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Updated: Jan 15, 2026

Building Up a High-throughput Screening Platform to Assess the Heterogeneity of HER2 Gene Amplification in Breast Cancers
Published on: December 5, 2017
Perfilado de Hi-C de alta resolución de tejidos mamarios humanos utilizando un protocolo optimizado para muestras
Lavanya Choppavarapu1, Kun Fang1, Stephen Eacker2
1Divison of Biostatistics, Data Science Institute, Medical College of Wisconsin, Milwaukee, WI 53226, USA; MCW Cancer Center, Medical College of Wisconsin, Milwaukee, WI 53226, USA.
Abstract:
Here, we present an optimized high-resolution Hi-C protocol for human breast tissues using the Phase Genomics Proximo Hi-C Kit. We describe steps for liquid nitrogen tissue processing, crosslinking, and quenching, followed by cell lysis and controlled chromatin fragmentation. Proximity ligation captures three-dimensional interactions, followed by reverse crosslinking, DNA purification, and streptavidin bead enrichment. Libraries are prepared on beads, amplified, and cleaned with size selection, producing high-quality material for Illumina sequencing and genome-wide 3D chromatin analysis. For complete details on the use and execution of this protocol, please refer to Choppavarapu et al.1.

