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Sample GSM521709 Query DataSets for GSM521709
Status Public on Mar 02, 2011
Title WholeCell_Control_0min_rep2
Sample type RNA
 
Source name Whole cells
Organism Chlamydomonas reinhardtii
Characteristics strain: CC-124
Treatment protocol For feeding experiments, a starter culture grown in the light with ~2 × 106 cells per ml was subdivided into 25 ml aliquots in 100 ml Erlenmeyer flasks and incubation continued in the dark for 16 h. At time 0, MgProto or hemin (final concentration 9 μM each) was added to the cultures in the dark and incubation in the dark was continued until harvest. Control cultures were treated the same way but did not receive the tetrapyrroles.
Growth protocol Strains were grown heterotrophically in Tris-Acetate-Phosphate (TAP) medium (Harris, 1989) on a rotary shaker at 23°C either in the dark or under continuous irradiation with white light (fluence rate 45 μEm-2s-1) provided by fluorescent tubes (Osram L36W/25).
Extracted molecule total RNA
Extraction protocol As described in von Gromoff et al., 1989, Mol Cell Biol 9: 3911-3918
Label Cy3
Label protocol 0.5 µg of total RNA were reverse transcribed into cDNA, and Cy3 labeled using the Quick Amp Labeling Kit, one-color (Agilent 5190-0442)
 
Hybridization protocol Hybridization was done with 0.6 µg labeled cDNA per array according to the Agilent protocol for 8x15k single color microarrays at a temperature of 65˚C overnight.
Scan protocol An Agilent G2565CA DNA microarray scanner was used to scan arrays at 5 μm resolution, Feature Extraction Software 9.5.3.1 was then used to process and analyse array images.
Description n/a
Data processing The raw data was analyzed using GeneSpring GX 11.0 (Normalization: Shift to 75.0 percentile; Baseline Transformation: Median of all samples).
 
Submission date Mar 12, 2010
Last update date Mar 02, 2011
Contact name Bjoern Voss
Organization name University of Freiburg
Department Institute of Biology III
Lab Genetics
Street address Schänzlestr. 1
City Freiburg
ZIP/Postal code 79104
Country Germany
 
Platform ID GPL10173
Series (2)
GSE20860 Change in gene expression in Chlamydomonas reinhardtii upon feeding with hemin and Mg-protoporphyrin
GSE20861 Change in gene expression in Chlamydomonas reinhardtii upon heat shock and feeding with hemin and Mg-protoporphyrin

Data table header descriptions
ID_REF
VALUE shift to 75.0 precentile normalized log2 intensities

Data table
ID_REF VALUE
1.A -0.0656929
10.A 0.19568777
100.A 0.117040634
1000.C -0.6963229
10000.PilA1 0.26531553
1001.C 0.35390377
1002.C 1.0406775
1003.C 3.3740363
1004.C -0.9339466
1005.C -0.0435071
1006.C -1.7882853
1007.C -0.29027748
1008.C -0.24163532
1009.C 1.3539305
101.A -0.004052162
1010.C 0.029177666
1011.C -1.1016917
1012.C 3.8845582
1013.C 0.5809593
1014.C -0.38573122

Total number of rows: 10000

Table truncated, full table size 174 Kbytes.




Supplementary file Size Download File type/resource
GSM521709_AgHess_252097110006_S01_GE1-v5_95_Feb07_1_1.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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