Skip to main content
Fig. 1 | BMC Genomics

Fig. 1

From: Genome-wide transcriptome profiling reveals functional networks involving the Plasmodium falciparum drug resistance transporters PfCRT and PfMDR1

Fig. 1

Alignment of all time series to the 3D7 reference transcriptome reveal differences in growth rates between the profiled parasite lines. a Plot of all time courses before temporal alignment of the transcriptome data. For each transcriptome data set, the original 8 time points of each 48-hour time course (corresponding to a single intra-erythrocytic developmental cycle (IDC)) were aligned to the transcriptome of 3D7 that earlier had been elucidated at a one-hour resolution [46]. b Phaseograms of all parasite lines in the FCB set after dynamic time warping. Genes (on the Y-axis) were ordered according to their phase of expression computed using Fast Fourier Transform (FFT), which interpolated expression levels at unassayed time points. The resulting output generated a smooth sine curve with a single peak of maximum expression (shown in red, spanning a heatpmap gradient to the minimum transcript levels shown in blue) for each gene across the entire 48-hour IDC. c Phaseograms of the three parasite lines in the 7G8 set after dynamic time warping. d Principal Component Analysis (PCA) confirming the proper alignment of all transcriptomes. The ~3,000 to ~3,500 genes represented in each transcriptome were used to generate a matrix of values that was reduced to a tri-dimensional projection using PCA. The first two principal components accurately recover the progression of the lines through the 48-hour lifecycle while the third principal component focuses on differences between the lines as symbolized by the size of the circles. Circle colors refer to the parasite lines depicted in (a)

Back to article page