8 protocols
AccessionType
bioassay_data_transformation
ID_REF =
VALUE = RMA normalized probe intensity
feature_extraction
Feature intensity was extracted by GeneChip Operating System as CEL files. The probe-level analysis of the CEL files was done by the RMA algorithm using GeneSpring 7.2 program. No further adjustments were made to the data in the table.
image_aquisition
Affymetrix GeneArray scanner 7G
specified_biomaterial_action
Lenses were removed from newborn HSF4 null and wildtype mice.
labeling
50 ng total RNA was amplified using the NUGEN Ovation™ Biotin RNA Amplification and Labeling System. Amplified cDNA was fragmented and biotin labeled according to manufacturer's instructions.
nucleic_acid_extraction
Total RNA was extracted using RNeasy micro-elute columns (QIAGEN), according to manufacturer's instructions.
grow
Newborn HSF4 null and wildtype newborn mice were used.
hybridization
2.2 micrograms of amplified/labeled cDNA was hybridized for 17 hr to the Affymetrix array. Genechips® were processed using protocol EukGE_WS2v4 450 for Genechip® fluidics station 450.