DBTMEE: a database of transcriptome in mouse early embryos.
Bottom Line: Thereby, users can extensively investigate molecular characteristics among totipotent, pluripotent and differentiated cells while taking genetic and epigenetic characteristics into consideration.We have also designed user friendly web interfaces that enable users to access the data quickly and easily.DBTMEE will help to promote our understanding of the enigmatic fertilization dynamics.
Affiliation: Human Genome Center, The Institute of Medical Science, The University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan.Show MeSH
Related in: MedlinePlus
Mentions: Although we have not installed any analytical tools, users can further analyze the downloaded file as desired. For example, after gathering genes that were not expressed at both p1C and p4C (≤1.0 in FPKM) but were expressed at least one stage, we could prepare 658 and 901 genes that were marked by both histones and by neither histones, respectively (Supplementary Tables S1 and S2). These genes belong to one of the zygotic expression patterns shown in Figure 3A-4. To investigate the influence of paternal histone bivalent marks on early development, we plotted FPKM distributions along the stages in each of the zygotic expression patterns (Figure 4). Interestingly, after fertilization, the bivalently marked genes categorized into 4-cell transient, maternal RNA and minor ZGA patterns are likely to be actively transcribed. Although experimental validations are required, this result might be helpful to identify genes that are affected by sperm transmission and to determine the roles of epigenetic inheritance from sperm.
Affiliation: Human Genome Center, The Institute of Medical Science, The University of Tokyo, 4-6-1 Shirokanedai, Minato-ku, Tokyo 108-8639, Japan.