PubMed

Growth control of the eukaryote cell: a systems biology study in yeast.

Castrillo JI, Zeef LA, Hoyle DC, Zhang N, Hayes A, Gardner DC, Cornell MJ, Petty J, Hakes L, Wardleworth L, Rash B, Brown M, Dunn WB, Broadhurst D, O'Donoghue K, Hester SS, Dunkley TP, Hart SR, Swainston N, Li P, Gaskell SJ, Paton NW, Lilley KS, Kell DB, Oliver SG.

J Biol. 2007;6(2):4.PMID: 17439666 [PubMed - indexed for MEDLINE]Related articlesFree article

Multilevel regulation of growth rate in yeast revealed using systems biology.

Ramanathan A, Schreiber SL.

J Biol. 2007;6(2):3. Review.PMID: 17472733 [PubMed - indexed for MEDLINE]Related articlesFree article

Role of transcriptional regulation in controlling fluxes in central carbon metabolism of Saccharomyces cerevisiae. A chemostat culture study.

Daran-Lapujade P, Jansen ML, Daran JM, van Gulik W, de Winde JH, Pronk JT.

J Biol Chem. 2004 Mar 5;279(10):9125-38. Epub 2003 Nov 20.PMID: 14630934 [PubMed - indexed for MEDLINE]Related articlesFree article

Quantitative proteomics and transcriptomics of anaerobic and aerobic yeast cultures reveals post-transcriptional regulation of key cellular processes.

de Groot MJ, Daran-Lapujade P, van Breukelen B, Knijnenburg TA, de Hulster EA, Reinders MJ, Pronk JT, Heck AJ, Slijper M.

Microbiology. 2007 Nov;153(Pt 11):3864-78.PMID: 17975095 [PubMed - indexed for MEDLINE]Related articlesFree article

Transcription factor control of growth rate dependent genes in Saccharomyces cerevisiae: a three factor design.

Fazio A, Jewett MC, Daran-Lapujade P, Mustacchi R, Usaite R, Pronk JT, Workman CT, Nielsen J.

BMC Genomics. 2008 Jul 18;9:341.PMID: 18638364 [PubMed - indexed for MEDLINE]Related articlesFree article

Comprehensive analysis of combinatorial regulation using the transcriptional regulatory network of yeast.

Balaji S, Babu MM, Iyer LM, Luscombe NM, Aravind L.

J Mol Biol. 2006 Jun 30;360(1):213-27. Epub 2006 May 3.PMID: 16762362 [PubMed - indexed for MEDLINE]Related articles

Growth-rate regulated genes have profound impact on interpretation of transcriptome profiling in Saccharomyces cerevisiae.

Regenberg B, Grotkjaer T, Winther O, Fausbøll A, Akesson M, Bro C, Hansen LK, Brunak S, Nielsen J.

Genome Biol. 2006;7(11):R107.PMID: 17105650 [PubMed - indexed for MEDLINE]Related articlesFree article

Effect of carbon source perturbations on transcriptional regulation of metabolic fluxes in Saccharomyces cerevisiae.

Cakir T, Kirdar B, Onsan ZI, Ulgen KO, Nielsen J.

BMC Syst Biol. 2007 Mar 27;1:18.PMID: 17408508 [PubMed - indexed for MEDLINE]Related articlesFree article

From genomes to systems: the path with yeast.

Oliver SG.

Philos Trans R Soc Lond B Biol Sci. 2006 Mar 29;361(1467):477-82. Review.PMID: 16524836 [PubMed - indexed for MEDLINE]Related articlesFree article

Linking high-resolution metabolic flux phenotypes and transcriptional regulation in yeast modulated by the global regulator Gcn4p.

Moxley JF, Jewett MC, Antoniewicz MR, Villas-Boas SG, Alper H, Wheeler RT, Tong L, Hinnebusch AG, Ideker T, Nielsen J, Stephanopoulos G.

Proc Natl Acad Sci U S A. 2009 Apr 21;106(16):6477-82. Epub 2009 Apr 3.PMID: 19346491 [PubMed - indexed for MEDLINE]Related articlesFree article

Global gene expression in recombinant and non-recombinant yeast Saccharomyces cerevisiae in three different metabolic states.

Díaz H, Andrews BA, Hayes A, Castrillo J, Oliver SG, Asenjo JA.

Biotechnol Adv. 2009 Nov-Dec;27(6):1092-117. Epub 2009 May 19.PMID: 19463941 [PubMed - indexed for MEDLINE]Related articles

Monitoring of transcriptional regulation in Pichia pastoris under protein production conditions.

Gasser B, Maurer M, Rautio J, Sauer M, Bhattacharyya A, Saloheimo M, Penttilä M, Mattanovich D.

BMC Genomics. 2007 Jun 19;8:179.PMID: 17578563 [PubMed - indexed for MEDLINE]Related articlesFree article

The complement of protein kinases of the microsporidium Encephalitozoon cuniculi in relation to those of Saccharomyces cerevisiae and Schizosaccharomyces pombe.

Miranda-Saavedra D, Stark MJ, Packer JC, Vivares CP, Doerig C, Barton GJ.

BMC Genomics. 2007 Sep 4;8:309.PMID: 17784954 [PubMed - indexed for MEDLINE]Related articlesFree article

Upstream sequence elements direct post-transcriptional regulation of gene expression under stress conditions in yeast.

Lawless C, Pearson RD, Selley JN, Smirnova JB, Grant CM, Ashe MP, Pavitt GD, Hubbard SJ.

BMC Genomics. 2009 Jan 7;10:7.PMID: 19128476 [PubMed - indexed for MEDLINE]Related articlesFree article

Comparative analysis of cell cycle regulated genes in eukaryotes.

Dyczkowski J, Vingron M.

Genome Inform. 2005;16(1):125-31.PMID: 16362914 [PubMed - indexed for MEDLINE]Related articles

Yeast genomic expression patterns in response to low-shear modeled microgravity.

Sheehan KB, McInnerney K, Purevdorj-Gage B, Altenburg SD, Hyman LE.

BMC Genomics. 2007 Jan 3;8:3.PMID: 17201921 [PubMed - indexed for MEDLINE]Related articlesFree article

Metabolic engineering under uncertainty--II: analysis of yeast metabolism.

Wang L, Hatzimanikatis V.

Metab Eng. 2006 Mar;8(2):142-59. Epub 2006 Jan 18.PMID: 16413809 [PubMed - indexed for MEDLINE]Related articles

Acclimation of Saccharomyces cerevisiae to low temperature: a chemostat-based transcriptome analysis.

Tai SL, Daran-Lapujade P, Walsh MC, Pronk JT, Daran JM.

Mol Biol Cell. 2007 Dec;18(12):5100-12. Epub 2007 Oct 10.PMID: 17928405 [PubMed - indexed for MEDLINE]Related articlesFree article

Identification of flux regulation coefficients from elementary flux modes: A systems biology tool for analysis of metabolic networks.

Nookaew I, Meechai A, Thammarongtham C, Laoteng K, Ruanglek V, Cheevadhanarak S, Nielsen J, Bhumiratana S.

Biotechnol Bioeng. 2007 Aug 15;97(6):1535-49.PMID: 17238207 [PubMed - indexed for MEDLINE]Related articles

A systems biology approach to study glucose repression in the yeast Saccharomyces cerevisiae.

Westergaard SL, Oliveira AP, Bro C, Olsson L, Nielsen J.

Biotechnol Bioeng. 2007 Jan 1;96(1):134-45.PMID: 16878332 [PubMed - indexed for MEDLINE]Related articles