Jennifer L. Fostel

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Differentiation of human embryonic stem cells (hESCs) provides a unique opportunity to study the regulatory mechanisms that facilitate cellular transitions in a human context. To that end, we performed comprehensive transcriptional and epigenetic profiling of populations derived through directed differentiation of hESCs representing each of the three(More)
Translating whole-exome sequencing (WES) for prospective clinical use may have an impact on the care of patients with cancer; however, multiple innovations are necessary for clinical implementation. These include rapid and robust WES of DNA derived from formalin-fixed, paraffin-embedded tumor tissue, analytical output similar to data from frozen samples and(More)
Sequencing-based approaches have led to new insights about DNA methylation. While many different techniques for genome-scale mapping of DNA methylation have been employed, throughput has been a key limitation for most. To further facilitate the mapping of DNA methylation, we describe a protocol for gel-free multiplexed reduced representation bisulfite(More)
As researchers begin probing deep coverage sequencing data for increasingly rare mutations and subclonal events, the fidelity of next generation sequencing (NGS) laboratory methods will become increasingly critical. Although error rates for sequencing and polymerase chain reaction (PCR) are well documented, the effects that DNA extraction and other library(More)
Authors: Eliezer M. Van Allen*, Nikhil Wagle*, Petar Stojanov, Danielle L. Perrin, Kristian Cibulskis, Sara Marlow, Judit Jane-Valbuena, Dennis C. Friedrich, Gregory Kryukov, Scott L. Carter, Aaron McKenna, Andrey Sivachenko, Mara Rosenberg, Adam Kiezun, Douglas Voet, Michael Lawrence, Lee T. Lichtenstein, Jeff G. Gentry, Franklin W. Huang, Jennifer Fostel,(More)
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