The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI

Bussey, Howard; Storms, Reg K.; Ahmed, Aisha; Albermann, Kaj; Allen, Elizabeth; Ansorge, Wilhem; Araujo, R.; Aparicio, Ana; Barrell, Barclay G.; Badcock, K.; Benes, V.; Botstein, David; Bowman, Sharen; Brückner, Margit; Carpenter, J.; Cherry, J. Michael; Chung, Esther K.; Churcher, Carol; Coster, Françoise; Davis, Kara L.; Davis, Ron; Dietrich, Frank; Delius, Hajo; DiPaolo, T; Dubois, E.; Düsterhöft, Andreas; Duncan, Michael; Floeth, M.; Fortin, Nathalie; Friesen, James D.; Fritz, C.; Goffeau, André; Hall, Jean; Hebling, Ulrike; Heumann, Klaus G.; Hilbert, Helmut; Hillier, L.; Hunicke-Smith, Scott Patrick; Hyman, Richard W.; Johnston, Mark; Kalman, Sumner M.; Kleine, K.; Komp, Caridad; Kurdi, O.; Lashkari, Deval; Lew, H.; Lin, A.; Lin, Derek; Louis, Edward J.; Marathe, Rekha; Messenguy, Francine; Mewes, Hans‐Werner; Mirtipati, S.; Moestl, D.; Müller-Auer, S.; Namath, Allen; Nentwich, U.; Oefner, Peter J.; Pearson, Danita M.; Petel, Fabien; Pohl, Thomas; Purnelle, Bénédicte; Rajandream, Marie Adèle; Rechmann, S.; Rieger, Michael A.; Riles, Linda; Roberts, Donald F.; Schäfer, Melanie; Scharfe, M.; Scherens, B.; Schramm, S.; Schröder, M.; Sdicu, Anne‐Marie; Tettelin, Hervé; Urrestarazu, L. A.; Ushinsky, Sophia; Vierendeels, F.; Vissers, Stéphan; Voß, H.; Walsh, Sean; Wambutt, R.; Wang, Y.; Wedler, E.; Wedler, H.; Winnett, Elaine; Zhong, W-W.; Zollner, Alfred; Vo, Danh H.; Hani, Jean

doi:10.1038/387s103

Cited by 66 publications

(21 citation statements)

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“…The two libraries were combined in order to improve the statistics of the GO term contact distributions. We processed the inter-chromosomal contacts by mapping them to the corresponding genes in the SGD features data base [40]. A gene is assigned to a locus if it lies within an offset from the genomic position of that locus.…”

Section: Methodsmentioning

confidence: 99%

The 3D Organization of the Yeast Genome Correlates with Co-Expression and Reflects Functional Relations between Genes

Homouz

Kudlicki

2013

PLoS ONE

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The spatial organization of eukaryotic genomes is thought to play an important role in regulating gene expression. The recent advances in experimental methods including chromatin capture techniques, as well as the large amounts of accumulated gene expression data allow studying the relationship between spatial organization of the genome and co-expression of protein-coding genes. To analyse this genome-wide relationship at a single gene resolution, we combined the interchromosomal DNA contacts in the yeast genome measured by Duan et al. with a comprehensive collection of 1,496 gene expression datasets. We find significant enhancement of co-expression among genes with contact links. The co-expression is most prominent when two gene loci fall within 1,000 base pairs from the observed contact. We also demonstrate an enrichment of inter-chromosomal links between functionally related genes, which suggests that the non random nature of the genome organization serves to facilitate coordinated transcription in groups of genes.

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Section: Methodsmentioning

confidence: 99%

The 3D Organization of the Yeast Genome Correlates with Co-Expression and Reflects Functional Relations between Genes

Homouz

Kudlicki

2013

PLoS ONE

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“…For example, 82% of the yeast genome contains genes (Mewes et al, 1997), and approximately 90% of the genes are present in clusters ranging in size from 10 to 450 kb (Bussey et al, 1997;Dujon et al, 1997). The interspersed 'gene-empty' regions are up to 20 kb in size.…”

Section: Gene Distribution Within the Grrsmentioning

confidence: 99%

Distribution of genes and recombination in wheat and other eukaryotes

Sidhu

Gill

2005

Plant Cell Tiss Organ Cult

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“…Recently, the complete genome of Saccharomyces cerevisiae was analyzed by several groups (Oliver et al 1992;Dojon et al 1994Dojon et al , 1997Feldman et al 1994;Johnston et al 1994Johnston et al , 1997Bussey et al 1995Bussey et al , 1997Murakami et al 1995;Galibert et al 1996;Goffeau et al 1996;Bowman et al 1997;Churcher et al 1997;Dietrich et al 1997;Jacq et Philippsen et al 1997;Tettelin et al 1997). We used their data from GenomeNet (http://www.genome.ad.jp) and analyzed them with a personal computer.…”

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confidence: 99%

Gene assembly consisting of small units with similar amino acid composition in the Saccharomyces cerevisiae genome

Sorimachi

Okayasu

2003

Mycoscience

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Amino acid compositions of all genes in Saccharomyces cerevisiae were determined using a computer analysis of the complete genome. The amino acid composition of an assembly of several genes or a single gene consisted of 3000-7000 amino acid residues forming a certain pattern of amino acid composition. This rule was independent not only of the gene size, but also of the gene position. Thus, the small units, consisting of 3000-7000 amino acid residues, showed a similar amino acid composition, and they formed all the genes in the complete genome.

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The nucleotide sequence of Saccharomyces cerevisiae chromosome XVI

Cited by 66 publications

References 0 publications

The 3D Organization of the Yeast Genome Correlates with Co-Expression and Reflects Functional Relations between Genes

The 3D Organization of the Yeast Genome Correlates with Co-Expression and Reflects Functional Relations between Genes

Distribution of genes and recombination in wheat and other eukaryotes

Gene assembly consisting of small units with similar amino acid composition in the Saccharomyces cerevisiae genome

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