RNA characterization of the Physical Sciences - Oncology Network Bioresource Core Facility (PBCF) cell lines grown on various substrates

The NCI’s Division of Cancer Biology (DCB), Physical Sciences-Oncology Network (PS-ON) program has established a PS-ON Bioresource Core Facility (PBCF) which includes a panel of 49 model cell lines. At the Janmey Laboratory of the University of Pennsylvania, nine of these cell lines were grown on seven different substrates of varying stiffness, i.e., hydrogels with different viscoelastic properties and integrin ligands (collagen or fibronectin), for a total of 63 samples. The cell lines were pelleted and stored at -80oC, and RNA was extracted using Qiagen All Prep DNA/RNA kit by Stanford Functional Genomics Facility. The extracted mRNA and miRNA were then sequenced by Frederick National Laboratory for Cancer Research (FNLCR).