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We give here the contents pages for the Proceedings of the Lattice '97 conference (15th International Symposium on Lattice Field Theory) that took place in July 1997 in Edinburgh, Scotland. The contents are in html form with clickable links…
Deep learning-based AI models have been extensively applied in genomics, achieving remarkable success across diverse applications. As these models gain prominence, there exists an urgent need for interpretability methods to establish…
Data Linkage is an important step that can provide valuable insights for evidence-based decision making, especially for crucial events. Performing sensible queries across heterogeneous databases containing millions of records is a complex…
Graph theory is a branch of mathematics in which pair-wise relations between objects are studied. My PhD thesis, supervised by David R. Wood, introduces and investigates a new family of graphs, called link graphs, that generalises the…
The association of a given human phenotype to a genetic variant remains a critical challenge for biology. We present a novel system called PhenoLinker capable of associating a score to a phenotype-gene relationship by using heterogeneous…
Citation networks have been widely used to study the evolution of science through the lenses of the underlying patterns of knowledge flows among academic papers, authors, research sub-fields, and scientific journals. Here we focus on…
We linked names and contact information to publicly available profiles in the Personal Genome Project. These profiles contain medical and genomic information, including details about medications, procedures and diseases, and demographic…
Graph Machine Learning (GML) has numerous applications, such as node/graph classification and link prediction, in real-world domains. Providing human-understandable explanations for GML models is a challenging yet fundamental task to foster…
Transparency and accountability have become major concerns for black-box machine learning (ML) models. Proper explanations for the model behavior increase model transparency and help researchers develop more accountable models. Graph neural…
During the founding of the field of quantitative genetics, Fisher formulated in 1918 his ``infinitesimal model'' that provided a novel mathematical framework to describe the Mendelian transmission of quantitative traits. If the infinitely…
Popular online enrichment analysis tools from the field of molecular systems biology provide users with the ability to submit their experimental results as gene sets for individual analysis. Such queries are kept private, and have never…
This is a typeset version of Alan Turing's declassified Second World War paper \textit{Paper on Statistics of Repetitions}. See the companion paper, \textit{The Applications of Probability to Cryptography}, also available from arXiv at…
The Committee of Presidents of Statistical Societies (COPSS) will celebrate its 50th Anniversary in 2013. As part of its celebration, COPSS intends to publish a book with contributions from the past recipients of its four awards, namely the…
Link prediction, the problem of identifying missing links among a set of inter-related data entities, is a popular field of research due to its application to graph-like domains. Producing consistent evaluations of the performance of the…
We present the Thought Graph as a novel framework to support complex reasoning and use gene set analysis as an example to uncover semantic relationships between biological processes. Our framework stands out for its ability to provide a…
In the era of fast-paced precision medicine, observational studies play a major role in properly evaluating new treatments in clinical practice. Yet, unobserved confounding can significantly compromise causal conclusions drawn from…
Previous work for text summarization in scientific domain mainly focused on the content of the input document, but seldom considering its citation network. However, scientific papers are full of uncommon domain-specific terms, making it…
Crosslinking mass spectrometry (Crosslinking MS) has substantially matured as a method over the last two decades through parallel development in multiple labs, demonstrating its applicability for protein structure determination,…
This article consists of six lectures on the categorification of the Burau representation and on link homology groups which categorify the Jones and the HOMFLY-PT polynomial. The notes are based on the lecture course at the PCMI 2006 summer…
Background: The learning of genotype-phenotype associations and history of human disease by doing detailed and precise analysis of phenotypic abnormalities can be defined as deep phenotyping. To understand and detect this interaction…