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Table 1 Budding yeast microarray datasets

From: Comprehensive analysis of forty yeast microarray datasets reveals a novel subset of genes (APha-RiB) consistently negatively associated with ribosome biogenesis

ID GEO accession Year N Description Ref.
D01 GSE8799 2008 15 Two mitotic cell-cycles (w/t). [28]
D02 GSE8799 2008 15 Two mitotic cell-cycles (mutated cyclins). [28]
D03 E-MTAB-643* 2011 15 Response to an impulse of glucose. [14]
D04 E-MTAB-643* 2011 15 Response to an impulse of ammonium. [14]
D05 GSE54951 2014 6 Response of dal80Δ mutant yeast to oxidative stress induced by linoleic acid hydroperoxide. -
D06 GSE25002 2014 9 Osmotic stress response and treatment of transformants expressing the C. albicans Nik1 gene. -
D07 GSE36298 2013 6 Mutations of OPI1, INO2, and INO4 under carbon-limited growth conditions. [29]
D08 GSE50728 2013 8 120-hour time-course during fermentation. -
D09 GSE36599 2013 5 Stress adaptation and recovery. [30]
D10 GSE47712 2013 6 Combinations of the yeast mediator complex’s tail subunits mutations. [31]
D11 GSE21870 2013 4 Combinations of mutations in DNUP60 and DADA2. -
D12 GSE38848 2013 6 Various strains under aerobic or anaerobic growth. [32]
D13 GSE36954 2012 6 Response to mycotoxic type B trichothecenes. [33]
D14 GSE33276 2012 6 Response to heat stress for three different strains. -
D15 GSE40399 2012 7 Response to various perturbations (heat, myriocin treatment, and lipid supplement). -
D16 GSE31176 2012 6 W/t, rlm1Δ, and swi3Δ cells with or without Congo Red exposure. [34]
D17 GSE26923 2012 5 Varying levels of GCN5 F221A mutant expression. [35]
D18 GSE30054 2012 31 CEN.PK122 oscillating for two hours. -
D19 GSE30051 2012 32 CEN.PL113-7D oscillating for two hours. [36]
D20 GSE30052 2012 49 CEN.PL113-7D oscillating for four hours. [36]
D21 GSE32974 2012 15 About 5 hours of cell-cycle (w/t). [37]
D22 GSE32974 2012 15 About 4 hours of cell-cycle (mutant lacking Cdk1 activity). [37]
D23 GSE24888 2011 5 Untreated yeast versus yeasts treated with E. arvense herbs from the USE, China, Europe, or India. -
D24 GSE19302 2011 6 Response to degron induction for w/t and nab2-td mutant. [38]
D25 GSE33427 2011 5 Untreated w/t, and wt/t, yap1Δ, yap8Δ, and double mutant treated with AsV. [39]
D26 GSE17716 2011 7 Effect of overexpression and deletion of MSS11 and FLO8. [40]
D27 GSE31366 2011 4 Presence and absence of mutli-inhibitors for parental and tolerant strains. -
D28 GSE26171 2011 4 Response to patulin and/or ascorbic acid. [41]
D29 GSE22270 2011 4 PY1 and Met30 strains in room temperature or 35 C. -
D30 GSE29273 2011 4 Time-series during yeast second fermentation. -
D31 GSE29353 2011 5 Different haploid strains growing in low glucose medium. [42]
D32 GSE21571 2011 8 Different combinations of mutations in HTZ1, SWR1, SWC2, and SWC5. [43]
D33 GSE17364 2010 4 Untreated w/t and Slt2-deficient yeasts, or treated with sodium arsenate for two hours. [44]
D34 GSE15352 2010 8 24-hour time-course of yeast grown under a low temperature (10 C). [45]
D35 GSE15352 2010 8 24-hour time-course of yeast grown under a normal temperature (28 C). [45]
D36 GSE15352 2010 8 24-hour time-course of yeast grown under a high temperature (37 C). [45]
D37 GSE16799 2009 21 UC-V irradiation of w/t, mig3Δ, SNF1Δ, RAD23Δ, RAD4Δ, and snf1Δrad23Δ. [46]
D38 GSE16346 2009 4 BY474 cells grown to mid-log under presence versus absence of L-carnitine and/or H2O2. -
D39 GSE14227 2009 10 Two hours of wild-type yeast growth. [47]
D40 GSE14227 2009 9 Two hours of sch9Δ mutant yeast growth. [47]
  1. The first column shows the unique identifier which is used hereinafter to refer to each of these datasets. The second to the sixth columns respectively show the Gene Expression Omnibus (GEO) accession number, the year in which the dataset was published, number of time-points or conditions after replicate summarisation, dataset description, and reference.
  2. *D03 and D04 have accession numbers in the European Bioinformatics Institute (EBI) repository rather than GEO accession numbers.