RNA-seq analysis of A3250 inflammatory breast cancer (IBC) xenografts and cells in vitro

Purpose: Transcriptome profiling (RNA-seq) of a novel human Inflammatory Breast Cancer cell line A3250 and its xenograft tumors Methods: A3250 tumor cells were maintained as adherent cultures in standard tissue culture dishes, in high-glucose DMEM supplemented with 4 mM L-glutamine, 10% FBS, and 1X antibiotics (100 U/ml penicillin, 100 U/ml streptomycin) Tumor cells cultured in vitro were harvested for RNA-Seq analysis at 80% confluency. To generate tumors, A3250 tumor cells (1 x 10E6 cells in 100 µl PBS) were injected into the fourth mammary fat pads of eight to nine-week-old SCID mice. Tumors were harvested at 5-6 weeks post-injection, when they reached 4-5 mm in diameter. Results: A3250 is a novel IBC cell line that recapitulates key features of human IBC in a mouse xenotransplant. RNA-Seq analysis identified expression profile characteristic for this cell line and its tumors. Overall design: RNA-Seq analysis of A3250 Inflammatory Breast Cancer (IBC) xenografts (three biological replicates) and A3250 IBC tumor cells cultured in vitro (one sample).