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Fig. 2 | BMC Cancer

Fig. 2

From: Regulatory dissection of the CBX5 and hnRNPA1 bi-directional promoter in human breast cancer cells reveals novel transcript variants differentially associated with HP1α down-regulation in metastatic cells

Fig. 2

Identification of novel CBX5 generated transcripts. a Screenshot from the UCSC Genome Browser showing selected features of CBX5 and hnRNPA1 from subtracted ENCODE datasets. On the y-axis is displayed the nature of described features. Layered H3K4me3 and H3K27ac represent ChIP-sequence results for 7 model cell lines from ENCODE. Transcription indicates the result of RNA sequencing from 9 model cell lines from ENCODE. MCF7, HePG2, HeLa-S3, and H1-HESC Pol-II indicates ChIP sequence results from the given cell lines. The numbering on the y-axix for each feature indicates the quantitative measure for the RNA and ChIP sequence results. By colored boxes and the below text is indicated the localization of the bi-directional promoter as well as intron 1 located examined alternative promoter and exon sequences. b Expression analysis of CBX5 derived transcripts and hnRNPA1 in HMEC, MCF7, MDA-MB-231, and HeLa cells. Relative expression was calculated from RT-qPCR using GAPDH expression for normalization. CBX5 transcript primers were specific for the indicated isoforms and HP1α-pan was detected by an exon 4 and 5 primer combination. c Expression ratio of HP1α encoding transcripts. The ratio between HP1α-V3 in relation to the sum of HP1α-V1 and HP1α-V2 was calculated based on the data in B. For all panels, bars represent mean values with standard deviations

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