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Sample GSM1551189 Query DataSets for GSM1551189
Status Public on Nov 21, 2014
Title Kidney_UPEC132_infected_4h_rep1
Sample type RNA
 
Source name Mouse kidney of UPEC132 group at 4h post-infection
Organism Mus musculus
Characteristics time: 4 h
infection: E. coli UPEC132
genetic background: BALB/c
tissue: kidney
gender: female
age: 8 weeks
weight: 16-18 g
Extracted molecule total RNA
Extraction protocol Total RNA was extracted using the the RNeasy Plus kit (Qiagen Inc., Valencia, CA, USA) and the RNAprotect reagent (Qiagen) and DNA was removed by on-column DNase digestion with the RNase-Free DNase set (Qiagen). RNA quality and concentration was determined by analysis with agarose gel electrophoresis and spectrophotometer at CapitalBio Corporation (Beijing, China).
Label Cy3
Label protocol Labeling was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol
 
Hybridization protocol Hybridization was performed by NimbleGen Systems Inc., Madison, WI, USA following their standard operating protocol.
Scan protocol Scanning was performed by NimbleGen Systems Inc., Madison, WI USA, following their standard operating protocol.
Description This sample is of kidney from BALB/c mouse at 4 h post-infection by UPEC132. It is the first of two biological replicates used in this experiment, each from separate mouse.
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 Nov 20, 2014
Last update date Nov 21, 2014
Contact name Dongjing Yang
E-mail(s) yangdongjing@cdctj.gov.cn
Organization name Tianjin Centers for Disease Control and Prevention
Department Tianjin Institute for Preventive Medicine
Street address 6, Huayue Road
City Tianjin
ZIP/Postal code 300171
Country China
 
Platform ID GPL15887
Series (1)
GSE63502 Functional analysis of the uropathogenic Escherichia coli R049 gene

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

Data table
ID_REF VALUE
AB000096 2246.2838
AB000490 28.3605
AB001425 73.5811
AB001435 27.0333
AB001539 1963.5493
AB001750 3565.1056
AB001926 3547.5670
AB003502 8189.1377
AB004048 340.1196
AB005662 166.8867
AB005665 104.9500
AB005909 21.1300
AB006034 733.4911
AB006103 15.3144
AB007407 58.8478
AB008928 21.7156
AB009369 74.2778
AB010088 342.4433
AB010122 901.2700
AB011499 343.7661

Total number of rows: 44170

Table truncated, full table size 792 Kbytes.




Supplementary file Size Download File type/resource
GSM1551189_533155A04_532.pair.gz 2.7 Mb (ftp)(http) PAIR
Processed data included within Sample table

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