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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)
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)
Supplementary Figure 1 Histology images for studied lung adenocarcinomas, part 1. Supplementary Figure 2 Histology images for studied lung adenocarcinomas, part 2. Supplementary Figure 3 Mean target coverage for FFPE and Frozen samples Supplementary Figure 4 Cross-validation results for FFPE and Frozen cases after " downsampling " Supplementary Figure 5(More)
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