. 2007 Nov;27(22):7895-905. Epub  2007 Sep 17.)(2007)(EMSA)(17875938)(2)
ROW: (Mendizabal I, Pascual-Ahuir A, Serrano R, de Larrinoa IF. Promoter sequences regulated by the calcineurin-activated transcription factor Crz1 in the yeast ENA1 gene. Mol Genet Genomics. 2001 Jul;265(5):801-11.)(2001)(EMSA)(11523797)(2)
ROW: (Rutherford JC, Jaron S, Ray E, Brown PO, Winge DR. A second iron-regulatory system in yeast independent of Aft1p. Proc Natl Acad Sci U S A. 2001 Dec 4;98(25):14322-7.)(2001)(EMSA of related protein's known BS)(11734641)(1)
ROW: (Blaiseau PL, Thomas D. Multiple transcriptional activation complexes tether the yeast activator Met4 to DNA. EMBO J. 1998 Nov 2;17(21):6327-36.)(1998)(EMSA, )(9799240)(2)
ROW: (Conlan RS, Tzamarias D. Sfl1 functions via the co-repressor Ssn6-Tup1 and the cAMP-dependent protein kinase Tpk2. J Mol Biol. 2001 Jun 22;309(5):1007-15.)(2001)(EMSA, ChIP)(11399075)(1)
ROW: (Moreau JL, Lee M, Mahachi N, Vary J, Mellor J, Tsukiyama T, Goding CR. Regulated displacement of TBP from the PHO8 promoter in vivo requires Cbf1 and the Isw1 chromatin remodeling complex. Mol Cell. 2003 Jun;11(6):1609-20.)(2003)(EMSA, ChIP, single binding site)(12820973)(1)
ROW: (Newcomb LL, Hall DD, Heideman W. AZF1 is a glucose-dependent positive regulator of CLN3 transcription in Saccharomyces cerevisiae. Mol Cell Biol. 2002 Mar;22(5):1607-14.)(2002)(EMSA, ChIP, single binding site)(11839825)(1)
ROW: (Hall DA, Zhu H, Zhu X, Royce T, Gerstein M, Snyder M. Regulation of gene expression by a metabolic enzyme. Science. 2004 Oct 15;306(5695):482-4.)(2004)(EMSA, ChIP-chip)(15486299)(1)
ROW: (Maxon ME, Herskowitz I. Ash1p is a site-specific DNA-binding protein that actively represses transcription. Proc Natl Acad Sci U S A. 2001 Feb 13;98(4):1495-500.)(2001)(EMSA, DNase footprinting, single site mutagenesis)(11171979)(1)
ROW: (Foti DM, Welihinda A, Kaufman RJ, Lee AS. Conservation and divergence of the yeast and mammalian unfolded protein response. Activation of specific mammalian endoplasmic reticulum stress element of the grp78/BiP promoter by yeast Hac1. J Biol Chem. 1999 Oct 22;274(43):30402-9.)(1999)(EMSA, DNase protection)(10521417)(1)
ROW: (Park SH, Koh SS, Chun JH, Hwang HJ, Kang HS. Nrg1 is a transcriptional repressor for glucose repression of STA1 gene expression in Saccharomyces cerevisiae. Mol Cell Biol. 1999 Mar;19(3):2044-50.)(1999)(EMSA, DNase protection)(10022891)(1)
ROW: (Madison JM, Dudley AM, Winston F. Identification and analysis of Mot3, a zinc finger protein that binds to the retrotransposon Ty long terminal repeat (delta) in Saccharomyces cerevisiae. Mol Cell Biol. 1998 Apr;18(4):1879-90.)(1998)(EMSA, DNase protection)(9528759)(1)
ROW: (Barbaric S, Münsterkötter M, Goding C, Hörz W. Cooperative Pho2-Pho4 interactions at the PHO5 promoter are critical for binding of Pho4 to UASp1 and for efficient transactivation by Pho4 at UASp2. Mol Cell Biol. 1998 May;18(5):2629-39.)(1998)(EMSA, DNase protection, DMS footprinting)(9566882)(1)
ROW: (Sirenko OI, Ni B, Needleman RB. Purification and binding properties of the Mal63p activator of Saccharomyces cerevisiae. Curr Genet. 1995 May;27(6):509-16.)(1995)(EMSA, DNase protection, methylation protection.)(7553934)(1)
ROW: (Jang YK, Wang L, Sancar GB. RPH1 and GIS1 are damage-responsive repressors of PHR1. Mol Cell Biol. 1999 Nov;19(11):7630-8.)(1999)(EMSA, DNase protection, one-hybrid)(10523651)(2)
ROW: (Zhao H, Butler E, Rodgers J, Spizzo T, Duesterhoeft S, Eide D. Regulation of zinc homeostasis in yeast by binding of the ZAP1 transcriptional activator to zinc-responsive promoter elements. J Biol Chem. 1998 Oct 30;273(44):28713-20.)(1998)(EMSA, DNase protection, site-turns-on-gene)(9786867)(1)
