A5087919968- Genomics and Chromatin Dynamics
- Genomics and Phylogenetic Studies
- Gene expression and cancer classification
- Machine Learning in Bioinformatics
- RNA Research and Splicing
- Protein Structure and Dynamics
- Protein Degradation and Inhibitors
Simon Fraser University
2018-2024
Abstract Semi-automated genome annotation (SAGA) methods are widely used to understand activity and gene regulation. These take as input a set of sequencing-based assays epigenomic (such ChIP-seq measurements histone modification transcription factor binding), output an the that assigns chromatin state label each genomic position. Existing SAGA have several limitations caused by discrete framework: such annotations cannot easily represent varying strengths elements, they combinatorial...
The genome-wide chromosome conformation capture assay Hi-C is widely used to study chromatin 3D structures and their functional implications. Read counts from indicate the strength of contact between each pair genomic loci. These read are heteroskedastic: that is, a difference interaction frequency 0 100 much more significant than 1000 1100. This property impedes visualization downstream analysis because it violates Gaussian variable assumption many computational tools. Thus heuristic...
Abstract Motivation The genome-wide chromosome conformation capture assay Hi-C is widely used to study chromatin 3D structures and their functional implications. Read counts from indicate the strength of contact between each pair genomic loci. These read are heteroskedastic: that is, a difference interaction frequency 0 100 much more significant than 1000 1100. This property impedes visualization downstream analysis because it violates Gaussian variable assumption many computational tools....