|
Status |
Public on Jan 01, 2007 |
Title |
13296217 |
Sample type |
other |
|
|
Channel 1 |
Source name |
N42 non-infected 42 h
|
Organism |
Homo sapiens |
Characteristics |
N42
|
Extracted molecule |
other |
Extraction protocol |
Small RNA purification using MirVana (Ambion) protocol from Total RNA.
|
Label |
Cy3
|
Label protocol |
1 μg of each small RNA fraction was chemically labelled with fluorescein and biotin using the MICROMAX kit (Perkin Elmer # MPS545).
|
|
|
Channel 2 |
Source name |
I42 infected 42 h
|
Organism |
Homo sapiens |
Characteristics |
I42
|
Extracted molecule |
other |
Extraction protocol |
Small RNA purification using MirVana (Ambion) protocol from Total RNA.
|
Label |
Cy5
|
Label protocol |
1 μg of each small RNA fraction was chemically labelled with fluorescein and biotin using the MICROMAX kit (Perkin Elmer # MPS545).
|
|
|
|
Hybridization protocol |
Both channel labelled-miRNA were then combined, purified and hybridized in 50 μl hybridization buffer (Corning Hybridization chamber) during 16 hrs at 45°C. Arrays were then washed and treated for a sequential Cy3 and Cy5 detection process following the MICROMAX kit procedure.
|
Scan protocol |
Fluorescent array images were collected for both Cy3 and Cy5 with a GenePix 4000A fluorescent scanner and image intensity data were extracted and analyzed with GenePix Pro 6.0 analysis software.
|
Description |
2005/10/13 - 13296217
|
Data processing |
GenePix Pro 6.0 analysis software
|
|
|
Submission date |
Apr 04, 2006 |
Last update date |
Jan 11, 2007 |
Contact name |
Kevin Lebrigand |
Organization name |
IPMC/CNRS
|
Lab |
Functional Genomics Platform of Nice-Sophia-Antipolis, France.
|
Street address |
660 route des lucioles
|
City |
Valbonne - Sophia-Antipolis |
ZIP/Postal code |
06560 |
Country |
France |
|
|
Platform ID |
GPL3241 |
Series (1) |
GSE4761 |
Identification of host miRNA regulated by HIV-1 |
|
Data table header descriptions |
ID_REF |
|
F635_MEDIAN |
CH1 (F635) median fluorescence intensity |
B635_MEDIAN |
CH1 (F635) background median fluorescence intensity |
F532_MEDIAN |
CH2 (F532) median fluorescence intensity |
B532_MEDIAN |
CH2 (F532) background median fluorescence intensity |
VALUE |
same as UNF_VALUE but with flagged values removed |
FLAGS |
Denotes which features met our filtering criterion.(-50:autoflag, -100:manual flag) |
UNF_VALUE |
Normalized log2 ratio of means defined by CH1/CH2 |