COVID19 Disease Map, a computational knowledge repository of virus–host interaction mechanisms | Molecular Systems Biology
We need to effectively combine the knowledge from surging literature with complex datasets to propose mechanistic models of SARS-CoV-2 infection, improving data interpretation and predicting key targets of intervention. Here, researchers describe a large-scale community effort to build an open access, interoperable and computable repository of COVID-19 molecular mechanisms. The COVID-19 Disease Map (C19DMap) is a graphical, interactive representation of disease-relevant molecular mechanisms linking many knowledge sources. Notably, it is a computational resource for graph-based analyses and disease modelling.
Extended graphical lasso for multiple interaction networks for high dimensional omics data | PLOS Computational Biology
There has been a spate of interest in association networks in biological and medical research, for example, genetic interaction networks. In this paper, researchers propose a novel method, the extended joint hub graphical lasso (EDOHA), to estimate multiple related interaction networks for high dimensional omics data across multiple distinct classes.
DNA methylation-calling tools for Oxford Nanopore sequencing: a survey and human epigenome-wide evaluation | Genome Biology
Nanopore long-read sequencing technology greatly expands the capacity of long-range, single-molecule DNA-modification detection. A growing number of analytical tools have been developed to detect DNA methylation from nanopore sequencing reads. Here, the authors assess the performance of different methylation-calling tools to provide a systematic evaluation to guide researchers performing human epigenome-wide studies. They compare seven analytic tools for detecting DNA methylation from nanopore long-read sequencing data generated from human natural DNA at a whole-genome scale.