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Sample GSM822850 Query DataSets for GSM822850
Status Public on Oct 24, 2016
Title Removal dragon fly after 4 days: biological rep3
Sample type RNA
 
Source name Tail tissues from reversion type tadpoles with Dragon fly for 4 days
Organism Rana pirica
Characteristics tissue: tail
stress: Dragon fly for 4 days then removal
Treatment protocol Tail tissue was dissected from each tadpole, cut into small pieces, and collected together in a single tube containing RNAlaterTM (QIAGEN RNA stabilization reagent) for subsequent use in producing RNA probes for the functional microarray analysis. The tissues were stored at -80°C until RNA extraction.
Growth protocol Tadpoles before growing hind limb.
Extracted molecule total RNA
Extraction protocol Total RNA was obtained using the Qiagen RNA medium preparation system. RNA yield was measured by absorbance at 260 nm and the quality was assessed by confirming the integrity of the rRNA bands by electrophoresis.
Label biotin
Label protocol Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
 
Hybridization protocol Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Xenopus Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
Scan protocol GeneChips were scanned using GeneChip Scanner 3000. The data were analyzed with GeneChip Operating Software (GCOS) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
Description Gene expression data from tail tissues of Rana pirica tadpoles with Dragon fly and removal of the Dragon fly .
Data processing The data were analyzed first with GCOS algorithm MAS 5 and then using GeneSpringGX11.5.1.
 
Submission date Oct 26, 2011
Last update date Oct 24, 2016
Contact name Tsukasa Mori
E-mail(s) mori.tsukasa@nihon-u.ac.jp
Phone 01-(81)-466-84-3682
Fax 01-(81)-466-84-3682
URL http://01-(81)-466-84-3682
Organization name Nihon University
Department Bioresource Sciences
Lab Marine Molecular Biochemistry
Street address Kameino 1866
City Fujisawa
State/province Kanagawa
ZIP/Postal code 252−0880
Country Japan
 
Platform ID GPL1318
Series (1)
GSE33250 Gene expression in the tail tissue of tadpoles [Rana pirica] by larvae salamander or dragon fly

Data table header descriptions
ID_REF
VALUE genespring normalized

Data table
ID_REF VALUE
AFFX-BioB-5_at 0.37813568
AFFX-BioB-M_at 0.03999138
AFFX-BioB-3_at -0.015798569
AFFX-BioC-5_at 0.005782127
AFFX-BioC-3_at -0.013183594
AFFX-BioDn-5_at -0.06784248
AFFX-BioDn-3_at -0.14189148
AFFX-CreX-5_at -0.03559494
AFFX-CreX-3_at -0.22005653
AFFX-DapX-5_at -0.32402802
AFFX-DapX-M_at -0.4568081
AFFX-DapX-3_at -0.5580845
AFFX-LysX-5_at -1.1906805
AFFX-LysX-M_at 0.2022543
AFFX-LysX-3_at -0.009396553
AFFX-PheX-5_at -0.674243
AFFX-PheX-M_at -0.67546034
AFFX-PheX-3_at -1.3256793
AFFX-ThrX-5_at -1.3280072
AFFX-ThrX-M_at -2.4246235

Total number of rows: 15611

Table truncated, full table size 422 Kbytes.




Supplementary file Size Download File type/resource
GSM822850.CEL.gz 1.9 Mb (ftp)(http) CEL
GSM822850.CHP.gz 90.9 Kb (ftp)(http) CHP
Processed data included within Sample table
Processed data provided as supplementary file

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