ROW: (Dodou E, Treisman R. The Saccharomyces cerevisiae MADS-box transcription factor Rlm1 is a target for the Mpk1 mitogen-activated protein kinase pathway. Mol Cell Biol. 1997 Apr;17(4):1848-59.)(1997)(EMSA, in vitro selection)(9121433)(2)
ROW: (Wieland G, Hemmerich P, Koch M, Stoyan T, Hegemann J, Diekmann S. Determination of the binding constants of the centromere protein Cbf1 to all 16 centromere DNAs of Saccharomyces cerevisiae. Nucleic Acids Res. 2001 Mar 1;29(5):1054-60.)(2001)(EMSA, kinetic analysis)(11222754)(1)
ROW: (Mira NP, Henriques SF, Keller G, Teixeira MC, Matos RG, Arraiano CM, Winge DR, Sá-Correia I. Identification of a DNA-binding site for the transcription factor Haa1, required for Saccharomyces cerevisiae response to acetic acid stress. Nucleic Acids Res. 2011 May 17. [Epub ahead of print])(2011)(EMSA, motif finding in co regulated genes)(21586585)(1)
ROW: (Idicula AM, Blatch GL, Cooper TG, Dorrington RA. Binding and activation by the zinc cluster transcription factors of Saccharomyces cerevisiae. Redefining the UASGABA and its interaction with Uga3p. J Biol Chem. 2002 Nov 29;277(48):45977-83. Epub  2002 Sep 13.)(2002)(EMSA, mutational analysis)(12235130)(1)
ROW: (de Boer M, Nielsen PS, Bebelman JP, Heerikhuizen H, Andersen HA, Planta RJ. Stp1p, Stp2p and Abf1p are involved in regulation of expression of the amino acid transporter gene BAP3 of Saccharomyces cerevisiae. Nucleic Acids Res. 2000 Feb 15;28(4):974-81.)(2000)(EMSA, mutational analysis)(10648791)(1)
ROW: (Pic A, Lim FL, Ross SJ, Veal EA, Johnson AL, Sultan MR, West AG, Johnston LH, Sharrocks AD, Morgan BA. The forkhead protein Fkh2 is a component of the yeast cell cycle transcription factor SFF. EMBO J. 2000 Jul 17;19(14):3750-61.)(2000)(EMSA, mutational analysis, expression enrichment)(10899128)(1)
ROW: (Becker B, Feller A, el Alami M, Dubois E, Piérard A. A nonameric core sequence is required upstream of the LYS genes of Saccharomyces cerevisiae for Lys14p-mediated activation and apparent repression by lysine. Mol Microbiol. 1998 Jul;29(1):151-63.)(1998)(EMSA, mutational analysis, multiple site analysis)(9701810)(1)
ROW: (Chu S, Herskowitz I. Gametogenesis in yeast is regulated by a transcriptional cascade dependent on Ndt80. Mol Cell. 1998 Apr;1(5):685-96.)(1998)(EMSA, mutational analysis, multiple site analysis)(9660952)(2)
ROW: (Kunoh T, Kaneko Y, Harashima S. YHP1 encodes a new homeoprotein that binds to the IME1 promoter in Saccharomyces cerevisiae. Yeast. 2000 Mar 30;16(5):439-49.)(2000)(EMSA, one-hybrid)(10705372)(1)
ROW: (Akache B, Turcotte B. New regulators of drug sensitivity in the family of yeast zinc cluster proteins. J Biol Chem. 2002 Jun 14;277(24):21254-60. Epub  2002 Apr 9.)(2002)(EMSA, single site mutagenesis)(11943786)(1)
ROW: (Noël J, Turcotte B. Zinc cluster proteins Leu3p and Uga3p recognize highly related but distinct DNA targets. J Biol Chem. 1998 Jul 10;273(28):17463-8.)(1998)(EMSA, single site mutagenesis, multiple promoter analysis (Leu3=6, UGA3=2), site-turns-gene-on)(9651335)(2)
ROW: (Nguyên DT, Alarco AM, Raymond M. Multiple Yap1p-binding sites mediate induction of the yeast major facilitator FLR1 gene in response to drugs, oxidants, and alkylating agents. J Biol Chem. 2001 Jan 12;276(2):1138-45.)(2001)(EMSA, site mutation)(11056165)(1)
ROW: (Xie J, Pierce M, Gailus-Durner V, Wagner M, Winter E, Vershon AK. Sum1 and Hst1 repress middle sporulation-specific gene expression during mitosis in Saccharomyces cerevisiae. EMBO J. 1999 Nov 15;18(22):6448-54.)(1999)(EMSA, site-turns-on-gene)(10562556)(1)
