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Fig. 5 | BMC Genomics

Fig. 5

From: Global analysis of expression, maturation and subcellular localization of mouse liver transcriptome identifies novel sex-biased and TCPOBOP-responsive long non-coding RNAs

Fig. 5

Cell fraction-dependence of sex-biased and TCPOBOP-responsive genes. a Genes showing differential expression between male and female liver (edgeR adjusted p-value cutoff of 0.05) in at least one of the five subcellular fractions, based on Table S3A, columns D and E. Gene totals: 123 male-biased and 252 female-biased lncRNAs, 11 male-biased and 9 female-biased non-coding RefSeq genes, and 134 male-biased and 172 female-biased PCGs. b Sex-bias and expression in both sexes across all 5 subcellular fractions (left to right, Cytoplasm, Nucleus, Nucleoplasm, Chromatin Bound, Chromatin Bound non-PolyA selected) (Table S3A, columns AA-AT). Expression of each gene (row) is normalized to the highest expression (or strongest sex-bias) of the gene across all fractions. c Genes showing differential expression between vehicle and TCPOBOP-treated liver (edgeR adjusted p-value cutoff of 0.05) in at least one of the five subcellular fractions, based on Table S3B, columns D and E. In a and c, for any gene that is significantly biased in more than one fraction, the fraction with the maximum FPKM and its corresponding fold-change is graphed. Gene totals: 411 up and 594 down regulated lncRNAs, 69 up and 62 down regulated non-coding RefSeq genes, and 1035 up and 665 down regulated PCGs. d TCPOBOP responsiveness and expression in both male and female liver is shown across all 5 subcellular fractions (left to right, as in panel b) (Table S3B, columns AG-BT). Expression of each gene (row) is normalized to the highest expression or TCPOBOP responsiveness of that gene in a single condition and fraction. In many cases, significant differential expression was seen in only one subcellular fraction for both sex-biased genes (b) and TCPOBOP-responsive genes (d); in many cases, the same trends were apparent but lacked statistical significance due to very low expression in other fractions and/or variation between biological replicates (Table S3)

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