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Sample GSM1635487 Query DataSets for GSM1635487
Status Public on Aug 09, 2016
Title CBS138 delta-vph2 pH5.0 rep.2
Sample type RNA
 
Source name Candida glabrata CBS138 delta-vph2
Organism Nakaseomyces glabratus CBS 138
Characteristics genotype/variation: delta-vph2
phenotype: loss of V-ATPase activity
growth protocol: pH 5.0
Treatment protocol Candida glabrata CBS138 delta-vph2 was grown to log phase at 30°C in SC broth (pH5.0 and 7.4).
Growth protocol Candida glabrata CBS138 was grown to log phase at 30°C in SC broth (pH5.0 and 7.4).
Extracted molecule total RNA
Extraction protocol Total RNA were extracted using RNeasy Mini Kit (Qiagen, Valencia, CA). The quality of RNA was checked with a RNA 6000 Nano Kit and Agilent 2100 Bioanalyzer.
Label Cy3
Label protocol Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
 
Hybridization protocol Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol. See www.nimblegen.com.
Scan protocol Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol. See www.nimblegen.com.
Description This sample is of Candida glabrata CBS138 delta-vph2 in SC broth (pH5.0). It is the second of two delta-vph2 mutant biological replicates used in this experiment, each from separate cultures.
Data processing The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), quantile normalization (Bolstad et al. Bioinformatics 19(2):185), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).
 
Submission date Mar 17, 2015
Last update date Aug 09, 2016
Contact name Hiroshi Nishikawa
E-mail(s) hiroshi_nishikawa@toyama-chemical.co.jp
Organization name Nagasaki University Graduate School of Biomedical Sciences
Street address 1-7-1 Sakamoto
City Nagasaki
ZIP/Postal code 852-8501
Country Japan
 
Platform ID GPL19901
Series (1)
GSE66984 Expression analysis of Candida glabrata CBS138 delta-vph2 mutant

Data table header descriptions
ID_REF
VALUE RMA-normalized, averaged gene-level signal intensity

Data table
ID_REF VALUE
CAGL0A00110g 2368
CAGL0A00121g 28244
CAGL0A00143g 877
CAGL0A00165g 1255
CAGL0A00187g 2103
CAGL0A00209g 5149
CAGL0A00231g 1178
CAGL0A00253g 3400
CAGL0A00275g 5913
CAGL0A00297g 1923
CAGL0A00319g 1834
CAGL0A00341g 1143
CAGL0A00363g 2965
CAGL0A00385g 3628
CAGL0A00407g 4111
CAGL0A00429g 2389
CAGL0A00451g 4466
CAGL0A00473g 1814
CAGL0A00495g 18035
CAGL0A00517g 2442

Total number of rows: 5217

Table truncated, full table size 91 Kbytes.




Supplementary file Size Download File type/resource
GSM1635487_424958A02_532.pair.gz 970.0 Kb (ftp)(http) PAIR
GSM1635487_424958A02_532_norm_RMA.pair.gz 1007.9 Kb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file

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