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Sample GSM5229540 Query DataSets for GSM5229540
Status Public on Apr 01, 2024
Title non H2O2-treated rep2
Sample type RNA
 
Source name S. oligofermentans, anaerobically grown, repeat 2
Organism Streptococcus cristatus
Characteristics strain: AS 1.3089
treatment: non H2O2-treated
Treatment protocol One aliquot of S. oligofermentans was treated with 0.5 mM H2O2, leaving another aliquot untreated.
Growth protocol S. oligofermentans was anaerobically grown under 100% N2 in Brain Heart Infusion broth
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using Trizol reagent (Invitrogen) following the manufacturer's recommendations. Qualified total RNA was further purified using RNeasy micro kit (QIAGEN, GmBH, Germany) and RNase-Free DNase Set (QIAGEN, GmBH, Germany)
Label Cy3
Label protocol Cyanine-3 (Cy3) labeled cRNA was prepared using Low Input Quick Amp Labeling Kit, One-Color (Agilent technologies), and purified using RNeasy mini kit (QIAGEN).
 
Hybridization protocol Each microarray chip slide was hybridized with 600 ng Cy3-labeled cRNA using Gene Expression Hybridization Kit (Agilent technologies) according to the manufacturer’s instructions. After 17 h hybridization, slides were washed with Gene Expression Wash Buffer Kit,
Scan protocol Microarray chips were scanned by Agilent Microarray Scanner with default settings.
Description Gene expression profiles in anaerobically grown S. oligofermentans
Data processing Data were extracted with Feature Extraction software 10.7 (Agilent technologies), and normalized using Quantile algorithm, Gene Spring Software 11.0 (Agilent technologies).
 
Submission date Apr 07, 2021
Last update date Apr 01, 2024
Contact name Huichun Tong
E-mail(s) tonghuichun00@sina.com
Phone +861064807567
Organization name Institute of Microbiology, Chinese Academy of Sciences
Street address NO. 3, Yihao Yuan, Beichen West Road, Chaoyang District, Beijing
City Beijing
ZIP/Postal code 100101
Country China
 
Platform ID GPL29985
Series (1)
GSE171631 Evaluating the H2O2-induced tRNA expressions change in Streptococcus oligofermentans

Data table header descriptions
ID_REF
VALUE normalized data of probes targeting to tRNA genes

Data table
ID_REF VALUE
CUST_4643_PI428746791 17.457167
CUST_4644_PI428746791 17.539032
CUST_4645_PI428746791 15.0115185
CUST_4646_PI428746791 15.057715
CUST_4647_PI428746791 14.046405
CUST_4648_PI428746791 13.901899
CUST_4649_PI428746791 11.839117
CUST_4650_PI428746791 11.794304
CUST_4651_PI428746791 15.154193
CUST_4652_PI428746791 15.263784
CUST_4653_PI428746791 15.072569
CUST_4654_PI428746791 15.332603
CUST_4655_PI428746791 15.25873
CUST_4656_PI428746791 15.008775
CUST_4657_PI428746791 12.171564
CUST_4658_PI428746791 12.106409
CUST_4659_PI428746791 15.413198
CUST_4660_PI428746791 15.4237995
CUST_4661_PI428746791 13.049199
CUST_4662_PI428746791 13.00688

Total number of rows: 68

Table truncated, full table size 2 Kbytes.




Supplementary file Size Download File type/resource
GSM5229540_raw_data_S._oligofermentans_non_H2O2-treated_rep2.txt.gz 2.2 Mb (ftp)(http) TXT
Processed data included within Sample table
Processed data are available on Series record

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