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Series GSE3354 Query DataSets for GSE3354
Status Public on Dec 22, 2005
Title Global effects of spt10 mutations on gene expression in budding yeast.
Organism Saccharomyces cerevisiae
Experiment type Expression profiling by array
Summary Using yeast strains based on the protease-deficient strain BJ5459 (= wild type), the effects of the spt10-null and spt10-C388S mutations on global gene expression were assessed and compared. BJ5459 (wild type) and BJ-SPT10(C388S)-HA cells were grown in synthetic complete medium to A600 = 0.6. RNA was prepared using an RNeasy kit (Qiagen). Biotinylated cRNA was prepared from three independently prepared sample pairs and hybridised to Affymetrix S98 arrays and detected using fluorescently labelled streptavidin. The wild type and the spt10-C388S average signals each represent the average of the signals from three arrays. The P-value is an indicator of the statistical significance of the difference between the average signals for wild type and the C388S mutant. The lower the value, the greater the significance. The gene descriptor is provided by Affymetrix.
Keywords: mutant yeast strain comparison
 
Overall design Three RNA samples from wild type, spt10-null and spt10-C388S cells were prepared independently on three occasions. These nine RNA samples were used to make cRNA and hybridised separately to Affymetrix S98 arrays at the same time.
 
Contributor(s) Mendiratta G, Eriksson PR, Shen C, Clark DJ
Citation(s) 16415340
Submission date Sep 22, 2005
Last update date Jul 01, 2016
Contact name David Johannes Clark
E-mail(s) clarkda@mail.nih.gov
Phone 3014966966
Organization name NICHD, NIH
Department DDB
Lab SCGE
Street address 6 Center Drive Bldg 6A Rm 2A02
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL90 [YG_S98] Affymetrix Yeast Genome S98 Array
Samples (9)
GSM45194 Wild type sample #1
GSM45279 Wild type sample #3
GSM45281 Wild type sample #2
Relations
BioProject PRJNA93275

TABLE 1. Comparison of gene expression data for wild type and spt10-C388S mutant cells header descriptions
Wild type average signal
spt10-C388S average signal
P-Value
Fold Change
Gene_Symbol
Gene Descriptor
SeqDerivedFrom

Data table
Wild type average signal spt10-C388S average signal P-Value Fold Change Gene_Symbol Gene Descriptor SeqDerivedFrom
39.64 1.19 0.0192 -33.21 ADE4 phosphoribosylpyrophosphate amidotransferase YMR300C
97.37 5.22 0.0384 -18.64 non-annotated SAGE orf Found forward in NC_001144 between 92566 and 92730 with 100% identity. See citation Velculescu, V.E., et al. (1997) Characterization of the yeast transcriptome. Cell 8:243-251 NC_001144
125.99 7.39 0.0717 -17.04 Saccharomyces cerevisiae chromosome XVI, complete chromosome sequence. Found forward in NC_001148 between 440759 and 441758 with 100% identity. NC_001148
69.91 4.50 0.0234 -15.55 Saccharomyces cerevisiae chromosome IX, complete chromosome sequence. Found forward in NC_001141 between 109607 and 110606 with 100% identity. NC_001141
561.72 36.90 0.0193 -15.22 Saccharomyces cerevisiae chromosome XVI, complete chromosome sequence. Found forward in NC_001148 between 438759 and 439758 with 100% identity. NC_001148
46.56 3.28 0.0970 -14.19 Saccharomyces cerevisiae chromosome V, complete chromosome sequence. Found forward in NC_001137 between 478841 and 479840 with 100% identity. NC_001137
2236.12 165.63 0.2385 -13.50 YMRCTY1-3 Full length Ty1 YMRCTY1-3
31.84 2.43 0.0019 -13.13 Saccharomyces cerevisiae chromosome XII, complete chromosome sequence. Found forward in NC_001144 between 310356 and 311355 with 100% identity. NC_001144
182.45 14.29 0.0059 -12.76 non-annotated SAGE orf Found reverse in NC_001139 between 93459 and 93722 with 100% identity. See citation Velculescu, V.E., et al. (1997) Characterization of the yeast transcriptome. Cell 8:243-251 NC_001139
32.53 2.60 0.0494 -12.50 Saccharomyces cerevisiae chromosome XII, complete chromosome sequence. Found forward in NC_001144 between 59710 and 60709 with 100% identity. NC_001144
16.50 1.40 0.0047 -11.82 non-annotated SAGE orf Found reverse in NC_001146 between 546974 and 547210 with 100% identity. See citation Velculescu, V.E., et al. (1997) Characterization of the yeast transcriptome. Cell 8:243-251 NC_001146
53.87 5.23 0.0718 -10.31 Saccharomyces cerevisiae chromosome VII, complete chromosome sequence. Found forward in NC_001139 between 178031 and 179030 with 100% identity. NC_001139
32.69 3.23 0.0050 -10.13 Saccharomyces cerevisiae chromosome XIII, complete chromosome sequence. Found forward in NC_001145 between 727433 and 728432 with 100% identity. NC_001145
1020.40 101.34 0.1467 -10.07 TG(UCC)O tRNA-Gly TG(UCC)O
36.49 3.76 0.0526 -9.70 Saccharomyces cerevisiae chromosome XVI, complete chromosome sequence. Found forward in NC_001148 between 439759 and 440758 with 100% identity. NC_001148
61.59 6.50 0.0074 -9.47 YJLWDELTA15 Ty1 LTR YJLWDELTA15
24.73 2.68 0.0075 -9.23 non-annotated SAGE orf Found reverse in NC_001143 between 308237 and 308389 with 100% identity. See citation Velculescu, V.E., et al. (1997) Characterization of the yeast transcriptome. Cell 8:243-251 NC_001143
13.44 1.46 0.0714 -9.20 Hypothetical ORF YJL182C
23.98 2.66 0.0295 -9.02 Saccharomyces cerevisiae chromosome IV, complete chromosome sequence. Found forward in NC_001136 between 1306061 and 1307060 with 100% identity. NC_001136
23.70 2.64 0.0177 -8.98 Saccharomyces cerevisiae chromosome VI, complete chromosome sequence. Found forward in NC_001138 between 137029 and 138028 with 100% identity. NC_001138

Total number of rows: 9335

Table truncated, full table size 1074 Kbytes.




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