|
| Status |
Public on Jul 12, 2013 |
| Title |
ACY382 30 minutes alpha factor |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Universal reference
|
| Organism |
Saccharomyces bayanus |
| Characteristics |
species: S. bayanus
strain name: mixed
|
| Biomaterial provider |
Amy Caudy, Caudy Lab, The Donnelly Centre, University of Toronto
|
| Treatment protocol |
Growth Condition : mixed
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extracted molecule : RNA
Extraction method : acid phenol extraction
|
| Label |
Cy3
|
| Label protocol |
reference URL : http://genomics.princeton.edu/caudylab/Yeast_RNA_Prep_and_Labeling_070925.pdf
|
| |
|
| Channel 2 |
| Source name |
ACY382 30 minutes alpha factor
|
| Organism |
Saccharomyces bayanus |
| Characteristics |
strain name: ACY382
genotype: prototroph
sex/mating type: MATa
species: S. bayanus
|
| Biomaterial provider |
Amy Caudy, Caudy Lab, The Donnelly Centre, University of Toronto
|
| Treatment protocol |
Time : 30 minutes
Compound Based Treatment : 50 ng/ml alpha factor
Growth Condition : 25C YPD
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extracted molecule : RNA
Extraction method : acid phenol extraction
|
| Label |
Cy5
|
| Label protocol |
reference URL : http://genomics.princeton.edu/caudylab/Yeast_RNA_Prep_and_Labeling_070925.pdf
|
| |
|
| |
| Hybridization protocol |
reference URL : http://genomics.princeton.edu/caudylab/Yeast_RNA_Prep_and_Labeling_070925.pdf
|
| Scan protocol |
Pixel Size : 5
Scan Date : 2009-07-07
Scan Time : 13:47:09
Scanner Make : Agilent Technologies Scanner
Scanner Model : G2505B
Scanning software : ChipScan
Scanning software version : A.7.0.1
|
| Description |
Saccharomyces bayanus var uvarum
ACY382 30 minutes alpha factor
|
| Data processing |
Extraction Software : GenePix Pro
Extraction Software Version : 6.1.0.4
Datafile type : GenePix Results 3
Image Origin : 0, 0
|
| |
|
| Submission date |
Jun 03, 2013 |
| Last update date |
Jul 12, 2013 |
| Contact name |
Maitreya J. Dunham |
| E-mail(s) |
maitreya@uw.edu
|
| 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 |
GPL17234 |
| Series (1) |
| GSE47613 |
A New System for Comparative Functional Genomics of Saccharomyces Yeasts |
|
| 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. |
