Database:	.	-  M-CHiPS	Fellenberg et al.	(2001)	Proc. Natl. Acad. Sci. USA 98, 10781
		(in total more than 4600 hybridisations)	Fellenberg et al.	(2002)	Bioinformatics 18, 423-433
			Hauser et al.	(2002)	Screening3/02, 28
			Brazma et al.	(2002)	Adv. Biochem. Biotechnol. 77, 113
			Fellenberg et al.	(2003)	Perspectives in Gene Expression, Eaton Publishing, Westborough, 307-343.
Protocols:		-  EUROFAN protocols	Hauser et al.	(1998)	Yeast 14, 1209
		-  EUROFAN yeast arrays	Hauser et al.	(1998)	Yeast 14, 1209
			Hauser et al.	(1998)	Meth. Microbiol. 28, 193
		-  Significance-labelling of every datapoint	Beissbarth et al.	(2000)	Bioinformatics 16, 1014
Transcript Analyses:		-  Heatshock time course	Beissbarth et al.	(2000)	Bioinformatics 16, 1014
(there is more to come)		-  CDC14 overexpression	Fellenberg et al.	(2001)	Proc. Natl. Acad. Sci. USA 98, 10781
		-  Wine yeast versus laboratory yeast (wildtype)	Hauser et al.	(2001)	Comp. Funct. Genomics 2, 69
		(transcriptional and genomic comparison)
		-  Cell wall damage	Lagorce et al.	(2003)	J. Biol. Chem. 278, 20345
		-  EUROFAN data
		(36 data sets by five groups in B2-node)
		.- Hypoxia	Becerra et al.	(2002)	Mol. Microbiol. 43, 545
		.- Response to glucose	Yin et al.	(2003)	Mol. Microbiol. 48, 713
		.- Filamentous growth
		.- Ceramide signalling
		.- Stresses
		.- PKC pathway
		.- C and N-limited growth in continuous culture
		.- and other conditions

                    All processed data consist of:
                               - Fold-regulation for each ORF under each experimental condition
                               - Statistical evaluation of each change in expression
                               - Mean expression levels for each condition for each ORF
                               - Standard deviations for these mean expression levels
                               - Normalised data

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Whole genome analysis of a wine yeast strain. Nicole C. Hauser, Kurt Fellenberg, Rosario Gil, Sonja Bastuk, Jörg D. Hoheisel and Jose E. Perez-Ortin (2001) Comparative and Functional Genomics 2, 69-79. A transcriptional and genomic comparison was carried out on all open reading frames of the wine yeast strain T73 and a standard laboratory strain MYC730 at the exponential phase of growth (OD = 0.5) in YPD medium. Blue and light-blue colour-coding indicate higher signals in lab strain MYC730; red and yellow labelling represent higher signal intensities in T73. Results for the different ORFs are displayed in their entirety (transcriptional data, genomic data) or can be viewed chromosome by chromosome on the web page of Jose Perez-Ortin. Processing and quality control of DNA array hybridisation data. T. Beissbarth, K.Fellenberg, B. Brors, R. Arribas-Prat, J.M. Boer, N.C. Hauser, M. Scheideler, J.D. Hoheisel, G. Schütz, A. Poustka & M. Vingron (2000) Bioinformatics 16, 1014-1022. heatshock_timecourse:   ..color-coded list     complete data     experimental condition Correspondence analysis applied to microarray data. Fellenberg, K., Hauser, N.C., Brors, B., Neutzner, A., Hoheisel, J.D. & Vingron, M. (2001).  Proc. Natl. Acad. Sci. USA 98, 10781-10786. CDC14 overexpression:    .color-coded list     complete data     experimental condition     (legend) The yeast transcriptome in aerobic and hypoxic conditions; effects of HAP1 ROX1 ROX3 and SRB10 deletions. Becerra, M., Lombardía-Ferreira, L.J., Hauser, N.C., Hoheisel, J.D., Tizon, B.  & Cerdán M.E. (2002).  Mol. Microbiol.43, 545-555. aerobic and hypoxic conditions:    .color-coded list     complete data     experimental condition     (legend) Genome-wide analysis of yeast transcription upon calcium shortage.  Lombardía, L.J., Becerra, M., Rodríguez-Belmonte, E., Hauser, N.C. & Cerdán, M.E. (2002). Cell Calcium32, 83-91. calcium (depletion and shock):    .color-coded list     complete data     experimental condition     (legend) Differential effects of high and low glucose signals upon global expression patterns in yeast. Yin, Z., Wilson, S., Hauser, N.C., Tournu, H., Hoheisel, J.D. & Brown, A.J.P. (2003).  Mol. Microbiol.48, 713-724. response to glucose:    .color-coded list     complete data     experimental condition     (legend) Genome-wide analysis of the response to cell wall damage in the yeast Saccharomyces cerevisiae. Lagorce, A., Hauser, N.C., Labourdette, D., Rodriguez, C., Jasson, S., Arroyo, J., Hoheisel, J.D. & Francois, J.-M. (2003). J. Biol. Chem. 278, 20345-20357.    del_fks1: color-coded list     complete data     experimental condition del_gas1: color-coded list     complete data     experimental condition del_knr4: color-coded list     complete data     experimental condition del_kre6: color-coded list     complete data     experimental condition del_mnn9: color-coded list     complete data     experimental condition There is much more data to come. Watch this web-page. .

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Yeast Genome Array Protocols    (pdf-file) Nicole C. Hauser, DKFZ, Heidelberg List of protocols that are being used for the preparation of samples and their hybridisation to yeast arrays.

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EUROFAN Yeast Arrays Nicole C. Hauser, DKFZ, Heidelberg Table of array coordinates, ORF-names and gene-names. For detailed information see 'Array Protocols' above.

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Colour-coding the significance of transcript level variations. All data are listed with a colour-code that indicates their significance: red and yellow labelling represent significantly increased transcript levels; dark-blue and light-blue indicate significantly reduced transcript levels; unlabelled data (white background) are not (statistically !) significant by our standards (see Beissbarth et al., 2000, Bioinformatics16, 1014-1022. .. Red and dark-blue labels indicate the application of a high stringency statistical analysis (min-max separation), while yellow and light-blue labelled data were found significant by the standard deviation separation criteria, which are less stringent.

 

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