9 protocols
AccessionNameType
P-MTAB-29980
scanning
FASTQ files of sequencing reads were retrieved from the sequencing machine and the sequences were then filtered and aligned to the genome and relative gene expression scores calculated
P-MTAB-29979
sequencing
RNA-Seq
P-MTAB-29977
specified_biomaterial_action
MCF-7 cells grown in 0.1% hypoxic conditions, after 72hrs the cells were sorted according to whether they expressed CA9 (CA9 +) or not (CA9-).
P-MTAB-29976
grow
MCF7 cells were maintained in DMEM supplemented with 10% (v/v) FBS, penicillin (100 U/ml), streptomycin (100mg/ml) (Life Technologies). Incubation conditions were 37 C , 5% CO2
P-MTAB-29978
nucleic_acid_extraction
Total RNA extraction at 72 hrs
P-MTAB-29984
bioassay_data_transformation
Data was background corrected and normalised using vsn package from Bioconductor
P-MTAB-29981
labeling
Biotinylated cRNA were prepared with the Ambion MessageAmp kit for Illumina arrays
P-MTAB-29983
image_acquisition
Standard Illumina scanning protocol
P-MTAB-29982
hybridization
Standard Illumina hybridization protocol