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Children's Hospital of Philadelphia Research Institute

2 ARTICLES PUBLISHED IN JoVE

Biology

Generation of High Quality Chromatin Immunoprecipitation DNA Template for High-throughput Sequencing (ChIP-seq)

Sandra Deliard¹, Jianhua Zhao¹, Qianghua Xia¹, Struan F.A. Grant^1,2

¹Division of Human Genetics, Children's Hospital of Philadelphia Research Institute, ²Department of Pediatrics, Perelman School of Medicine, University of Pennsylvania

The combination of chromatin immunoprecipitation and ultra-high-throughput sequencing (ChIP-seq) can identify and map protein-DNA interactions in a given tissue or cell line. Outlined is how to generate a high quality ChIP template for subsequent sequencing, using experience with the transcription factor TCF7L2 as an example.

Cancer Research

Next Generation Sequencing for the Detection of Actionable Mutations in Solid and Liquid Tumors

Alan J. Fox¹, Matthew C. Hiemenz¹, David B. Lieberman¹, Shrey Sukhadia¹, Barnett Li¹, Joseph Grubb¹, Patrick Candrea¹, Karthik Ganapathy¹, Jianhua Zhao¹, David Roth¹, Evan Alley^2,3, Alison Loren^2,3, Jennifer J. D. Morrissette¹

¹Department of Pathology and Laboratory Medicine, Perelman School of Medicine, University of Pennsylvania, ²Division of Hematology/Oncology, Department of Medicine, Perelman School of Medicine, University of Pennsylvania, ³Abramson Cancer Center

This manuscript describes clinical protocols for two next-generation sequencing panels. One panel interrogates hematologic malignancies while the other panel targets genes commonly mutated in solid tumors. Molecular classification of driver mutations in human malignancies offers valuable prognostic and predictive information.