title: NextSeq 500 paired end sequencing; RNA of Small Cell Lung Cancer Circulating Tumour Cells Derived Explants
design: RNA of Small Cell Lung Cancer Circulating Tumour Cells Derived Explants
library_construction_protocol: Circulating tumour cells were collected from patient blood using RosetteSep (Stemcell Technologies) and injected into the flank of non-obese diabetic severe combined immunodeficient interleukin-2 receptor γ–deficient mice.  Tumours were excised from terminally sacrificed mice, and tumour fragments were immediately transferred to 10 volumes of RNAlater (Qiagen) and stored overnight at 4°C.  Tumour fragments were then stored at -80°C until further processing. Three independent tumours from each model were homogenized in RLT buffer (Qiagen) using the TissueLyser LT (Qiagen) and FastPrep Lysing Matrix A tubes (MP Biomedicals).  RNA was extracted with RNeasy mini kits (Qiagen) and quantified using Qubit (Thermo Fisher). RNA-seq data were aligned to Human GRCh38 and Mouse GRCm38 assembly using Mapsplice (version 2.1.6). Mouse reads were subsequently filtered from the data.
attributes.tag: Experimental Factor: response to treatment
attributes.value: partial response
attributes.tag: Experimental Factor: clinical information
attributes.value: baseline