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Sample GSM971600 Query DataSets for GSM971600
Status Public on Aug 06, 2012
Title CGH ZK2_vs_BYZ1
Sample type genomic
 
Channel 1
Source name ZK2
Organism Saccharomyces cerevisiae
Characteristics strain: ZK2
application: bioethanol strain
Extracted molecule genomic DNA
Extraction protocol Total genomic DNA from yeast cells was isolated with the Yeast DNA kit (OMEGA, CA, USA).
Label Cy3
Label protocol Genomic DNA was extracted and sheared into the DNA fragments with the length of 200–1000 bp before dye labeling.
 
Channel 2
Source name BYZ1
Organism Saccharomyces cerevisiae
Characteristics strain: BYZ1 (MATa/MATα his3Δ1/his3Δ1 leu2Δ0/leu2Δ0 lys2Δ0/+ met15Δ0/+ ura3Δ0/ura3Δ0)
application: laboratory strain (S288c background)
Extracted molecule genomic DNA
Extraction protocol Total genomic DNA from yeast cells was isolated with the Yeast DNA kit (OMEGA, CA, USA).
Label Cy5
Label protocol Genomic DNA was extracted and sheared into the DNA fragments with the length of 200–1000 bp before dye labeling.
 
 
Hybridization protocol Samples were labeled with Cy5 (BYZ1) or Cy3 (YJS329 and ZK2) and then hybridized to two S. cerevisiae 385k CGH Whole-Genome Tiling arrays (NimbleGen).
Scan protocol Axon GenePix 4000B microarray scanner (Axon, USA) was used to scan the microarrays.
Data processing Raw data were extracted as pair files by NimbleScan software. Log2-ratio data were calculated and normalized by spatial correction and qspline fit normalization.
 
Submission date Jul 22, 2012
Last update date Aug 06, 2012
Contact name Daoqiong Zheng
E-mail(s) zhengdaoqiong@163.com
Phone 86 571 88206636
Organization name College of Life Sciences, Zhejiang University
Department Institute of Microbiology
Street address 866 Yuhangtang Road
City Hangzhou
State/province Zhejiang
ZIP/Postal code 310058
Country China
 
Platform ID GPL7699
Series (1)
GSE31872 Comparative Genomic Hybridization of S. cerevisiae industrial and laboratory strains

Data table header descriptions
ID_REF
VALUE Log2 ratio of ZK2/BYZ1

Data table
ID_REF VALUE
seq_id=CHR1;probe_id=CHR100P000123281;count=1 -0.42676
seq_id=CHR1;probe_id=CHR100P000124753;count=1 -0.68912
seq_id=CHR1;probe_id=CHR100P000001996;count=1 -1.12235
seq_id=CHR1;probe_id=CHR100P000011261;count=1 -0.81343
seq_id=CHR1;probe_id=CHR100P000130876;count=1 -0.38784
seq_id=CHR1;probe_id=CHR100P000056688;count=1 -0.40878
seq_id=CHR1;probe_id=CHR100P000162897;count=1 -1.20061
seq_id=CHR1;probe_id=CHR100P000137475;count=1 -0.81871
seq_id=CHR1;probe_id=CHR100P000065072;count=1 -0.81164
seq_id=CHR1;probe_id=CHR100P000012733;count=1 -1.23037
seq_id=CHR1;probe_id=CHR100P000206347;count=1 -1.41661
seq_id=CHR1;probe_id=CHR100P000098462;count=1 -0.85338
seq_id=CHR1;probe_id=CHR100P000139716;count=1 -0.82664
seq_id=CHR1;probe_id=CHR100P000161361;count=1 -0.48784
seq_id=CHR1;probe_id=CHR100P000020447;count=1 -1.24873
seq_id=CHR1;probe_id=CHR100P000005358;count=1 -0.44973
seq_id=CHR1;probe_id=CHR100P000189988;count=1 -0.54478
seq_id=CHR1;probe_id=CHR100P000207435;count=1 -0.51587
seq_id=CHR1;probe_id=CHR100P000212203;count=1 -1.01445
seq_id=CHR1;probe_id=CHR100P000210763;count=1 -0.24233

Total number of rows: 378684

Table truncated, full table size 20318 Kbytes.




Supplementary file Size Download File type/resource
GSM971600_BYZ1_635.pair.gz 6.8 Mb (ftp)(http) PAIR
GSM971600_ZK2_532.pair.gz 6.8 Mb (ftp)(http) PAIR
Processed data included within Sample table
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