Structure and dynamics of molecular networks: a novel paradigm of drug discovery: a comprehensive review

P Csermely, T Korcsmáros, HJM Kiss, G London… - Pharmacology & …, 2013 - Elsevier
Despite considerable progress in genome-and proteome-based high-throughput screening
methods and in rational drug design, the increase in approved drugs in the past decade did …

[HTML][HTML] A neural network multi-task learning approach to biomedical named entity recognition

G Crichton, S Pyysalo, B Chiu, A Korhonen - BMC bioinformatics, 2017 - Springer
Abstract Background Named Entity Recognition (NER) is a key task in biomedical text
mining. Accurate NER systems require task-specific, manually-annotated datasets, which …

[HTML][HTML] Genomic clustering within functionally related gene families in Ascomycota fungi

D Hagee, AA Hardan, J Botero, JT Arnone - Computational and Structural …, 2020 - Elsevier
Multiple mechanisms collaborate for proper regulation of gene expression. One layer of this
regulation is through the clustering of functionally related genes at discrete loci throughout …

[HTML][HTML] Identification of research hypotheses and new knowledge from scientific literature

M Shardlow, R Batista-Navarro, P Thompson… - BMC medical informatics …, 2018 - Springer
Background Text mining (TM) methods have been used extensively to extract relations and
events from the literature. In addition, TM techniques have been used to extract various …

Cis-acting variation is common across regulatory layers but is often buffered during embryonic development

S Floc'Hlay, ES Wong, B Zhao, RR Viales… - Genome …, 2021 - genome.cshlp.org
Precise patterns of gene expression are driven by interactions between transcription factors,
regulatory DNA sequences, and chromatin. How DNA mutations affecting any one of these …

Stochastic representation of FGM copulas using multivariate Bernoulli random variables

C Blier-Wong, H Cossette, E Marceau - Computational Statistics & Data …, 2022 - Elsevier
A one-to-one correspondence between Fréchet's class of multivariate Bernoulli distribution
with symmetric marginals and the well-known family of Farlie-Gumbel-Morgenstern (FGM) …

Copulas and their potential for ecology

S Ghosh, LW Sheppard, MT Holder, TD Loecke… - Advances in Ecological …, 2020 - Elsevier
All branches of ecology study relationships among and between environmental and
biological variables. However, standard approaches to studying such relationships, based …

Analysis of directional dependence using asymmetric copula-based regression models

D Kim, JM Kim - Journal of Statistical Computation and Simulation, 2014 - Taylor & Francis
The directional dependence between variables using asymmetric copula regression has
drawn much attention in recent years. There are, however, some critical issues which have …

A new approach to interspecific synchrony in population ecology using tail association

S Ghosh, LW Sheppard, PC Reid… - Ecology and …, 2020 - Wiley Online Library
Standard methods for studying the association between two ecologically important variables
provide only a small slice of the information content of the association, but statistical …

On the copula correlation ratio and its generalization

JH Shih, T Emura - Journal of Multivariate Analysis, 2021 - Elsevier
The correlation ratio has been used to measure how much the behavior of one variable can
be predicted by the other variable. In this paper, we derive a new expression of the …