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Sample GSM1986064 Query DataSets for GSM1986064
Status Public on Aug 10, 2016
Title AT-II_WT_normal
Sample type RNA
 
Source name alveolar type II lung epithelial cells, WT, without tumor inoculation
Organism Mus musculus
Characteristics tissue: lung
gander: female
genotype/variation: wild type
condition: without tumor inoculation
Growth protocol Lewis lung carcinoma (LLC) was subcutaneously inoculated in Tlr3-/- and WT mice. Two weeks later, lung tissues from Tlr3-/- and WT mice with or without tumor inoculation were dissociated and AT-II cells were sorted using a MoFlo XDP flow cytometer.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted and purified using RNeasy mini kit (Cat#74106, QIAGEN, GmBH, Germany) following the manufacturer’s instructions and checked for a RIN number to inspect RNA integration by an Agilent Bioanalyzer 2100 (Agilent technologies, Santa Clara, CA, US).
Label Cy3
Label protocol Total RNA was amplified and labeled by Low Input Quick Amp Labeling Kit, One-Color (Cat#5190-2305, Agilent technologies, Santa Clara, CA, US), followed the manufacturer’s instructions. Labeled cRNA were purified by RNeasy mini kit (Cat#74106, QIAGEN, GmBH, Germany).
 
Hybridization protocol Each Slide was hybridized with 1.65μg Cy3-labeled cRNA using Gene Expression Hybridization Kit (Cat#5188-5242, Agilent technologies, Santa Clara, CA, US) in Hybridization Oven (Cat#G2545A, Agilent technologies, Santa Clara, CA, US), according to the manufacturer’s instructions. After 17 hours hybridization, slides were washed in staining dishes (Cat#121, Thermo Shandon, Waltham, MA, US) with Gene Expression Wash Buffer Kit(Cat#5188-5327, Agilent technologies, Santa Clara, CA, US), followed the manufacturer’s instructions.
Scan protocol Slides were scanned by Agilent Microarray Scanner (Cat#G2565CA, Agilent technologies, Santa Clara, CA, US) with default settings,Dye channel: Green ,Scan resolution=5μm, PMT 100%,10% ,16bit.
Description Gene expression in AT-II cells from WT mouse without tumor cell inoculation
Data processing The scanned images were analyzed with Feature Extraction software (Agilent technologies, Santa Clara, CA, US)with default settings.
 
Submission date Dec 29, 2015
Last update date Aug 10, 2016
Contact name Liu Yanfang
E-mail(s) liuyanfang00215@163.com
Phone 0086-13918386805
Organization name Second Military Medical University
Department Immunology
Street address 800 Xiangyin Road
City Shanghai
ZIP/Postal code 200433
Country China
 
Platform ID GPL7202
Series (1)
GSE76397 Gene expression signatures for murine alveolar type II lung epithelial cells after tumor bearing

Data table header descriptions
ID_REF
VALUE Quantile algorithm normalized signal intensity

Data table
ID_REF VALUE
GE_BrightCorner 13.557723
DarkCorner 2.3864357
A_52_P616356 2.2375402
A_52_P580582 5.625802
A_52_P403405 2.2401338
A_52_P819156 2.2396648
A_51_P331831 6.5108128
A_51_P430630 2.2333078
A_52_P502357 2.2302303
A_52_P299964 5.545896
A_51_P356389 2.2225533
A_52_P684402 7.354999
A_51_P414208 3.1533365
A_51_P280918 9.841565
A_52_P613688 4.586607
A_52_P258194 2.2000165
A_52_P229271 5.845531
A_52_P214630 4.424686
A_52_P579519 7.6681433
A_52_P979997 2.1810293

Total number of rows: 41267

Table truncated, full table size 908 Kbytes.




Supplementary file Size Download File type/resource
GSM1986064_WT_without_tumor.txt.gz 8.6 Mb (ftp)(http) TXT
Processed data included within Sample table

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