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Sample GSM5229539 Query DataSets for GSM5229539
Status Public on Apr 01, 2024
Title non H2O2-treated rep1
Sample type RNA
 
Source name S. oligofermentans, anaerobically grown, repeat 1
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 18.148836
CUST_4644_PI428746791 18.372768
CUST_4645_PI428746791 16.564287
CUST_4646_PI428746791 16.567291
CUST_4647_PI428746791 15.954985
CUST_4648_PI428746791 15.801926
CUST_4649_PI428746791 12.965256
CUST_4650_PI428746791 12.984436
CUST_4651_PI428746791 17.01176
CUST_4652_PI428746791 17.154558
CUST_4653_PI428746791 17.266607
CUST_4654_PI428746791 17.248426
CUST_4655_PI428746791 17.217466
CUST_4656_PI428746791 16.973755
CUST_4657_PI428746791 13.478323
CUST_4658_PI428746791 13.453491
CUST_4659_PI428746791 16.540546
CUST_4660_PI428746791 16.518122
CUST_4661_PI428746791 15.089909
CUST_4662_PI428746791 14.778076

Total number of rows: 68

Table truncated, full table size 2 Kbytes.




Supplementary file Size Download File type/resource
GSM5229539_raw_data_S._oligofermentans_non_H2O2-treated_rep1.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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