Related papers: 1953: An unrecognized summit in human genetic link…
Large language models are increasingly used to curate bibliographies, raising the question: are their reference lists distinguishable from human ones? We build paired citation graphs, ground truth and GPT-4o-generated (from parametric…
We discuss issues of structural and practical identifiability of partially observed differential equations which are often applied in systems biology. The development of mathematical methods to investigate structural non-identifiability has…
We propose an unsupervised approach for linking records across arbitrarily many files, while simultaneously detecting duplicate records within files. Our key innovation involves the representation of the pattern of links between records as…
This study analyzes rates and ways of data sharing regarding mitochondrial, Y chromosomal and autosomal polymorphisms in a total of 162 papers on human ancient DNA published between 1988 and 2013. For the most part, data are available in…
Some methods aim to correct or test for relationships or to reconstruct the pedigree, or family tree. We show that these methods cannot resolve ties for correct relationships due to identifiability of the pedigree likelihood which is the…
Academic citation graphs represent citation relationships between publications across the full range of academic fields. Top cited papers typically reveal future trends in their corresponding domains which is of importance to both…
One compelling use of citation networks is to characterize papers by their relationships to the surrounding literature. We propose a method to characterize papers by embedding them into two distinct "co-factor" spaces: one describing how…
Graph theory has drawn a lot of attention in the field of Neuroscience during the last decade, mainly due to the abundance of tools that it provides to explore the interactions of elements in a complex network like the brain. The local and…
Converging evidence suggests that common complex diseases with the same or similar clinical manifestations could have different underlying genetic etiologies. While current research interests have shifted toward uncovering rare variants and…
Software is foundationally important to scientific and social progress, however, traditional acknowledgment of the use of others' work has not adapted in step with the rapid development and use of software in research. This report outlines…
Link prediction is a paradigmatic problem in network science, which aims at estimating the existence likelihoods of nonobserved links, based on known topology. After a brief introduction of the standard problem and metrics of link…
Changes in citation distributions over 100 years can reveal much about the evolution of the scientific communities or disciplines. The prevalence of uncited papers or of highly-cited papers, with respect to the bulk of publications,…
Citation and coauthor networks offer an insight into the dynamics of scientific progress. We can also view them as representations of a causal structure, a logical process captured in a graph. From a causal perspective, we can ask questions…
Contributed discussion to the paper of Drton and Plummer (2017), presented before the Royal Statistical Society on 5th October 2016.
The measurement of biallelic pair-wise association called linkage disequilibrium (LD) is an important issue in order to understand the genomic architecture. A large variety of such measures of association have been proposed in the…
In the genomic era, the identification of gene signatures associated with disease is of significant interest. Such signatures are often used to predict clinical outcomes in new patients and aid clinical decision-making. However, recent…
Understanding functional organization of genetic information is a major challenge in modern biology. Following the initial publication of the human genome sequence in 2001, advances in high-throughput measurement technologies and efficient…
The task of inferring the missing links in a graph based on its current structure is referred to as link prediction. Link prediction methods that are based on pairwise node similarity are well-established approaches in the literature. They…
Analysing and explaining relationships between entities in a graph is a fundamental problem associated with many practical applications. For example, a graph of biological pathways can be used for discovering a previously unknown…
This is a survey paper on several aspects of differential geometry for the last 30 years, especially in those areas related to non-linear analysis. It grew from a talk I gave on the occasion of seventieth anniversary of Chinese Mathematical…