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Series GSE6620 Query DataSets for GSE6620
Status Public on Apr 10, 2007
Title Expression data from wild type, mre11delta, rad50delta, and spo11Y135F at meiosis 0 hr and 4 hr.
Organism Saccharomyces cerevisiae
Experiment type Expression profiling by array
Summary Mre11, together with Rad50 and Xrs2/NBS, plays pivotal roles in homologous recombination, repair of DNA double strand breaks (DSBs), activation of damage-induced checkpoint, and telomere maintenance. Using DNA microarray assays to analyze yeast mutants (mre11delta, rad50delta, and spo11Y135F) defective for meiotic DSB formation, we demonstrate that the absence of Mre11 in yeast causes specific effects on regulation of a class of meiotic genes for spore development. The transcriptional deficiency was not observed in other DSB mutants such as rad50delta and spo11Y135F, suggesting the transcriptional defect in mre11delta is due to neither lack of meiotic DSB formation, nor disintegrity of Mre11-Rad50-Xrs2 complex.These defects were confirmed by northern and lacZ reporter gene assays.
Keywords: mutant vs. wildtype strains
 
Overall design Gene expression data from wild type, mre11delta, rad50delta, and spo11Y135F cells in premeiosis (meiosis 0 hr) and prophase (meiosis 4 hr). Affymetrix GeneChip YG-S98 was used. All strains used were SK1 background diploid cells.
 
Contributor(s) Kugou K, Sasanuma H, Matsumoto K, Shirahige K, Ohta K
Citation(s) 17396017
Submission date Dec 29, 2006
Last update date Jul 01, 2016
Contact name Kazuto Kugou
E-mail(s) kkugou@kazusa.or.jp
Organization name Kazusa DNA Research Institute
Department Department of Frontier Research
Lab Laboratory of Cell Engineering
Street address 2-6-7 KazusaKamatatri
City Kisarazu
State/province Chiba
ZIP/Postal code 292-0818
Country Japan
 
Platforms (1)
GPL90 [YG_S98] Affymetrix Yeast Genome S98 Array
Samples (8)
GSM153627 Expression in wild type strain at meiosis 0 hr
GSM153628 Expression in wild type strain at meiosis 4 hr
GSM153629 Expression in mre11delta strain at meiosis 0 hr
Relations
BioProject PRJNA98845

Comparison of GSM153628 vs. GSM153627 header descriptions
ID_REF Affymetrix probe set identifier
SIGNAL Normalized Signal Intensity against GSM153627
CHANGE_CALL the call in comparison analysis that indicates if the transcript was increase (I), marginal increase (MI), decrease (D), marginal decrease (MD), or no change (NC)
RATIO Signal log2 Ratio
CHANGE P-VALUE p-value that indicates the significance level of the change call

Data table
ID_REF SIGNAL CHANGE_CALL RATIO CHANGE P-VALUE
AFFX-MurIL2_at 3.4 NC -0.3 0.948067
AFFX-MurIL10_at 1.4 NC 0 0.976667
AFFX-MurIL4_at 1.7 NC 0.4 0.5
AFFX-MurFAS_at 4.2 NC -2 0.631577
AFFX-BioB-5_at 229.2 NC 0.1 0.5
AFFX-BioB-M_at 439.7 NC 0.1 0.5
AFFX-BioB-3_at 323.6 NC 0.3 0.061083
AFFX-BioC-5_at 712.8 I 0.8 0.000002
AFFX-BioC-3_at 496.3 I 0.6 0.000028
AFFX-BioDn-5_at 765.1 I 0.8 0.000001
AFFX-BioDn-3_at 3784.6 NC 0.4 0.035841
AFFX-CreX-5_at 5693.8 I 0.7 0.000001
AFFX-CreX-3_at 7174.7 I 0.4 0.000122
AFFX-BioB-5_st 5.7 NC -1 0.5
AFFX-BioB-M_st 36.1 NC 2.1 0.02189
AFFX-BioB-3_st 9.8 NC 0.7 0.1535
AFFX-BioC-5_st 4.6 NC -0.1 0.5
AFFX-BioC-3_st 12 NC 1 0.061083
AFFX-BioDn-5_st 38.3 NC -0.4 0.574632
AFFX-BioDn-3_st 75.9 NC 0.5 0.225811

Total number of rows: 9335

Table truncated, full table size 256 Kbytes.




Comparison of GSM153630 vs. GSM153627 header descriptions
ID_REF Affymetrix probe set identifier
SIGNAL Normalized Signal Intensity against GSM153627
CHANGE_CALL the call in comparison analysis that indicates if the transcript was increase (I), marginal increase (MI), decrease (D), marginal decrease (MD), or no change (NC)
RATIO Signal log2 Ratio
CHANGE P-VALUE p-value that indicates the significance level of the change call

