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Cell line response profile

General information

Clinical subtype HER2amp 1 2
Transcriptional subtype HER2+ 3
Growth medium RPMI-1640 + 10% FBS + 1% P/S
Culture conditions 37.0°C ; 5% CO2

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HER2amp average

Network map of AU-565 (left) and its corresponding subtype (right) with data normalized across all cell lines. Outer and inner circles represent basal measurements: circle diameter is proportional to the logarithm of the expression levels (with an offset) and its shading to the logarithm of the phosphorylation levels (each measure is independently normalized across all cell lines). Levels of pFGFR1-4 were not measured. Gray outer circles denote cases in which the expression level was below the detection threshold. Lines between outer and middle circles depict simplified ligand/receptor binding (Supplemental Table S2). The thickness of the arrows between outer and middle circles denotes the strength of pERK or pAKT induction by ligand with maximal response normalized by downstream target across all cell lines and ligands. Gray lines denote responses that were not statistically significant (below 2 standard deviations of the control).

Characteristic response to major ligands

Key response characteristics for AU-565 are shown by diamonds in context of the responses across all cell lines from each subtype (colored box plots) following ErbB, FGF, IGF/Ins, and HGF stimulation. Shown are the fraction of significant responses at 1ng/ml stimulation (left), the mean fold change at 100ng/ml (middle), and the pathway bias at 100ng/ml (right).

Most up- and down-regulated (phospho-) kinases

List of the most up-regulated (left) and down-regulated (right) variables in AU-565. The diamond denotes the measured value for AU-565, the black line shows the distribution of the variable across all cell lines, and the colored bars show the interquartile within the different subtypes.

Fold change pERK and pAKT response to ligands

The magnitude of the fold-change response at 100ng/ml ligand stimulation for AU-565 measured by pERK (left) and pAKT (right) denoted by diamonds. The box plot shows the distribution of the fold-change response for all cell lines, clustered by strength of the pERK or pAKT response. Black lines represent the median, shaded zones the interquartile range, dashed lines the 5% and 95% quantiles, and dots the outliers.


  1. Neve, R. M. et al. (2006) A collection of breast cancer cell lines for the study of functionally distinct cancer subtypes. Cancer Cell. 10(6), 515-527. doi:10.1016/j.ccr.2006.10.008 PMID:17157791 PMCID:PMC2730521
  2. Kao, J. et al. (2009) Molecular Profiling of Breast Cancer Cell Lines Defines Relevant Tumor Models and Provides a Resource for Cancer Gene Discovery. PLoS One. 4(7), e6146. doi:10.1371/journal.pone.0006146 PMID:19582160 PMCID:PMC2702084
  3. Heiser, L. et al. (2012) Subtype and pathway specific responses to anticancer compounds in breast cancer. Proc Natl Acad Sci. 109(8), 2724-2729. doi:10.1073/pnas.1018854108 PMID:22003129 PMCID:PMC3286973

When using any of the data or analysis presented here, please cite Niepel et al., BMC Biology, 2014. For more information, contact Mario Niepel (