ROW: (Grishin AV, Rothenberg M, Downs MA, Blumer KJ. Mot3, a Zn finger transcription factor that modulates gene expression and attenuates mating pheromone signaling in Saccharomyces cerevisiae. Genetics. 1998 Jun;149(2):879-92.)(1998)(EMSA, site-turns-on-gene)(9611199)(1)
ROW: (Deckert J, Torres AM, Hwang SM, Kastaniotis AJ, Zitomer RS. The anatomy of a hypoxic operator in Saccharomyces cerevisiae. Genetics. 1998 Dec;150(4):1429-41.)(1998)(EMSA, site-turns-on-gene)(9832521)(1)
ROW: (Pascual-Ahuir A, Serrano R, Proft M. The Sko1p repressor and Gcn4p activator antagonistically modulate stress-regulated transcription in Saccharomyces cerevisiae. Mol Cell Biol. 2001 Jan;21(1):16-25.)(2001)(EMSA, site-turns-on-gene)(11113177)(2)
ROW: (Vik A, Rine J. Upc2p and Ecm22p, dual regulators of sterol biosynthesis in Saccharomyces cerevisiae. Mol Cell Biol. 2001 Oct;21(19):6395-405.)(2001)(EMSA, site-turns-on-gene)(11533229)(2)
ROW: (Avram D, Leid M, Bakalinsky AT. Fzf1p of Saccharomyces cerevisiae is a positive regulator of SSU1 transcription and its first zinc finger region is required for DNA binding. Yeast. 1999 Apr;15(6):473-80.)(1999)(EMSA, site-turns-on-gene, DNase protection)(10234785)(1)
ROW: (Raitt DC, Johnson AL, Erkine AM, Makino K, Morgan B, Gross DS, Johnston LH. The Skn7 response regulator of Saccharomyces cerevisiae interacts with Hsf1 in vivo and is required for the induction of heat shock genes by oxidative stress. Mol Biol Cell. 2000 Jul;11(7):2335-47.)(2000)(EMSA, site-turns-on-gene, mutational analysis)(10888672)(1)
ROW: (Nielsen PS, van den Hazel B, Didion T, de Boer M, Jørgensen M, Planta RJ, Kielland-Brandt MC, Andersen HA. Transcriptional regulation of the Saccharomyces cerevisiae amino acid permease gene BAP2. Mol Gen Genet. 2001 Jan;264(5):613-22.)(2001)(EMSA, site-turns-on-gene, one-hybrid, )(11212916)(1)
ROW: (Siddiqui AH, Brandriss MC. The Saccharomyces cerevisiae PUT3 activator protein associates with proline-specific upstream activation sequences. Mol Cell Biol. 1989 Nov;9(11):4706-12.)(1989)(EMSA-like assay, few site analysis)(2689862)(1)
ROW: (Hellauer K, Akache B, MacPherson S, Sirard E, Turcotte B. Zinc cluster protein Rdr1p is a transcriptional repressor of the PDR5 gene encoding a multidrug transporter. J Biol Chem. 2002 May 17;277(20):17671-6. Epub  2002 Mar 6.)(2002)(Enrichment in Deletion-up regulated promoters)(11882665)(1)
ROW: (Yoshimoto H, Saltsman K, Gasch AP, Li HX, Ogawa N, Botstein D, Brown PO, Cyert MS. Genome-wide analysis of gene expression regulated by the calcineurin/Crz1p signaling pathway in Saccharomyces cerevisiae. J Biol Chem. 2002 Aug 23;277(34):31079-88. Epub  2002 Jun 10.)(2002)(Expression enrichment by microarray, and SELEX)(12058033)(2)
ROW: (Gertz J, Riles L, Turnbaugh P, Ho SW, Cohen BA. Discovery, validation, and genetic dissection of transcription factor binding sites by comparative and functional genomics. Genome Res. 2005 Aug;15(8):1145-52.)(2005)(Expression enrichment, Y1H, EMSA)(16077013)(1)
ROW: (Miura F, Yada T, Nakai K, Sakaki Y, Ito T. Differential display analysis of mutants for the transcription factor Pdr1p regulating multidrug resistance in the budding yeast. FEBS Lett. 2001 Sep 7;505(1):103-8.)(2001)(HT FDD PCR (transcript enrichment))(11557050)(2)
ROW: (Rottensteiner H, Hartig A, Hamilton B, Ruis H, Erdmann R, Gurvitz A. Saccharomyces cerevisiae Pip2p-Oaf1p regulates PEX25 transcription through an adenine-less ORE. Eur J Biochem. 2003 May;270(9):2013-22.)(2003)(immunoblotting of various genes)(12709061)(1)
