NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM338342 Query DataSets for GSM338342
Status Public on May 01, 2009
Title Lens epithelium, WT, #6L
Sample type RNA
 
Source name Lens epithelium, wild-type mouse
Organism Mus musculus
Characteristics Strain: Wild-type, C57Bl/6 background
Gender: female
Age: 28 days
Eye: Left
Biomaterial provider Clark lab mouse colony
Treatment protocol Lens was cryosectioned, stained with Cressyl Violet, and dehydrated. Laser capture microdissection (Arcturus PixCell2e) was used to remove epithelial cells from each section.
Growth protocol Normal housing
Extracted molecule total RNA
Extraction protocol RNeasy micro kit (Qiagen)
Label Biotin
Label protocol Two cycle amplification using Ambion MessageAmp II aRNA amplification kit and MessageAmp II-biotin enhanced amplification kits
 
Hybridization protocol GeneChip Hybridization Oven at 45ÂșC with rotation, washing on GeneChip Fulidics Station_450 using EukGE-Ws2v4_450 washing/staining protocol with Antibody Amplification Staining Protocol
Scan protocol 7G GeneChip Scanner, single scan, 570 nm filter, software GCOS1.4
Description Each data set was taken from one lens only. All lens data sets were from one litter of animals.
Data processing Global scaling in GCOS1.4 using all probsets and TGT value of 500
 
Submission date Oct 29, 2008
Last update date Nov 03, 2008
Contact name Teri Greiling
E-mail(s) teri@u.washington.edu
Phone 206-543-6651
Fax 206-543-1524
Organization name University of Washington
Department Biological Structure
Lab John I. Clark
Street address Box 357420
City Seattle
State/province WA
ZIP/Postal code 98195-7420
Country USA
 
Platform ID GPL1261
Series (1)
GSE13402 SPARC-null vs. wild-type lens epithelium

Data table header descriptions
ID_REF
VALUE MAS5-calculated signal intensity
ABS_CALL Call in an absolute analysis that indicates if the signal was present (P), absent (A), or marginal (M)
DETECTION P-VALUE p-value of the detection call

Data table
ID_REF VALUE ABS_CALL DETECTION P-VALUE
AFFX-BioB-5_at 1378.42 P 5.16732e-05
AFFX-BioB-M_at 2832.07 P 6.02111e-05
AFFX-BioB-3_at 1614.85 P 4.42873e-05
AFFX-BioC-5_at 3126.53 P 4.42873e-05
AFFX-BioC-3_at 3088.81 P 4.42873e-05
AFFX-BioDn-5_at 10629.7 P 4.42873e-05
AFFX-BioDn-3_at 14212.2 P 4.42873e-05
AFFX-CreX-5_at 33750.2 P 5.16732e-05
AFFX-CreX-3_at 38832.5 P 4.42873e-05
AFFX-DapX-5_at 5.25844 A 0.5
AFFX-DapX-M_at 13.1088 A 0.544591
AFFX-DapX-3_at 12.0099 A 0.485109
AFFX-LysX-5_at 1.90246 A 0.824693
AFFX-LysX-M_at 9.38776 A 0.58862
AFFX-LysX-3_at 7.29791 A 0.470241
AFFX-PheX-5_at 2.28134 A 0.921998
AFFX-PheX-M_at 2.82442 A 0.868639
AFFX-PheX-3_at 11.1858 A 0.699394
AFFX-ThrX-5_at 37.4671 A 0.175328
AFFX-ThrX-M_at 10.3268 A 0.227636

Total number of rows: 45101

Table truncated, full table size 1379 Kbytes.




Supplementary file Size Download File type/resource
GSM338342.CEL.gz 3.7 Mb (ftp)(http) CEL
GSM338342.CHP.gz 244.7 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap