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Sample GSM1481238 Query DataSets for GSM1481238
Status Public on Aug 19, 2014
Title heads-light_dark-ZeitgeberTime8
Sample type RNA
 
Source name Wh_LD_8 hr light/dark
Organism Aedes aegypti
Characteristics strain: Higgs White Eye
age: 2-6 days
Sex: female
treatment condition: light/dark conditions
time point: ZT8_LD
Growth protocol ~30 mated non-blood fed female Ae. aegypti Higgs White eye (Wh) strain mosquitoes, aged 2-6 days, were placed in 24 cages, and sequestered in light controlled boxes.
Extracted molecule total RNA
Extraction protocol Heads were removed from bodies at 0C on a chilled metal plate and collected. The RNeasy RNA Isolation Kit (Qiagen, Valencia, CA) was used to isolate RNA from each sample, following manufacturer’s instructions. Genomic DNA was instead removed by using the DNA-free Kit (Applied Biosystems, Carlsbad, CA) per manufacturer instructions.
Label Cy3
Label protocol Labeling was performed by the Genomics and Bioinformatics Core Facility, University of Notre Dame, using the NimbleGen Single Color Labeling Kit (Roche NimbleGen, Madison, WI).
 
Hybridization protocol Hybridization was performed by the Genomics and Bioinformatics Core Facility, University of Notre Dame, by using the Hybridization Kit, LS and Wash Buffer Kit (Roche NimbleGen, Madison, WI).
Scan protocol Scanning was performed by the Genomics and Bioinformatics Core Facility, University of Notre Dame, using a NimbleGen MS 200 Microarray Scanner at 2 μM resolution.
Description Wh_LD_8 hr light/dark
Data processing The raw data (.pair file) was subjected to RMA (Robust Multi-Array Analysis; Irizarry et al. Biostatistics 4(2):249), and background correction as implemented in the NimbleScan software package, version 2.4.27 (Roche NimbleGen, Inc.).
 
Submission date Aug 18, 2014
Last update date Sep 09, 2014
Contact name Matthew Leming
E-mail(s) mleming@nd.edu
Organization name University of Notre Dame
Department Biological Sciences
Lab Joe O'Tousa
Street address 100 Galvin Life Sciences Center
City Notre Dame
State/province IN
ZIP/Postal code 46556
Country USA
 
Platform ID GPL18530
Series (1)
GSE60496 A database of circadian and diel rhythmic gene expression in the yellow fever mosquito Aedes aegypti

Data table header descriptions
ID_REF
VALUE RMA-normalized, averaged gene-level signal intensity

Data table
ID_REF VALUE
AAEL000001-RA 1290.772833
AAEL000002-RA 996.1269
AAEL000003-RA 1281.1705
AAEL000004-RA 5406.760667
AAEL000005-RA 446.0070667
AAEL000005-RB 466.9998
AAEL000006-RA 1278.794833
AAEL000007-RA 98.16663333
AAEL000008-RA 2881.948133
AAEL000009-RA 516.1647667
AAEL000010-RA 27093.69423
AAEL000011-RA 15.75813333
AAEL000012-RA 71.76546667
AAEL000013-RA 3018.5427
AAEL000014-RA 3758.343267
AAEL000015-RA 5522.986467
AAEL000016-RA 5807.253867
AAEL000017-RA 152.2482333
AAEL000018-RA 29.08536667
AAEL000019-RA 2804.415333

Total number of rows: 16581

Table truncated, full table size 416 Kbytes.




Supplementary file Size Download File type/resource
GSM1481238_2013-06-04_heads-light_dark-ZeitgeberTime8.pair.gz 2.1 Mb (ftp)(http) PAIR
Processed data included within Sample table

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