ROW: (Garcia-Gimeno MA, Struhl K. Aca1 and Aca2, ATF/CREB activators in Saccharomyces cerevisiae, are important for carbon source utilization but not the response to stress. Mol Cell Biol. 2000 Jun;20(12):4340-9.)(2000)(in vitro binding assay, mutational analysis)(10825197)(2)
ROW: (Mai B, Breeden L. Xbp1, a stress-induced transcriptional repressor of the Saccharomyces cerevisiae Swi4/Mbp1 family. Mol Cell Biol. 1997 Nov;17(11):6491-501.)(1997)(in vitro selection)(9343412)(1)
ROW: (Koering CE, Fourel G, Binet-Brasselet E, Laroche T, Klein F, Gilson E. Identification of high affinity Tbf1p-binding sites within the budding yeast genome. Nucleic Acids Res. 2000 Jul 1;28(13):2519-26.)(2000)(in vitro selection (CAST), confirmed with EMSA)(10871401)(1)
ROW: (Shimizu M, Li W, Covitz PA, Hara M, Shindo H, Mitchell AP. Genomic footprinting of the yeast zinc finger protein Rme1p and its roles in repression of the meiotic activator IME1. Nucleic Acids Res. 1998 May 15;26(10):2329-36.)(1998)(in vivo footprinting, EMSA)(9580682)(1)
ROW: (Idrissi FZ, Piña B. Functional divergence between the half-sites of the DNA-binding sequence for the yeast transcriptional regulator Rap1p. Biochem J. 1999 Aug 1;341 ( Pt 3):477-82.)(1999)(KMnO4 footprinting, )(10417308)(1)
ROW: (Dranginis AM. Binding of yeast a1 and alpha 2 as a heterodimer to the operator DNA of a haploid-specific gene.  Nature. 1990 Oct 18;347(6294):682-5.)(1990)(Methylation protection)(1977088)(1)
ROW: (Dobi A, Dameron CT, Hu S, Hamer D, Winge DR. Distinct regions of Cu(I).ACE1 contact two spatially resolved DNA major groove sites. J Biol Chem. 1995 Apr 28;270(17):10171-8.)(1995)(Methylation protection, EMSA)(7730320)(1)
ROW: (Challice JM, Segall J. Transcription of the 5 S rRNA gene of Saccharomyces cerevisiae requires a promoter element at +1 and a 14-base pair internal control region. J Biol Chem. 1989 Nov 25;264(33):20060-7.)(1989)(Methylation protection, single site analysis)(2684967)(1)
ROW: (Spellman PT, Sherlock G, Zhang MQ, Iyer VR, Anders K, Eisen MB, Brown PO, Botstein D, Futcher B. Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization. Mol Biol Cell. 1998 Dec;9(12):3273-97.)(1998)(microaray enrichment)(9843569)(3)
ROW: (Lahav R, Gammie A, Tavazoie S, Rose MD. Role of transcription factor Kar4 in regulating downstream events in the Saccharomyces cerevisiae pheromone response pathway. Mol Cell Biol. 2007 Feb;27(3):818-29. Epub  2006 Nov 13.)(2007)(microArray Enrichment)(17101777)(1)
ROW: (Yamamoto A, Mizukami Y, Sakurai H. Identification of a novel class of target genes and a novel type of binding sequence of heat shock transcription factor in Saccharomyces cerevisiae. J Biol Chem. 2005 Mar 25;280(12):11911-9. Epub  2005 Jan 11.)(2005)(microArray Enrichment)(15647283)(1)
ROW: (Boorsma A, de Nobel H, ter Riet B, Bargmann B, Brul S, Hellingwerf KJ, Klis FM. Characterization of the transcriptional response to cell wall stress in Saccharomyces cerevisiae. Yeast. 2004 Apr 15;21(5):413-27.)(2004)(microArray Enrichment)(15116342)(1)
ROW: (Schüller C, Mamnun YM, Mollapour M, Krapf G, Schuster M, Bauer BE, Piper PW, Kuhler K. Global phenotypic analysis and transcriptional profiling defines the weak acid stress response regulon in Saccharomyces cerevisiae. Mol Biol Cell. 2004 Feb;15(2):706-20. Epub  2003 Nov 14.)(2003)(Microarray Enrichment)(14617816)(1)
ROW: (Rutherford JC, Jaron S, Winge DR. Aft1p and Aft2p mediate iron-responsive gene expression in yeast through related promoter elements. J Biol Chem. 2003 Jul 25;278(30):27636-43. Epub  2003 May 19.)(2003)(microArray Enrichment)(12756250)(1)
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