Journal ArticleDOI
Approaching the function of new genes by detection of their potential upstream activation sequences in Saccharomyces cerevisiae: application to chromosome III.
TLDR
Rules for an upstream activation sequence (UAS) are established for the GAL4, RAP1 (RPG box), GCN4, and the HAP2/HAP3/ HAP4 regulatory proteins, as well as for a motif (PAC) frequently found upstream of the genes of the RNA polymerase A and C subunits.Abstract:
The systematic sequencing of the yeast genome reveals the presence of many potential genes of unknown function. One way to approach their function is to define which regulatory system controls their transcription. This can also be accomplished by the detection of an upstream activation sequence (UAS). Such a detection can be done by computer, provided that the definition of a UAS includes sufficient and precise rules. We have established such rules for the UASs of the GAL4, RAP1 (RPG box), GCN4, and the HAP2/HAP3/HAP4 regulatory proteins, as well as for a motif (PAC) frequently found upstream of the genes of the RNA polymerase A and C subunits. These rules were applied to the chromosome III DNA sequence, and gave precise predictions.read more
Citations
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Journal ArticleDOI
Extracting Regulatory Sites from the Upstream Region of Yeast Genes by Computational Analysis of Oligonucleotide Frequencies
TL;DR: A simple and fast method allowing the isolation of DNA binding sites for transcription factors from families of coregulated genes, with results illustrated in Saccharomyces cerevisiae.
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Eukaryotic Promoter Recognition
TL;DR: The promoter seems to be a much richer signal than the 38 processing signals, though, as the authors shall see below, it is not easy to take advantage of the information in the promoter.
Journal ArticleDOI
Complete DNA sequence of yeast chromosome II
Heidi Feldmann,M. Aigle,G. Aljinovic,Bruno André,M.C. Baclet,C. Barthe,Axel Baur,A.M. Bécam,N. Biteau,Eckhard Boles +9 more
TL;DR: The analysis of this chromosome confirmed general chromosome patterns but also revealed particular novel features of chromosomal organization, including several that are related to genes that perform differentiated functions in multicellular organisms of are involved in malignancy.
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Discovery and modeling of transcriptional regulatory regions.
TL;DR: A complex network of regulatory controls governs the patterns of gene expression and the potential to further the understanding of the biochemical mechanisms of transcriptional regulation and to accelerate the delineation of regulatory control regions in the human genome is enormous.
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Quantitative discrimination of MEF2 sites.
TL;DR: More quantitative methods for recognizing potential sites may help with the lengthy process of disentangling the complex regulatory circuits of muscle-specific expression.
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Journal ArticleDOI
The complete DNA sequence of yeast chromosome III.
Stephen G. Oliver,Q. J. M. van der Aart,M. L. Agostoni-Carbone,Michel Aigle,Lilia Alberghina,Despina Alexandraki,G. Antoine,Rashida Anwar,Juan P. G. Ballesta,Paule Bénit,Gilbert Berben,Elisabetta Bergantino,N. Biteau,P. A. Bolle,Monique Bolotin-Fukuhara,Anthony G. A. Brown,Alistair J. P. Brown,J. M. Buhler,C. Carcano,Giovanna Carignani,Håkan Cederberg,R. Chanet,Roland Contreras,Marc Crouzet,B. Daignan-Fornier,E. Defoor,M. Delgado,Jan Demolder,C. Doira,Evelyne Dubois,Bernard Dujon,A. Düsterhöft,D. Erdmann,M. Esteban,F. Fabre,Cécile Fairhead,Gérard Faye,Horst Feldmann,Walter Fiers,M. C. Francingues-Gaillard,L. Franco,Laura Frontali,H. Fukuhara,L. J. Fuller,P. Galland,Manda E. Gent,D. Gigot,Véronique Gilliquet,Glansdorff Nn,André Goffeau,M. Grenson,P. Grisanti,Leslie A. Grivell,M. de Haan,M. Haasemann,D. Hatat,Janet Hoenicka,Johannes H. Hegemann,C. J. Herbert,François Hilger,Stefan Hohmann,Cornelis P. Hollenberg,K. Huse,F. Iborra,K. J. Indje,K. Isono,C. Jacq,M. Jacquet,C. M. James,J. C. Jauniaux,Y. Jia,Alberto Jiménez,A. Kelly,U. Kleinhans,P Kreisl,G. Lanfranchi,C Lewis,C. G. vanderLinden,G Lucchini,K Lutzenkirchen,M.J. Maat,L. Mallet,G. Mannhaupet,Enzo Martegani,A. Mathieu,C. T. C. Maurer,David J. McConnell,R. A. McKee,F. Messenguy,Hans-Werner Mewes,Francis Molemans,M. A. Montague,M. Muzi Falconi,L. Navas,Carol S. Newlon,D. Noone,C. Pallier,L. Panzeri,Bruce M. Pearson,J. Perea,Peter Philippsen,A. Pierard,Rudi J. Planta,Paolo Plevani,B. Poetsch,Fritz M. Pohl,B. Purnelle,M. Ramezani Rad,S. W. Rasmussen,A. Raynal,Miguel Remacha,P. Richterich,Aki Roberts,F. Rodriguez,E. Sanz,I. Schaaff-Gerstenschlager,Bart Scherens,Bertold Schweitzer,Y. Shu,J. Skala,Piotr P. Slonimski,F. Sor,C. Soustelle,R. Spiegelberg,Lubomira Stateva,H. Y. Steensma,S. Steiner,Agnès Thierry,George Thireos,Maria Tzermia,L. A. Urrestarazu,Giorgio Valle,I. Vetter,J. C. van Vliet-Reedijk,Marleen Voet,Guido Volckaert,P. Vreken,H. Wang,John R. Warmington,D. von Wettstein,Barton Luke Wicksteed,C. Wilson,H. Wurst,G. Xu,A. Yoshikawa,Friedrich K. Zimmermann,J. G. Sgouros +146 more
TL;DR: The entire DNA sequence of chromosome III of the yeast Saccharomyces cerevisiae has been determined, which is the first complete sequence analysis of an entire chromosome from any organism.
Journal ArticleDOI
Specific DNA binding of GAL4, a positive regulatory protein of yeast
TL;DR: It is shown that the yeast positive regulatory protein GAL4 binds to four sites in the upstream activating sequence UASG to activate transcription of the adjacent GAL1 and GAL10 genes, consistent with the idea that GAL2 protein binds to three related 17 bp sequences, each of which displays approximate 2-fold rotational symmetry.
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