Overview of significantly enriched GO terms from analogical stages in external data-sets.

<p>Overview of significantly enriched GO terms from analogical stages in external data-sets.</p

Top 10 significantly enriched GO terms.

<p>Graphs showing the top ten significantly enriched GO terms (y-axis) and their p-values (x-axis) of differentially expressed genes found only at the 2-cell stage (2A), enriched at the 2-cell stage (2B), enriched at the 4-cell stage (2C) and found only at the 4-cell stage (2D).</p

Output of RNA sequencing.

<p>Quality control statistics of RNA sequencing by SOLiD system. In total, 20 <i>in vivo</i> developed (IVV) embryos were used per sample. From <i>in vitro</i> produced (IVT) embryos, 40 embryos per sample at 2-cell stage and 80 embryos per sample at 4-cell stage were pooled.</p><p>IVV <i>in vivo</i> developed embryos; 20 embryos per sample.</p><p>IVT<i>in vitro</i> produced embryos; 40 (2-cell stage) and 80 (4-cell stage) embryos per sample.</p

Characterization of genes identified as differentially expressed under <i>in vitro</i> conditions.

<p>(A) Venn diagram showing distribution of differentially expressed genes according to the cell stage and direction of alteration. (B) Pie graphs showing classification of genes up-regulated (left) and down-regulated (right) under <i>in vitro</i> conditions according to their differential enrichment identified by comparison between the 2-cell and the 4-cell stages (2 enriched, 4 enriched, 2 cell only), or not found by this comparison (novel). (C) Graphs showing the top ten significantly enriched GO terms of differentially expressed genes up-regulated (top graph) or down-regulated (below) under <i>in vitro</i> conditions.</p

Graphs showing overlap between significantly enriched GO terms in present data and external data-sets.

<p>(A) Comparison of significantly enriched GO terms from human MII oocytes and stem cells (Assou et al., 2009) with our data. (B) Comparison of significantly enriched GO terms from zebrafish pre-EGA, EGA and post-EGA embryos (Aanes et al., 2011) with our data.</p

Overview of primer sequences used for validation of RNA sequencing.

<p>Overview of primer sequences used for validation of RNA sequencing.</p

Overview of the numbers of genes, their human orthologes, significantly enriched GO terms and GO term clusters identified by comparison of differential expression between the 2-cell and the 4-cell stage.

<p>Overview of the numbers of genes, their human orthologes, significantly enriched GO terms and GO term clusters identified by comparison of differential expression between the 2-cell and the 4-cell stage.</p

Developmental competence of <i>in vitro</i> produced embryos.

<p>Developmental competence of <i>in vitro</i> produced (IVT) embryos from 4 biological replicates stated as a percentage of cleavage rates at 2- cell, 4-cell, and blastocyst stage.</p>1<p>2-cell stage embryos collected 30 hours after IVF.</p>2<p>4-cell stage embryos collected 48 hours after IVF.</p>3<p>Blastocyst stage embryos collected 6 days after IVF.</p

Clustering analysis of differentially expressed genes (DEG).

<p>Clustering of genes found as differentially expressed between the 2-cell and the 4-cell stage (A), between <i>in vivo</i> developed and <i>in vitro</i> produced embryos (B).</p

Gene network of differentially expressed genes annotated the GO term “Protein catabolic processes”.

<p>Gene network of differentially expressed genes annotated the GO term “Protein catabolic processes”, modified for better visualization of groups of genes found only at the 2-cell stage (red circle) and identified as enriched at the 2- (green circle) or the 4-cell stage (blue circle).</p