|
| Status |
Public on Sep 30, 2016 |
| Title |
S-BB-2N-A-g541-c3-DNA |
| Sample type |
genomic |
| |
|
| Channel 1 |
| Source name |
F3 5/31/05 C3
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain name: evolved S. uvarum strain
|
| Biomaterial provider |
Chris Desevo, Dunham Lab, princeton
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Extracted molecule : Genomic DNA
Extraction method : Hoffman-Winston prep http://dunham.gs.washington.edu/UWyeastDNAprep.pdf
|
| Label |
Cy3
|
| Label protocol |
reference URL : http://dunham.gs.washington.edu/MDhomemadeDNA.pdf
|
| |
|
| Channel 2 |
| Source name |
BB11
|
| Organism |
Saccharomyces cerevisiae |
| Characteristics |
strain name: ancestral S. uvarum strain
|
| Biomaterial provider |
Chris Desevo, Dunham Lab, princeton
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Extracted molecule : Genomic DNA
Extraction method : Hoffman-Winston prep http://dunham.gs.washington.edu/UWyeastDNAprep.pdf
|
| Label |
Cy5
|
| Label protocol |
reference URL : http://dunham.gs.washington.edu/MDhomemadeDNA.pdf
|
| |
|
| |
| Hybridization protocol |
reference URL : http://dunham.gs.washington.edu/MDhomemadeDNA.pdf
|
| Scan protocol |
Pixel Size : 5
Scan Date : 2008-01-04
Scan Time : 10:20:05
Scanner Make : Agilent Technologies Scanner
Scanner Model : G2505B
Scanning software : ChipScan
Scanning software version : A.7.0.1
|
| Description |
S-BB-2N-A-g541-c3-DNA
|
| Data processing |
Extraction Software : GenePix Pro
Extraction Software Version : 5.1.0.10
Datafile type : GenePix Results 3
Image Origin : 0, 0
|
| |
|
| Submission date |
Sep 27, 2016 |
| Last update date |
Sep 30, 2016 |
| Contact name |
Maitreya J. Dunham |
| E-mail(s) |
[email protected]
|
| Phone |
206-543-2338
|
| Organization name |
University of Washington
|
| Department |
Genome Sciences
|
| Lab |
Dunham Lab
|
| Street address |
Foege Building, S403B, Box 355065
|
| City |
Seattle |
| State/province |
WA |
| ZIP/Postal code |
98195-5065 |
| Country |
USA |
| |
|
| Platform ID |
GPL8668 |
| Series (1) |
| GSE87401 |
Differential paralog divergence modulates evolutionary outcomes in yeast |
|
| Data table header descriptions |
| ID_REF |
|
| 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. |