Data table
ID_REF SIGNAL CHANGE_CALL RATIO CHANGE P-VALUE
AFFX-MurIL2_at 4.2 NC -0.7 0.790016
AFFX-MurIL10_at 1.1 NC -0.5 0.995787
AFFX-MurIL4_at 1 NC 0.4 0.5
AFFX-MurFAS_at 5.7 NC -1.3 0.766029
AFFX-BioB-5_at 142.7 NC -0.6 0.982583
AFFX-BioB-M_at 203.7 NC -0.7 0.965205
AFFX-BioB-3_at 197.5 NC -0.5 0.976667
AFFX-BioC-5_at 370.8 NC -0.2 0.5
AFFX-BioC-3_at 300.8 NC -0.1 0.5
AFFX-BioDn-5_at 433.6 NC 0 0.5
AFFX-BioDn-3_at 2128.3 D -0.5 0.999999
AFFX-CreX-5_at 2574.5 D -0.5 0.999858
AFFX-CreX-3_at 3767.2 D -0.5 1
AFFX-BioB-5_st 5.3 NC -1.2 0.5
AFFX-BioB-M_st 2.2 NC -0.3 0.727363
AFFX-BioB-3_st 2.7 NC -0.2 0.731811
AFFX-BioC-5_st 8.7 NC 0.1 0.5
AFFX-BioC-3_st 17.9 NC 1.2 0.889365
AFFX-BioDn-5_st 6.8 D -2.7 0.999695
AFFX-BioDn-3_st 17.3 D -1.6 0.999982

Total number of rows: 9335

Table truncated, full table size 256 Kbytes.




Comparison of GSM153632 vs. GSM153627 header descriptions
ID_REF Affymetrix probe set identifier
SIGNAL Normalized Signal Intensity against GSM153627
CHANGE_CALL the call in comparison analysis that indicates if the transcript was increase (I), marginal increase (MI), decrease (D), marginal decrease (MD), or no change (NC)
RATIO Signal log2 Ratio
CHANGE P-VALUE p-value that indicates the significance level of the change call

Data table
ID_REF SIGNAL CHANGE_CALL RATIO CHANGE P-VALUE
AFFX-MurIL2_at 2.4 NC -0.8 0.99507
AFFX-MurIL10_at 0.9 NC -0.6 0.99507
AFFX-MurIL4_at 2.8 NC 0.7 0.246512
AFFX-MurFAS_at 14 NC -0.4 0.5
AFFX-BioB-5_at 156.2 NC -0.3 0.5
AFFX-BioB-M_at 275.2 NC -0.5 0.970067
AFFX-BioB-3_at 250.9 NC -0.1 0.5
AFFX-BioC-5_at 390.6 NC -0.1 0.5
AFFX-BioC-3_at 312.7 NC 0 0.5
AFFX-BioDn-5_at 442.5 NC 0.1 0.069631
AFFX-BioDn-3_at 2776.1 NC -0.2 0.5
AFFX-CreX-5_at 3388.6 NC -0.2 0.5
AFFX-CreX-3_at 4789.8 NC -0.2 0.5
AFFX-BioB-5_st 2.6 NC -1.6 0.5
AFFX-BioB-M_st 3.7 NC 0 0.238112
AFFX-BioB-3_st 5.3 NC -0.4 0.574632
AFFX-BioC-5_st 4.9 NC -0.2 0.542816
AFFX-BioC-3_st 2.9 NC -0.4 0.5
AFFX-BioDn-5_st 18.6 NC -2.2 0.713805
AFFX-BioDn-3_st 74.4 NC 0.1 0.5

Total number of rows: 9335

Table truncated, full table size 256 Kbytes.




Comparison of GSM153634 vs. GSM153627 header descriptions
ID_REF Affymetrix probe set identifier
SIGNAL Normalized Signal Intensity against GSM153627
CHANGE_CALL the call in comparison analysis that indicates if the transcript was increase (I), marginal increase (MI), decrease (D), marginal decrease (MD), or no change (NC)
RATIO Signal log2 Ratio
CHANGE P-VALUE p-value that indicates the significance level of the change call

Data table
ID_REF SIGNAL CHANGE_CALL RATIO CHANGE P-VALUE
AFFX-MurIL2_at 3.3 D -0.6 0.99948
AFFX-MurIL10_at 1.1 D -0.4 0.997517
AFFX-MurIL4_at 2.5 NC 0.8 0.5
AFFX-MurFAS_at 13.9 NC -0.4 0.233971
AFFX-BioB-5_at 176.7 NC -0.1 0.812494
AFFX-BioB-M_at 293.3 NC -0.2 0.661544
AFFX-BioB-3_at 199.8 NC -0.1 0.709215
AFFX-BioC-5_at 465.7 NC 0.2 0.304756
AFFX-BioC-3_at 310.7 NC 0 0.5
AFFX-BioDn-5_at 486.1 NC 0.3 0.004049
AFFX-BioDn-3_at 3107.2 NC -0.1 0.5
AFFX-CreX-5_at 3627.4 NC 0.1 0.5
AFFX-CreX-3_at 5666.8 NC 0.1 0.5
AFFX-BioB-5_st 32.2 NC 1.8 0.049137
AFFX-BioB-M_st 6.1 NC 0.1 0.180356
AFFX-BioB-3_st 6.2 NC -0.1 0.5
AFFX-BioC-5_st 15.1 NC 0.5 0.553462
AFFX-BioC-3_st 27.7 NC 2.7 0.09615
AFFX-BioDn-5_st 15.1 NC -2.5 0.833421
AFFX-BioDn-3_st 76.3 NC 0.2 0.378604

Total number of rows: 9335

Table truncated, full table size 255 Kbytes.




Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE6620_RAW.tar 16.0 Mb (http)(custom) TAR (of CEL)

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