Fig. 2

Characteristics of the novel oocyte genes identified. a Cumulative distributions of length and FPKM values of oocyte transcripts matching the reference annotation, known long ncRNAs (lncRNAs), and novel transcripts with and without protein-coding potential. b Hierarchical clustering of novel oocyte genes according to their relative expression (mean centred, log transformed FPKM, merged datasets) in oocytes versus PGCs, pre-implantation embryos, embryonic stemm cells, mouse embryonic fibroblasts and adult somatic tissues (Diff. cells) (see Table S2 in Additional file 2 for the full list of datasets). c Relative (left) and absolute (right) expression levels of novel oocyte genes in the largest clusters identified. The number of genes and corresponding percentages are indicated under each cluster. Expression values are log transformed FPKM. d Venn diagram representing the numbers of upstream TSSs of reference genes identified in our transcriptome assembly, in PGCs, early embryos and somatic tissues. e Pie charts representing the proportion of TSSs overlapping CGIs, TEs or neither (NA) for reference genes, novel upstream TSSs of reference genes and novel genes. For each category, the proportion of each TE family is displayed as a bar graph