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Sample GSM1893060 Query DataSets for GSM1893060
Status Public on Nov 01, 2015
Title A549_TULV_12h_1
Sample type RNA
Source name A549_TULV_12h
Organism Homo sapiens
Characteristics cell line: A549
inoculum: TULV Moravia Ve6P3951129
Treatment protocol Cells were infected with the described viruses at MOI of 5.0 and the virus was adsorbed for 1h. Mock infections were performed using culture medium free of any virus.
Growth protocol A549 human lung carcinoma epithelial cells (DSMZ ACC 107) were cultured under standard conditions in 12-well cell culture plates
Extracted molecule total RNA
Extraction protocol TRIzol® extraction, according to manufacturer's protocol
Label Cy3
Label protocol For the linear T7-based amplification step, 100 ng of each total RNA sample was used. To produce Cy3-labeled cRNA, the RNA samples were amplified and labeled using the Agilent Low Input Quick Amp Labeling Kit (Agilent Technologies) following the manufacturer’s protocol. Yields of cRNA and the dye-incorporation rate were measured with the ND-1000 Spectrophotometer (NanoDrop Technologies).
Hybridization protocol The hybridization procedure was performed according to the Agilent 60-mer oligo microarray processing protocol using the Agilent Gene Expression Hybridization Kit (Agilent Technologies). Briefly, 600 ng Cy3-labeled fragmented cRNA in hybridization buffer was hybridized overnight (17 hours, 65 °C) to Agilent Whole Human Genome Oligo Microarrays 8x60K using Agilent’s recommended hybridization chamber and oven. Finally, the microarrays were washed once with the Agilent Gene Expression Wash Buffer 1 for 1 min at room temperature followed by a second wash with preheated Agilent Gene Expression Wash Buffer 2 (37 °C) for 1 min. The last washing step was performed with acetonitrile.
Scan protocol Fluorescence signals of the hybridized Agilent Microarrays were detected using Agilent’s Microarray Scanner System (Agilent Technologies).
Data processing The Agilent Feature Extraction Software (FES) was used to read out and process the microarray image files. For determination of differential gene expression FES derived output data files were further analyzed using the Rosetta Resolver gene expression data analysis system (Rosetta Biosoftware).
Submission date Sep 24, 2015
Last update date Nov 01, 2015
Contact name Daniel Bourquain
Phone 0049 (0)30187543825
Organization name Robert Koch Institute
Department Centre for Biological Threats and Special Pathogens 1
Lab Highly Pathogenic Viruses
Street address Seestraße 10
City Berlin
State/province Berlin
ZIP/Postal code 13353
Country Germany
Platform ID GPL13607
Series (1)
GSE73410 Diversity in Modulation of Interferon Stimulated Genes by Dobrava, Kurkino, and Sochi Genotypes of Dobrava-Belgrade Hantavirus in comparison to Tula Virus

Data table header descriptions
VALUE median normalized signal intensities

Data table
4 8.186382
5 12.80538
6 1.222752
7 68.497925
8 6.056317
9 0.046458
10 0.971348
11 0.04622
12 22.794473
13 16.118129
14 6.754388
15 259.078877
16 0.045591
17 1.501064
18 0.045333
19 0.045202
20 11.122123
21 44.927538
24 2.106663
25 3.911909

Total number of rows: 58717

Table truncated, full table size 861 Kbytes.

Supplementary file Size Download File type/resource
GSM1893060_252800418006_S01_GE1_107_Sep09_2_3.txt.gz 12.2 Mb (ftp)(http) TXT
Processed data included within Sample table

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