|
| Status |
Public on Jun 01, 2016 |
| Title |
heart ventricles at T90d post-injury, biological rep1 |
| Sample type |
RNA |
| |
|
| Source name |
Zebrafish heart ventricles 90 days after injury
|
| Organism |
Danio rerio |
| Characteristics |
tissue: heart ventricle
|
| Treatment protocol |
Cryoinjury was performed as described previously [Gonzalez-Rosa et.al. 2012]. Animals were sacrificed at different time-points after surgery, from 4h to 90 days, by immersion in 0.16% tricaine (Sigma Aldrich, Bornem, BE). Hearts were dissected in PBS containing 2U/mL heparin and 0.1M KCl, then 5 heart ventricles were pooled in TRIzol® (Invitrogen, Carlsbad, CA) for RNA extraction. Hearts of uninjured fish served as control.
|
| Growth protocol |
Experiments were conducted with adult zebrafish between 10 and 11 months old.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Extraction was performed as previously described in [Rodius at al. 2014]
|
| Label |
biotin
|
| Label protocol |
250 ng of total RNAs were reverse transcribed into cDNA, then transcribed into cRNAs and labeled into biotinylated cRNA using the GeneChip WT Reagent kit (Affymetrix) according to the manufacturer’s standard protocols (P/N 4425209 Rev.B and P/N 702808 Rev.6)
|
| |
|
| Hybridization protocol |
Arrays were hybridized, washed and stained using the Affymetrix GeneChip WT Terminal Labeling and Hybridization kit.
|
| Scan protocol |
GeneChip Scanner 3000 according to the manufacturer’s standard procedure (P/N 702731 Rev 3)
|
| Description |
Gene expression data from Zebrafish heart ventricles 90 days after injury
|
| Data processing |
Microarray data were pre-processed by Partek® Genomics Suite version 6.5 using the robust multi-chip analysis (RMA) [Irizarry et.al. 2003] with GC-content correction.
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| |
|
| Submission date |
Apr 08, 2015 |
| Last update date |
Jun 02, 2016 |
| Contact name |
Francisco Azuaje |
| E-mail(s) |
francisco.azuaje@lih.lu
|
| Organization name |
Luxembourg Institute of Health
|
| Department |
Oncology
|
| Lab |
NORLUX Neuro-Oncology Laboratory
|
| Street address |
84, Val Fleuri
|
| City |
Luxembourg |
| ZIP/Postal code |
L-1526 |
| Country |
Luxembourg |
| |
|
| Platform ID |
GPL16933 |
| Series (1) |
| GSE67665 |
Transcriptome profiling times series of zebrafish heart regeneration |
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