|
| Status |
Public on Aug 18, 2010 |
| Title |
Caenorhabditis briggsae (isolate AF16) |
| Sample type |
genomic |
| |
|
| Source name |
Genomic DNA from Caenorhabditis briggsae (isolate AF16)
|
| Organism |
Caenorhabditis briggsae |
| Characteristics |
isolate: AF16
tissue: whole-body
|
| Treatment protocol |
Maintained on NGM growth media at 20 degrees C, seeded with E. coli OP50
|
| Growth protocol |
Maintained on NGM growth media at 20 degrees C, seeded with E. coli OP50
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Whole individuals were washed off NGM plates with M9 buffer and genomic DNA was extracted with phenol-chloroform
|
| Label |
biotin
|
| Label protocol |
GeneChip WT Double-Stranded DNA Terminal Labeling Kit, according to manufacturer's specifications
|
| |
|
| Hybridization protocol |
GeneChip Hybridization, Wash, and Stain kit, according to manufacturer's specifics, using GeneChip Fluidics station 400
|
| Scan protocol |
Arrays were scanned on an Affymetrix Scanner 3000 7G
|
| Description |
CEL files contain raw intensity data, without scaling or smoothing
|
| Data processing |
Data was extracted with GeneChip Operating Software (GCOS) and processed using Tiling Analysis Software (TAS).
Normalized intensity file is tab-delimited and contains probe-level normalized intensity for each species, as described in the manuscript.
|
| |
|
| Submission date |
Aug 17, 2010 |
| Last update date |
Aug 17, 2010 |
| Contact name |
Michael A Herman |
| E-mail(s) |
mherman@ksu.edu
|
| Organization name |
Kansas State University, Ecological Genomics Institute
|
| Department |
Division of Biology
|
| Street address |
266 Chalmers Hall
|
| City |
Manhattan |
| State/province |
KS |
| ZIP/Postal code |
66506 |
| Country |
USA |
| |
|
| Platform ID |
GPL5634 |
| Series (1) |
| GSE23667 |
Array-based cross-species hybridization between genera of Rhabditidae (Nematoda) |
|
