RNA-Seq of mus musculus: FVB male embryo: Sample 28_8_10
"A double-stranded cDNA library was prepared from at least 0.5 microg RNA, using the SOLiD SAGE Sequencing kit with the Barcoding Adaptor Module (Applied Biosystems, Bleiswijk, The Netherlands; catalog #4452811), Polyadenylated mRNAs were captured with oligo(dT) Dynabeads (Invitrogen; supplied in the kit) and converted to cDNA while attached to the beads. After second-strand synthesis, the cDNA was cleaved with NlaIII. An adapter containing an EcoP15I-recognition site was ligated to the 5' end of the fragment still attached to the bead. EcoP15I cleaves DNA 25-27 bp downstream and releases a tag with a 2-bp overhang. After ligating another adaptor to this overhang, the tag was amplified as described (http://tools.lifetechnologies.com/content/sfs/manuals/cms_084611.pdf).  "
alignment_software
Burrows-Wheeler aligner