R

Ecology

Using Network Science to better understand microbiology.

Identification of potent inhibitors of SARS-CoV-2 infection by combined pharmacological evaluation and cellular network prioritization

Abstract Pharmacologically active compounds with known biological targets were evaluated for inhibition of SARS-CoV-2 infection in cell and tissue models to help identify potent classes of active small molecules and to better understand host-virus interactions. We evaluated 6,710 clinical and preclinical compounds targeting 2,183 host proteins by immunocytofluorescence-based screening to identify SARS-CoV-2 infection inhibitors. Computationally integrating relationships between small molecule structure, dose-response antiviral activity, host target, and cell interactome produced cellular networks important for infection.

A third post

Series: A Spoonful of Hugo

Grid is the very first CSS module created specifically to solve the layout problems we’ve all been hacking our way around for as long as we’ve been making websites.

A second post

Series: A Spoonful of Hugo

Grid is the very first CSS module created specifically to solve the layout problems we’ve all been hacking our way around for as long as we’ve been making websites.

A first post

Series: A Spoonful of Hugo

Grid is the very first CSS module created specifically to solve the layout problems we’ve all been hacking our way around for as long as we’ve been making websites.

Statistics and Data Analysis

9th Programming for Evolutionary Biology Course Link to the course: Basic Statistics: Probability and Inference using R..

Statistics and Data Analysis

8th Programming for Evolutionary Biology Course Link to the course: Basic Statistics: Probability and Inference using R..

wTO: an R package for computing weighted topological overlap and a consensus network with integrated visualization tool

Abstract Network analyses, such as of gene co-expression networks, metabolic networks and ecological networks have become a central approach for the systems-level study of biological data. Several software packages exist for generating and analyzing such networks, either from correlation scores or the absolute value of a transformed score called weighted topological overlap (wTO). However, since gene regulatory processes can up- or down-regulate genes, it is of great interest to explicitly consider both positive and negative correlations when constructing a gene co-expression network.

Statistics and Data Analysis

7th Programming for Evolutionary Biology Course The aim of this short course was to give a lecture on basic statistics using R.

Statistics and Data Analysis

6th Programming for Evolutionary Biology Course The aim of this short course was to give a lecture on basic statistics using R.