Related papers: The Reconstruction of Science Phylogeny
Patterns of interdisciplinarity in science can be quantified through diverse complementary dimensions. This paper studies as a case study the scientific environment of a generalist journal in Geography, Cybergeo, in order to introduce a…
This chapter is an overview of foundational results in the mathematical theory of replicator systems. Its primary aim is to provide a unified framework for the mathematical formalisation of evolutionary processes in the spirit of…
Understanding how genotypes map onto phenotypes, fitness, and eventually organisms is arguably the next major missing piece in a fully predictive theory of evolution. We refer to this generally as the problem of the genotype-phenotype map.…
Scientists in some fields are concerned that many, or even most, published results are false. A high rate of false positives might arise accidentally, from shoddy research practices. Or it might be the inevitable result of institutional…
Cells with the same genome can exist in different phenotypes. and can change between distinct phenotypes when subject to specific stimuli and microenvironments. Some examples include cell differentiation during development, reprogramming…
Recently, much attention has been given to understanding recombination events along a chromosome in a variety of field. For instance, many population genetics problems are limited by the inaccuracy of inferred evolutionary histories of…
Recent advances in high-throughput genomics technologies have resulted in the sequencing of large numbers of (near) complete genomes. These genome sequences are being mined for important functional elements, such as genes. They are also…
Genetic recombination can produce heterogeneous phylogenetic histories within a set of homologous genes. Delineating recombination events is important in the study of molecular evolution, as inference of such events provides a clearer…
Historical linguistics aims at inferring the most likely language phylogenetic tree starting from information concerning the evolutionary relatedness of languages. The available information are typically lists of homologous (lexical,…
The exchange of knowledge across different areas and disciplines plays a key role in the process of knowledge creation, and can stimulate innovation and the emergence of new fields. We develop here a quantitative framework to extract…
Phylogenetic placement refers to a family of tools and methods to analyze, visualize, and interpret the tsunami of metagenomic sequencing data generated by high-throughput sequencing. Compared to alternative (e. g., similarity-based)…
Phylogenies (ancestry trees) depict the evolutionary history of an evolving population. In evolutionary computing, a phylogeny can reveal how an evolutionary algorithm steers a population through a search space, illuminating the…
Phylogenetic inference-the derivation of a hypothesis for the common evolutionary history of a group of species- is an active area of research at the intersection of biology, computer science, mathematics, and statistics. One assumes the…
The paper proposes a text-mining based analytical framework aiming at the cognitive organization of complex scientific discourses. The approach is based on models recently developed in science mapping, being a generalization of the…
A common metaphor for describing development is a rugged "epigenetic landscape" where cell fates are represented as attracting valleys resulting from a complex regulatory network. Here, we introduce a framework for explicitly constructing…
Modeling environmental ecosystems is essential for effective resource management, sustainable development, and understanding complex ecological processes. However, traditional data-driven methods face challenges in capturing inherently…
The tension between qualitative theorizing and quantitative methods is pervasive in the social sciences, and poses a constant challenge to empirical research. But in science studies as an interdisciplinary specialty, there are additional…
Almost all real-world networks are subject to constant evolution, and plenty of evolving networks have been investigated to uncover the underlying mechanisms for a deeper understanding of the organization and development of them. Compared…
Discursive knowledge emerges as codification in flows of communication. The flows of communication are constrained and enabled by networks of communications as their historical manifestations at each moment of time. New publications modify…
Across the natural and life sciences, images have become a primary measurement modality, yet the dominant analytic paradigm remains semantics-first. Structure is recovered by predicting or enforcing domain-specific labels. This paradigm…