Total RNA Sequencing Analysis of DCIS Progressing to Invasive Breast Cancer
Technical Report,01 Sep 2014,31 Aug 2018
Johns Hopkins University Baltimore United States
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This project is designed to complement a multi-institutional, NIH-funded study of genetic and epigenetic alterations of pre-invasive DCIS that did or did not progress to invasive breast cancer, with an in-depth analysis of gene expression data, including the characterization of multiple isoforms and splice-variants. During the current reporting period, we have completed, in collaboration with Dr. C. Perou at the U. of North Carolina, the RNA-sequencing of our DCIS sample collection from 5 collaborating institutions using the Illumina TruSeq RNA Access Library Preparation kit and the Illumina NextSeq500 sequencer. We received the final batch of sequence data from 32 study samples last week, for a final total of analyzable samples passing all QC steps, including mapped read counts, of 133 DCIS samples 67 cases and 66 controls. We are proceeding with our bioinformatic analysis, which will be complemented with our genome-wide methylation and copy number variation data obtained from the same samples obtained through our NIH-funded sister project.
- Medicine and Medical Research
- Genetic Engineering and Molecular Biology