cell line: MDA231 (parental) cell type: breast cancer cells genotype/variation: IMP1-nonexpression
Growth protocol
Cells were cultured in cultured DMEM supplemented with 10% fetal bovine serum, 100U/ml penicillin, and 100 µg/ml streptomycin at 37 °C in a humid environment with 5 % CO2
Extracted molecule
total RNA
Extraction protocol
Total RNA from cultured cells was extracted using RNAsimple Total RNA Kit（Tiangen, Beijing，China) according to the manufacturer's instructions.
Label
Cy3
Label protocol
Total RNA was amplified and labeled by Low Input Quick Amp Labeling Kit, One‐Color (Cat#5190‐2305, Agilent technologies, Santa Clara, CA, US), following the manufacturer’s instructions. Cy3-Labeled cRNA were purified by RNeasy mini kit (Cat#74106, QIAGEN, GmBH, Germany). Labeling was performed by the Shanghai Biotechnology Corporation in Shanghai, China.
Hybridization protocol
Each Slide was hybridized with 1.65μg Cy3‐labeled cRNA using Gene Expression Hybridization Kit (Cat#5188‐5242, Agilent technologies, Santa Clara, CA, US) in Hybridization Oven (Cat#G2545A, Agilent technologies, Santa Clara, CA, US), according to the manufacturer’s instructions. The experiment was performed by the ' Shanghai Biotechnology Corporation ' in Shanghai, China.
Scan protocol
Slides were scanned by Agilent Microarray Scanner (Cat#G2565CA, Agilent technologies, Santa Clara, CA, US) with default settings, Dye channel: Green, Scan resolution=3μm, 20bit.
Description
LncRNA expression profiles of IMP1-nonexpression MDA231 cells
Data processing
Data were extracted with Feature Extraction software 10.7 (Agilent technologies, Santa Clara, CA, US). Raw data were normalized by Quantile algorithm, Gene Spring Software 11.0 (Agilent technologies, Santa Clara, CA, US). The analysis was performed in the Shanghai Biotechnology Corporation in Shanghai, China.
