Additional file 1 of Transcriptome profiling of bovine inner cell mass and trophectoderm derived from in vivo generated blastocysts

Table S1. Embryo recovery data. Detail information of in vivo embryo production and ICM/TE immunosurgery. Table S2. Differentially regulated gens. List of genes differentially expressed between ICM and TE of in vivo-derived blastocysts (FDR 2, P ≤ 0.01, FC ≥2). Table S3. ICM/TE predominant gene list. Breakdown of genes exclusively expressed in ICM and TE after filtering data against background genes. Table S4. Epigenetic landscape of ICM transcriptome. Transcriptional profile of epigenetic genes expressed in ICM compared to TE in bovine. Table S5. Effect of in vitro culture on transcriptional profile of ICM and TE. Comparison between transcriptome data of bovine ICM and TE obtained from in vivo (This study) and in vitro (Ozawa et al. [19], and Nagomoto et al. [20]) studies. Table S6. Comparative transcriptional profile of pluripotency related genes between human, mouse and bovine. Expression profile of genes with similar identity between a human [16] study and a mouse study [14] were compared with this study. Table S7. RT-qPCR primers. Sequences (5’–3’) of reverse transcription qRT-PCR-specific primers of candidate genes expressed in bovine embryos. (XLSX 1729 kb)