title: Illumina HiSeq 2000 paired end sequencing; RNA-seq of PDAC tissues grown as patient-derived tumor xenografts
design: RNA-seq of PDAC tissues grown as patient-derived tumor xenografts
library_construction_protocol: PDAC tissue from surgical samples was fragmented, mixed with 100 μL of Matrigel and implanted with a trocar (10 gauge; Innovative Research of America, Sarasota, FL) in the subcutaneous right upper flank of an anesthetized and disinfected male NMRI-nude mouse. Samples obtained from EUS-FNA were mixed with 100 μL of Matrigel (BD Biosciences, Franklin Lakes, NJ) and injected in the upper right flank of a male nude mice (Swiss Nude Mouse Crl: NU(lco)-Foxn1nu; Charles River Laboratories, Wilmington, MA) for the first implantation. When xenografts reached 1 cm3, these were removed and passed to NMRI-nude mice in the same manner as the surgical samples. All animal experiments were conducted in accordance with institutional guidelines and were approved by the “Plateforme de Stabulation et d'Expérimentation Animale” (PSEA, Scientific Park of Luminy, Marseille). RNA was extracted using RNeasy mini kit with optional on column DNA digestion (Qiagen). RNA libraries were prepared (Illumina TruSeq mRNA v2) and run on the Illumina High Seq-2000 for 101 bp paired end reads
attributes.tag: Experimental Factor: phenotype
attributes.value: basal
attributes.tag: Experimental Factor: individual
attributes.value: 2.116