I’ve recently been a reviewer for the book “Bioinformatics with Python cookbook” by Tiago Antao, one of the big authors of BioPython. The book is published by Packt Publishing, and it is a collection of recipes for several bioinformatics tasks, from reading large genome files to doing population genetics and other tasks. The
Category: book club
book club “origins of Evolutionary Innovations”
Two books on Human Evolution and on the concept of Race, that should be read together
I have decided that, from time to time, I will post some book recommendation here on this blog. This is the first of this series, dedicated to a pair of books on the evolution of the human genome and the concepts of races / human populations.
Origins of Evolutionary Innovations, chapter 5
The fifth chapter of prof A . Wagner’s “Origins of Evolutionary Innovations” tries to answer to the question: “Under which common principles do metabolic networks, regulatory circuits, and sequence folds evolve?“. It also formalizes a framework for a theory of innovations, to study how innovative phenotypes can be found by evolution. Together, this chapter is
Origins of Evolutionary Innovations, chapter 4
The 4th chapter of “Origins of Evolutionary Innovations” discusses variation in protein and RNA sequences. How much aminoacids or nucleotides can I change in a sequence, without breaking its fold? How new fold and functions are found in evolution? Wagner chapter 4 View more presentations fromGiovanni Dall’Olio
The genotype space – how does it looks like?
Today, in the metro, I have finally understood what is the form of a genotype space. A genotype space is a representation of all the possible genotypes that can possibly exist, and in which two neighbor points are different only for one single mutation (Hamming distance is 1). Until now, in the book club slides,
Origins of Evolutionary Innovations, chapter 3
Here is the third chapter of “Origins of Evolutionary Innovations”! This chapter describes innovations in regulatory systems, and the evolution of networks of transcription factor sites. The most important message of this chapter is that regulatory circuits can suffer a lot of changes, and yet remain functional. For example, some researchers have change up to
Origins of Evolutionary Innovations, chapter 2
In the second chapter, Wagner discusses the variability of metabolic networks. How do metabolic networks evolve? How many reactions can I remove or add to a metabolic network, without altering its phenotype? How much the phenotype of a metabolic network is robust to changes? A possible source of confusion in this chapter is the definitions
Origins of Evolutionary Innovations, chapter 1
We just finished the first session of the book “Origins of Evolutionary Innovations” by A. Wagner, on Chapter 1. Click on “Continue Reading” to see a resume of this chapter.
book club on “Origins of Evolutionary Innovations” by A. Wagner
I am organizing a discussion club on the book “Origins of Evoutionary Innovations” by A. Wagner, for my group. Well, I don’t promise anything, but since I will do the effort of producing some presentations anyway, I will also publish all the slides here in this blog. This book describes how new phenotypes are discovered