Computational protocol: Maternal DNA Methylation Regulates Early Trophoblast Development

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Protocol publication

[…] mRNA was purified from 45–400 ng of total RNA using a Dynabeads mRNA Purification Kit (Life Technologies). For each genotype, three strand-specific libraries were generated from single EPCs using the ScriptSeq v2 RNA-Seq Library Preparation Kit (Epicentre), according to the manufacturer's instructions. Indexed libraries were pooled and sequenced on an Illumina HiSeq 2000 or 2500 platform using 50 bp (Dnmt3 libraries) or 100 bp (Ascl2 libraries) single-end reads. Reads were trimmed using “Trim Galore!” and mapped to the NCBIM37 genome assembly using TopHat (). […]

Pipeline specifications

Software tools Trim Galore!, TopHat
Application RNA-seq analysis
Diseases Tooth Migration