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Sample GSM1626002 Query DataSets for GSM1626002
Status Public on Jan 04, 2016
Title con24h-rep2
Sample type RNA
 
Source name U251 cells, 24hpi, control infection, replicate2
Organism Homo sapiens
Characteristics cell line: U251 astrocyte cell line
infection: control
time: 24 hpi
Treatment protocol U251 cells were inoculated with H5N1 at MOI 1.0 or not infected. After 40 min adsorption, cells were washed once using warm phosphate-buffered saline (PBS) and then incubated in DMEM containing 0.2% FBS at 37℃. At time points 6, 12, and 24 hpi, total RNA was extracted.
Growth protocol U251 cells were maintained in DMEM supplemented with 10% heat-inactivated fetal bovine serum, amd incubated in 37 ºC in a humidified incubator with 5% CO2.
Extracted molecule total RNA
Extraction protocol Total RNA was extracted usingTRIZOL Reagent (Cat#15596-018, Lifetechnologies, Carlsbad, CA, US)following the manufacturer’ s instructions and check ed for a RIN number to inspect RNA integration by an Agilent Bioanalyzer 2100 (Agilent technologies, Santa Clara, CA, US).Qualified total RNA was further purified by RNeasy mini kit (Cat#74106, QIAGEN, GmBH, Germany) and RNase-Free DNase Set (Cat#79254, QIAGEN, GmBH, Germany).
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), following 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 immediately after washing on the Agilent DNA Microarray Scanner (G2565CA) using one color scan setting for 4x44k array slides.
Description Gene expression after 24h in control-infected U251
Data processing Data were extracted with Feature Extraction software 10.7 (Agilent technologies, Santa Clara, CA, US). Raw data were normalized by Quantile algorithm, Gene Spring Software 11.0 (Agilent technologies, Santa Clara, CA, US).
 
Submission date Mar 06, 2015
Last update date Jan 04, 2016
Contact name Lin xian
E-mail(s) [email protected]
Organization name Huazhong Agricutural University
Department College of Veterinary Medicine
Lab State Key Laboratory of Agricultural Microbiology
Street address shizishan street,number 1
City wuhan
State/province Hubei
ZIP/Postal code 430070
Country China
 
Platform ID GPL6480
Series (1)
GSE66597 Insights into responses of human astrocytes to H5N1 infection by transcriptional analysis

Data table header descriptions
ID_REF
VALUE Normalized signal intensity

Data table
ID_REF VALUE
A_24_P66027 3.9718463
A_32_P77178 2.1569722
A_23_P212522 8.40825
A_24_P934473 3.048664
A_24_P9671 12.143293
A_32_P29551 2.1562502
A_24_P801451 6.7930627
A_32_P30710 15.132183
A_32_P89523 2.1575975
A_24_P704878 2.1583788
A_32_P86028 15.62715
A_24_P470079 3.7412255
A_23_P65830 10.344144
A_23_P109143 13.666689
A_24_P595567 7.2231374
A_24_P391591 7.989409
A_24_P799245 2.167735
A_24_P932757 2.1698723
A_24_P835500 10.866317
A_23_P54340 4.750786

Total number of rows: 41091

Table truncated, full table size 890 Kbytes.




Supplementary file Size Download File type/resource
GSM1626002_GE8.txt.gz 8.9 Mb (ftp)(http) TXT
Processed data included within Sample table

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