http://cals.arizona.edu/sus/Web2.gif

Deconvolving Pig Genome Microarrays


 

Deconvolving the microarrays:

The print format comprises a single array printed using 48 pins.  The array contains 12 metarows and 4 metacolumns, with the subarrays containing 23 columns and 23 rows and an element spacing of 170 x 165 microns.  We print on microarray slide surfaces that are 1" wide  x 3" long.  The microarrays occupy a printed area located 3 mm in from the long sides of the slides, 7 mm from the top, and 14 mm from the bottom.

Red Reflectance and 9-mer hybridization images are provided below.

The deconvolution files linking array elements with corresponding gene identifiers are provided below as text files and/or GenePix Array List (GAL) format files .  Please check the numbers printed on the slide labels, and download the decode file that corresponds to those numbers.

Array element sequence information is available from www.pigoligoarray.org

Slide Numbering Scheme

http://cals.arizona.edu/sus/slidelabel.gif

The microarrays are coded according to the following scheme:

XX refers to the lot number of the oligonucleotides used for printing. YY refers to the print run number.  ZZZ refers to the slide number within the print run (from 1-308). Click here or on image to enlarge it. 

These numbers allow us to track individual slides for QC purposes. In most cases, we take out one or two microarrays from each print run to perform reflectance imaging and a test hybridization using random 9-mers (indicated below).


 

Microarray Designation

Reflectance Image

Hybridization

Image (9-mer)

Deconvolution

Files

Notes

SUS v1 01.02.Z

Microarray 35

Microarray 35

TXT

GAL

 

SUS v1 01.03.Z

 

Microarray 70

TXT

GAL

 

SUS v1 01.04.Z

 

TXT

GAL

 

SUS v1 01.05.Z

Microarray 49

Microarray 49

TXT

GAL

 

SUS v1 02.02.Z

 

Microarray 241

TXT

GAL

 

SUS v1 02.03.Z

Microarray 76

Microarray 76

TXT

GAL

 

SUS v1 02.05.Z

Microarray 48

Microarray 44

TXT

GAL

 

SUS v1 03.01.Z

Microarray 307

Microarray 388

TXT

GAL

 

SUS v1 03.02.Z

Microarray 396

Microarray 395

TXT

GAL

SUS v1 03.03.Z

Microarray 398

Microarray 398

TXT

GAL

 

SUS v1 03.04.Z

 

Microarray 049

 TXT

GAL 

 

SUS v1 04.01.Z

Microarray 100

TXT

GAL

 SUS v1 04.02.Z

Microarray 396

Microarray 275

TXT

GAL

 




Questions, comments, or suspected problems should be communicated to: David Galbraith
Page last updated July 15, 2009