Shan Zhong

TL;DR: The dynamic ethylene transcriptional response is characterized by identifying targets of the master regulator of the ethylene signaling pathway, EIN3, using chromatin immunoprecipitation sequencing and transcript sequencing during a timecourse of ethylene treatment, providing direct evidence linking each of the major plant growth and development networks in novel ways.

TL;DR: A novel next-generation sequencing-based assay to identify all classes of genomic alterations using archived formalin-fixed paraffin-embedded blood and bone marrow samples with high accuracy in a clinically relevant time frame is developed, which increases the ability to identify clinically relevant genomic alterations with therapeutic relevance.

TL;DR: High-sequencing coverage and molecular barcode–based error detection enabled accurate detection of genomic alterations, including short variants (base substitutions, short insertions/deletions) and genomic re-arrangements at low allele frequencies (AFs), and copy number amplifications in FoundationACT.

TL;DR: Together, these changes improve the ability of DREM 2.0 to accurately recover dynamic regulatory networks and make it much easier to use it for analyzing such networks in several species with varying degrees of interaction information.

TL;DR: An amplification-based targeted NGS assay that analyzes 30 genes for single nucleotide variants and indels, 24 genes for copy number variations (CNVs), and 14 types of structural alterations in BRAF, EGFR, and FGFR3 genes in a single workflow that allows rapid and cost-effective profiling of brain tumor specimens and thus provides valuable information for patient management.