Illumina HiSeq 2500 paired end sequencing; Authentication and characterisation of a new oesophageal adenocarcinoma cell line: MFD-1
Authentication and characterisation of a new oesophageal adenocarcinoma cell line: MFD-1
Tissue collection and are described in Weaver, J. M. et al. Ordering of mutations in preinvasive disease stages of esophageal carcinogenesis. Nat.Genet. 46, 837-843 (2014). Briefly, Blood was used as germline reference. Tissue was immediately snap-frozen in liquid nitrogen after collection and stored at −80°C. Prior to DNA extraction, one section was cut from each oesophageal tissue sample and H&E staining was performed.A cellularity of 70% of greater was cofirmed by two expert pathologists. DNA was extracted from frozen tumour oesophageal tissue using the DNeasy kit (Qiagen) and from blood samples using the NucleonTM Genomic Extraction kit (Gen-Probe) according to the manufacturer’s instructions.  A single library was created for each sample, and 100bp paired-end sequencing was  performed under contract by Illumina to a typical depth of at least 50x, with 94% of the  known genome being sequenced to at least 8x coverage while achieving a PHRED quality of  at least 30 for at least 80% of mapping bases.
Experimental Factor: esophageal adenocarcinoma
organism part