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Sample GSM2295955 Query DataSets for GSM2295955
Status Public on Oct 31, 2017
Title GFP positive, biological rep1
Sample type RNA
 
Source name adult zebrafish (GFP-positive) sorted cone photoreceptors
Organism Danio rerio
Characteristics age: adult
genotype/variation: Tg(3.2TalphaCP:EGFP)
tissue: cone cells
cell population: GFP positive
Treatment protocol No treatment was done prior to zebrafish euthanasia
Growth protocol Zebrafish were kept in transparent 10-liter aquaria, heated to 23ºC-28ºC degrees with a pH between 6.2 to 7.5. Normally, 25 fish were kept in each tank. Fish were maintained with a 14-hour light / 10-hour dark cycle. Fish were fed with ground dry trout pellets, zooplankton, phytoplankton and insect larvae twice a day.
Extracted molecule total RNA
Extraction protocol RNA was isolated with the RNeasy Micro Kit (Qiagen) protocol (Mack et al 2007) in order to increase the final RNA concentration
Label Biotin
Label protocol Total RNA were labeled by Affymetrix GeneChip Two-Cycle Target Labeling protocol.
 
Hybridization protocol Hybridization, washing and staining were done according to a standard procedure from Affymetrix.
Scan protocol Scanning was done according to a standard procedure from Affymetrix.
Description GFPp-1
Data processing The signal intensity of the microarray was normalized and summarized using the Bioconductor package, gcrma, using default setting.
 
Submission date Aug 29, 2016
Last update date Oct 31, 2017
Contact name Breandan Kennedy
E-mail(s) brendan.kennedy@ucd.ie
Organization name UCD Conway Institute, University College Dublin
Department UCD School of Biomolecular and Biomedical Science
Lab Kennedy Lab
Street address Belfield
City Dublin
ZIP/Postal code Dublin 4
Country Ireland
 
Platform ID GPL1319
Series (1)
GSE86155 IDENTIFICATION OF ADULT ZEBRAFISH CONE PHOTORECEPTOR-ENRICHED GENES

Data table header descriptions
ID_REF
VALUE Gcrma signal intensity

Data table
ID_REF VALUE
AFFX-BioB-3_at 7.459181558
AFFX-BioB-5_at 7.609976159
AFFX-BioB-M_at 8.065048925
AFFX-BioC-3_at 9.203761284
AFFX-BioC-5_at 8.96766675
AFFX-BioDn-3_at 11.32885626
AFFX-BioDn-5_at 10.84103389
AFFX-CreX-3_at 14.1716848
AFFX-CreX-5_at 13.3294344
AFFX-DapX-3_at 8.152933584
AFFX-DapX-5_at 2.614419296
AFFX-DapX-M_at 6.552663545
AFFX-Dr-AB076373-1_at 2.174577873
AFFX-Dr-acta1-3_at 2.752752135
AFFX-Dr-acta1-5_at 2.174577873
AFFX-Dr-acta1-5_x_at 5.026280386
AFFX-Dr-acta1-M_at 2.32435178
AFFX-Dr-AF292559-1_at 2.174577873
AFFX-Dr-AF292559-2_s_at 2.194632732
AFFX-Dr-AF292559-3_s_at 2.308996303

Total number of rows: 15617

Table truncated, full table size 437 Kbytes.




Supplementary file Size Download File type/resource
GSM2295955_S0180F002.CEL.gz 2.0 Mb (ftp)(http) CEL
Processed data included within Sample table

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