|
| Status |
Public on Jun 05, 2007 |
| Title |
Winged 4th Instar Females Replicate 2 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Universal RNA
|
| Organism |
Acyrthosiphon pisum |
| Characteristics |
Description : Single large-scale collection of parthenogenetic aphids at all stages of development.
|
| Biomaterial provider |
Stern Lab, Princeton
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Description : Total RNA was isolated using the SV Total RNA Isolation Kit (Promega).
|
| Label |
Alexa Fluor 555
|
| Label protocol |
Description : 20 micrograms of total RNA was used to produce Alexa Fluor 555-labeled cDNA with the SuperScript Plus Direct cDNA Labeling System (Invitrogen).
|
| |
|
| Channel 2 |
| Source name |
W 4th F1 Females
|
| Organism |
Acyrthosiphon pisum |
| Characteristics |
Description : Second-Day Winged 4th Instar Females were collected in groups of 15 and immediately frozen in liquid nitrogen.
|
| Biomaterial provider |
Stern Lab, Princeton
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Description : Total RNA was isolated using the SV Total RNA Isolation Kit (Promega).
|
| Label |
Alexa Fluor 647
|
| Label protocol |
Description : 20 micrograms of total RNA was used to produce Alexa Fluor 647-labeled cDNA with the SuperScript Plus Direct cDNA Labeling System (Invitrogen).
|
| |
|
| |
| Hybridization protocol |
Description : Slides were UV-crosslinked with 6000μJ and prehybridized for one hour in 3xSSC, 0.1% SDS and 1% blocking agent (Roche). Slides were boiled for two minutes prior to drying. Labeled cDNA was hybridized to slides under lifter slips (Erie Glass) overnight at 65?C in a hybridization buffer containing 3xSSC, 0.1% SDS, 20mM Hepes, 13.6 micrograms tRNA and 40 micrograms polyA RNA. All dye handling and hybridizations were conducted in an ozone free room.
|
| Scan protocol |
Scan Power : 100
PMT Volts : 0
Pixel Size : 10
Laser on time : 0
Laser Power : 0.00
Scan Date : 2005-12-15
Scan Temperature : 0.00
Scan Time : 14:56:30
Scanner Make : Agilent Technologies
Scanner Model : G2505B
Scanning software : Agilent Scan Control
Scanning software version : A.7.0.1
Focus Position : 0
|
| Description |
Winged 4th Instar Females Replicate 2
|
| Data processing |
Extraction Software : GenePix Pro
Extraction Software Version : 5.0.1.24
Datafile type : GenePix Results 3
Image Origin : 0, 0
|
| |
|
| Submission date |
Jun 04, 2007 |
| Last update date |
Apr 24, 2013 |
| Contact name |
Gregory K. Davis |
| E-mail(s) |
gkdavis@princeton.edu
|
| Phone |
609-258-5146
|
| URL |
http://www.princeton.edu/~gkdavis/
|
| Organization name |
Princeton University
|
| Department |
Ecology and Evolutionary Biology
|
| Lab |
Stern Lab
|
| Street address |
106A Guyot Hall, Washington Road
|
| City |
Princeton |
| State/province |
NJ |
| ZIP/Postal code |
08544 |
| Country |
USA |
| |
|
| Platform ID |
GPL5347 |
| Series (1) |
| GSE8008 |
Common genome-wide patterns of transcript accumulation underlying the wing polyphenism and polymorphism in the pea aphid |
|
| Data table header descriptions |
| ID_REF |
feature/spot number |
| VALUE |
Log (base 2) of the ratio of the mean of Channel 2 (usually 635 nm) to Channel 1 (usually 532 nm) [log (base 2) (RAT2N_MEAN)]. |
| RAT2N_MEAN |
Channel 2/Channel 1 ratio normalized, RAT2_MEAN/Normalization factor or Red/Green mean ratio normalized. |
| CH1D_MEAN |
Mean Channel 1 (usually 532 nm) intensity with the median-background subtracted (CH1I_MEAN - CH1B_MEDIAN) |
| CH2DN_MEAN |
Normalized value of mean Channel 2 (usually 635 nm) intensity with normalized background subtracted (CH2IN_MEAN - CH2BN_MEDIAN). |
| CH1I_MEAN |
Mean spot pixel intensity at Channel 1 (usually 532 nm). |
| CH1B_MEDIAN |
Median spot background intensity in Channel 1 (usually 532 nm). |
| CH2IN_MEAN |
Normalized value of mean Channel 2 (usually 635 nm) intensity (CH2I_MEAN/Normalization factor). |
| CH2BN_MEDIAN |
Normalized value of median Channel 2 (usually 635 nm) background (CH2B_MEDIAN/Normalization factor). |
| CORR |
Sqrt(Coefficient of determination for the current regression value) with sign inferred from sign of REGR column. Value of '-1' indicates an error in this field. |
| FLAG |
Type of flag associated with a spot. |
