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Fig. 1 | BMC Medical Genetics

Fig. 1

From: Expression analysis of the osteoarthritis genetic susceptibility locus mapping to an intron of the MCF2L gene and marked by the polymorphism rs11842874

Fig. 1

Analysis of relative MCF2L expression and of its protein coding transcript isoforms. a MCF2L expression measured by qPCR in cartilage, synovium and fat pad from OA patient donors. MCF2L expression was plotted relative to three housekeeping genes (GAPDH, 18S and HPRT1) using the 2-ΔCt method. Each dot represents an individual sample. Lines represent the mean value of expression and the standard error of the mean. The p value was calculated using a non-parametric Kruskal-Wallis test to highlight the differences in mean expression levels between each of the three tissue types tested. b MCF2L expression measured by qPCR in OA hip and NOF. Horizontal lines represent the mean and standard error of the mean. c MCF2L expression in OA hip and NOF cartilage as measured by RNA-seq. Expression is measured as fragments per kilobase of exon per million fragments mapped (FPKM). Horizontal lines represent the mean and standard error of the mean. For b and c, statistical significance was assessed using the Mann–Whitney U test and is not corrected for multiple testing. d MCF2L protein-coding transcript isoform expression as measured by RNA-seq in the OA hip (grey bars) and NOF cartilage (black bars) samples used in c. e Publically available MCF2L protein-coding transcript isoform expression as measured by RNA-seq in two fibroblast-like synoviocyte (FLS) samples: SRX105525, shown as black filled bars, and SRX105526, shown as grey filled bars. f Publically available MCF2L protein-coding transcript isoform expression as measured by RNA-seq in synovial macrophages co-cultured with FLS. g Publically available MCF2L protein-coding transcript isoform expression as measured by RNA-seq in synovial macrophages co-cultured with FLS in the presence of tumour necrosis factor (TNF). For d-g, the isoforms are labelled with their Ensembl ID on the x-axis and are in the order listed in Additional file 3. Their relative expression, measured as FPKM, is on the y-axis. ‘MCF2L gene’ represents the aggregated expression level of all isoforms

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