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Sample GSM76198 Query DataSets for GSM76198
Status Public on Nov 01, 2005
Title Candida uninfected #13072403
Sample type RNA
 
Channel 1
Source name BcA70
Organism Mus musculus
Characteristics Strain: BcA70, Gender: Male, Tissue: Heart, Time: uninfected, RNA: 18
Extracted molecule total RNA
Label Cy5
 
Channel 2
Source name C57BL/6 heart; uninfected
Organism Mus musculus
Characteristics Strain: C57Bl/6, Gender: male, Tissue: heart, Time: uninfected, RNA: 20
Extracted molecule total RNA
Label Cy3
 
 
Description Animals were sacrificed, ex-sanguinated and hearts were rapidly frozen in liquid nitrogen, and subsequently stored at -80oC. Infected tissues were taken from mice injected with 3x105 C.albicans blastospores into the tail vein. Tissues were mechanically homogenized with a polytron and total cellular RNA was extracted using a commercially available reagent (TRIzol; Invitrogen). For cDNA labeling, either 20 mg of total RNA was converted into cDNA using reverse transcriptase (RT; Super Script II, Invitrogen) and alternatively Cy5 or Cy3-labeled dCTP (1mM, Perkin Elmer-Cetus/NEN, Boston) in a reaction mixture containing 1.5 mL oligo (dT) (100pmol/ mL), 3 mL dNTP-dCTP (6.67mM each), 1 mL dCTP (2mM), 4 mL DTT (100mM), 8 mL 5 X RT Buffer (Invitrogen, California). The reactions were carried out at 42oC for 3 hrs, after which the RNA was degraded by the addition of 0.5 mL RNase A (1 mg/mL) and 1.5 mL RNaseH 5 units/mL). Labeled cDNA was separated from unincorporated nucleotides (Qiagen column) and further concentrated by evaporation under vacuum.
Data processing dye swap and intensity dependent (LOWESS) normalization
 
Submission date Sep 26, 2005
Last update date Oct 11, 2005
Contact name Gundula Min-Oo
E-mail(s) gundula.min-oo@mail.mcgill.ca
Phone 5143982542
Organization name McGill University
Department Biochemistry
Street address
City Montreal
State/province Quebec
ZIP/Postal code H3G 1Y6
Country Canada
 
Platform ID GPL519
Series (1)
GSE3381 Differential susceptibility to Candida albicans in mice

Data table header descriptions
ID_REF
VALUE log2 of PRE_VALUE
CH1_MEAN signal intensity of experimental sample
CH2_MEAN signal intensity of control sample
PRE_VALUE normalized ratio Ch1/Ch2

Data table
ID_REF VALUE CH1_MEAN CH2_MEAN PRE_VALUE
1 0.1966 7079.674 6177.754 1.1459948
2 0.0404 1119.7842 1088.8291 1.0284296
3 0.5031 1248.124 880.6812 1.4172257
4 -0.1493 719.1668 797.5926 0.9016718
5 0.1847 1311.0814 1153.5303 1.1365817
6 -0.0572 871.45984 906.72614 0.9611059
7 0.0852 2834.941 2672.3906 1.0608258
8 0.2577 1868.5189 1562.8196 1.1956075
9 0.0963 996.98517 932.63947 1.0689932
10 0.1220 1012.9357 930.7746 1.0882717
11 0.0920 929.2156 871.8319 1.0658196
12 0.1045 1249.585 1162.308 1.0750895
13 -0.0440 939.10925 968.22424 0.96992946
14 -0.3609 872.3503 1120.3275 0.7786565
15 -0.1598 1185.3462 1324.1873 0.89514995
16 0.0175 1138.1636 1124.4656 1.0121818
17 -0.1436 921.4684 1017.94165 0.90522707
18 -0.1874 949.0471 1080.6819 0.87819284
19 0.4453 34471.39 25316.941 1.3615938
20 -0.1023 1205.2698 1293.8387 0.93154556

Total number of rows: 15247

Table truncated, full table size 628 Kbytes.




Supplementary data files not provided

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