A new tool to analyze bipartite networks in community networks

A new study in which Sergi Valverde, from the Complex Systems Lab  at DCEXS-UPF has collaborated, provides an open source MATLAB package to study the structure of bipartite ecological networks inspired by real problems in microbiology and with broader applications.   Bipartite networks are a special type of ecological network where individuals of a certain species interact with individuals of different species. They are ubiquitous in community ecology, such as the relation between phages (viruses that infect bacteria) and their bacterial hosts. You can read more about this tool, called BiMat, at the group’s blog. Advertisements Continue reading A new tool to analyze bipartite networks in community networks

De novo genes: starting to solve the mystery of their origins

  A new collaboration amongst scientists at different centres at the PRBB, with Mar Albà from the IMIM as leading author, has come up with a new mechanism for explaining the formation of de novo genes. Although commonly new genes arise by gene duplication and diversification of the copy, some genes appear in genomic regions which did not previously contain any gene, as compared with other species. How do these genes originate from nothing? In a preprint submitted to arXiv.org the authors propose – based on transcriptomic comparisons between humans and three other mammals – that first new regulatory motifs/promoters appeared in … Continue reading De novo genes: starting to solve the mystery of their origins

On data sharing and open science – interviewing Rebecca Lawrence (F1000Research)

Rebecca Lawrence has worked in scientific publishing for over 15 years and is currently involved in several international associations and working groups on data publishing and peer review. Rebecca was responsible for the launch of F1000Research in January 2013, a novel open science publishing platform that “uses immediate publication, transparent peer review, and publishes all source data”. She came to the PRBB to talk about the future of scientific publishing. What are the current challenges in scientific publishing? One is the delay between the moment you’re ready to share the science and when it actually gets out there and others benefit from … Continue reading On data sharing and open science – interviewing Rebecca Lawrence (F1000Research)