|
| Status |
Public on Jan 21, 2019 |
| Title |
GDA_gill_4 |
| Sample type |
RNA |
| |
|
| Channel 1 |
| Source name |
Gills of cod from Gdansk Bay
|
| Organism |
Gadus morhua |
| Characteristics |
tissue: gill
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the ISOLATE II RNA Mini Kit (Bioline). Concentration of extracted RNA was determined at 260 nm on microplate using the Epoch Microplate Spectrophotometer (BioTek Instruments). The RNA integrity was verified using an Agilent Bioanalyser (Agilent Technologies)
|
| Label |
Cy5
|
| Label protocol |
Amplified and labeled according to Agilent Two-Color Microarray-Based Gene Expression Analysis protocol
|
| |
|
| Channel 2 |
| Source name |
mix of all samples
|
| Organism |
Gadus morhua |
| Characteristics |
tissue: gill
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was isolated using the ISOLATE II RNA Mini Kit (Bioline). Concentration of extracted RNA was determined at 260 nm on microplate using the Epoch Microplate Spectrophotometer (BioTek Instruments). The RNA integrity was verified using an Agilent Bioanalyser (Agilent Technologies)
|
| Label |
Cy3
|
| Label protocol |
Amplified and labeled according to Agilent Two-Color Microarray-Based Gene Expression Analysis protocol
|
| |
|
| |
| Hybridization protocol |
Hybridized according to Agilent Two-Color Microarray-Based Gene Expression Analysis protocol
|
| Scan protocol |
Arrays were scanned in an Agilent Technologies Scanner G2505C US10353831, according to the manufacturer’s protocol GE2_1010_Sep10
|
| Data processing |
Data were extracted using the Agilent Feature Extraction software (version 10.10.1.1) following the Agilent protocol GE2_1010_Sep10. Arrays normalization was performed using the Limma package in R. The raw mean signal (gMeanSignal) was background corrected (normexp method). Next lowess and quantile normalization were performed.
|
| |
|
| Submission date |
Nov 27, 2018 |
| Last update date |
Jan 21, 2019 |
| Contact name |
Magdalena Malachowicz |
| E-mail(s) |
mwarzecha@iopan.gda.pl
|
| Organization name |
Institute of Oceanology Polish Academy of Sciences
|
| Street address |
Powstańców Warszawy
|
| City |
Sopot |
| ZIP/Postal code |
81-712 |
| Country |
Poland |
| |
|
| Platform ID |
GPL18779 |
| Series (1) |
| GSE122988 |
Microarray analysis of gene expression of Atlantic cod from different Baltic Sea regions |
|
