10.1371/journal.ppat.1007441.g013
Timothy M. Rose
Timothy
M. Rose
A. Gregory Bruce
A.
Gregory Bruce
Serge Barcy
Serge
Barcy
Matt Fitzgibbon
Matt
Fitzgibbon
Lisa R. Matsumoto
Lisa R.
Matsumoto
Minako Ikoma
Minako
Ikoma
Corey Casper
Corey
Casper
Jackson Orem
Jackson
Orem
Warren Phipps
Warren
Phipps
Analysis of the highly expressed genes in the KS tumors.
Public Library of Science
2018
Ugandan KS tumors
KSHV latency region
lytic gene expression profiles
quantitate KSHV transcription
PCA
ORF 75 sequences
Quantitative RNAseq analysis
KS tumors
UCDS
KSHV gene expression profiles
KSHV transcription
HIV
microRNAs K 1-9
latency promoter KSHV
KSHV gene expression
2018-12-17 18:59:33
Figure
https://plos.figshare.com/articles/figure/Analysis_of_the_highly_expressed_genes_in_the_KS_tumors_/7475906
<p>A) The median expression levels of the most highly expressed KSHV genes were compared, with each dot representing the normalized transcript level (TPM) detected by each KSHV UCDS feature. Genes with transcript levels above 5,000 TPM (blue line) are specifically indicated. Genes with transcript levels between 1,000 (red line) and 5,000 TPM are listed together. Genes with transcript levels below 1,000 are grouped as “all other”. Clusters of UCDS features detecting common transcripts are indicated: Red—major T1.7A transcript in the latency region; Blue—K15/ORF75 bicistronic transcript; Green—ORF71/72 bicistronic transcript. An asterisk marks the genes proximal to poly-A sites. B) hierarchical clustering of gene-gene expression correlations for those genes with median transcript levels above 1,000 TPM. Pearson correlation coefficients (R) were calculated for pairs of genes using normalized transcript levels. The negative correlation (R = -1.0) is shown in orange and the positive correlation (R = 1.0) in purple, with the absence of correlation (R = 0) in white. The unsupervised hierarchical clustering is indicated at the top and the major clusters of genes (A-C) are indicated.</p>