Comprehensive Network and Pathway Analysis of RNA Sequencing of Triple Negative Breast Cancers
Thursday, November 21, 2013
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Chapters
Introduction
The Human Genome Project
The dawn of the sequencing revolution
Cancer Causation at the Genomic Level
RNA Expression - Tumor vs Normal
TCGA
Tumor Types for Consideration
TCGA Portal Overview
Going from the Molecular to the Human Level
Major Questions in Cancer Research
Triple-Negative Breast Cancer
Rates of Breast-Specific survival in triple-negative and other breast cancers
Triple Negative Breast Cancer
Laser Capture Microdissection
Summary
Summary Continued
Downstream Effect Analysis
Recruitment of neutrophils
Upstream Regulators Analysis: Transcription Regulators predicted to be activated
FOXM1-Downstream Targets Network, FOXM1 predicted to activated
Upstream Regulators Analysis: Transcription Regulators predicted to be activated
Mechanistic Network driven by FOXM1 (predicted to be activated)
Causal Network Analysis: Transcription Regulator Predicted to be activated
Causal Network driven by HOXB4 (predicted to be activated)
Causal Network driven by HOXB4 (predicted to be activated) connected to angiogenesis of tumor
Causal Network driven by HOXB4 (predicted to be activated) connected angiogenesis of tumor and downstream target genes
Causal Network Analysis: Chemical Drug Predicted to be Inhibited
Causal Network driven by BKM120 (predicted to be inhibited): effect on angiogenesis of tumor
Simulating activation of BKM120: effect on angiogenesis of tumor
Upstream regulator analysis in congruence with known mutational events
Tale of 3 therapies in TNBC
Experimental Design
FH535- Wnt Pathway Inhibitor
Characterizing Heterogeneity
Transcriptional Chaos
TNBC Core Genes
Acknowledgements
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