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Sample GSM1635488 Query DataSets for GSM1635488
Status Public on Aug 09, 2016
Title CBS138 wild type pH7.4 rep.2
Sample type RNA
 
Source name Candida glabrata CBS138 wild type
Organism Nakaseomyces glabratus CBS 138
Characteristics genotype/variation: wild type
phenotype: normal
growth protocol: pH 7.4
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 wild type in SC broth (pH7.4). It is the first of two wild-type 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 1883
CAGL0A00121g 22982
CAGL0A00143g 752
CAGL0A00165g 1097
CAGL0A00187g 2265
CAGL0A00209g 5157
CAGL0A00231g 1119
CAGL0A00253g 2754
CAGL0A00275g 6037
CAGL0A00297g 2024
CAGL0A00319g 1937
CAGL0A00341g 1170
CAGL0A00363g 4111
CAGL0A00385g 3713
CAGL0A00407g 3104
CAGL0A00429g 3059
CAGL0A00451g 2324
CAGL0A00473g 2055
CAGL0A00495g 17308
CAGL0A00517g 2323

Total number of rows: 5217

Table truncated, full table size 91 Kbytes.




Supplementary file Size Download File type/resource
GSM1635488_424979A02_532.pair.gz 971.8 Kb (ftp)(http) PAIR
GSM1635488_424979A02_532_norm_RMA.pair.gz 1008.0 Kb (ftp)(http) PAIR
Processed data included within Sample table
Processed data provided as supplementary file

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