Artificial intelligence in bulk and single-cell RNA-sequencing data to foster precision oncology

M Del Giudice, S Peirone, S Perrone, F Priante… - International journal of …, 2021 - mdpi.com
Artificial intelligence, or the discipline of develo** computational algorithms able to
perform tasks that requires human intelligence, offers the opportunity to improve our idea …

eXplainable Artificial Intelligence (XAI) for the identification of biologically relevant gene expression patterns in longitudinal human studies, insights from obesity …

A Anguita-Ruiz, A Segura-Delgado… - PLoS computational …, 2020 - journals.plos.org
Until date, several machine learning approaches have been proposed for the dynamic
modeling of temporal omics data. Although they have yielded impressive results in terms of …

Inheritances and wealth inequality: a machine learning approach

P Salas-Rojo, JG Rodríguez - The Journal of Economic Inequality, 2022 - Springer
This paper explores the relationship between received inheritances and the distribution of
wealth (financial, non-financial and total) in four developed countries: the United States …

[HTML][HTML] Knowledge generation with rule induction in cancer omics

G Scala, A Federico, V Fortino, D Greco… - International journal of …, 2019 - mdpi.com
The explosion of omics data availability in cancer research has boosted the knowledge of
the molecular basis of cancer, although the strategies for its definitive resolution are still not …

LogicGep: Boolean networks inference using symbolic regression from time-series transcriptomic profiling data

D Zhang, S Gao, ZP Liu, R Gao - Briefings in Bioinformatics, 2024 - academic.oup.com
Reconstructing the topology of gene regulatory network from gene expression data has
been extensively studied. With the abundance functional transcriptomic data available, it is …

A probabilistic graphical model for system-wide analysis of gene regulatory networks

S Kotiang, A Eslami - Bioinformatics, 2020 - academic.oup.com
Motivation The inference of gene regulatory networks (GRNs) from DNA microarray
measurements forms a core element of systems biology-based phenoty**. In the recent …

Network-driven cancer cell avatars for combination discovery and biomarker identification for DNA damage response inhibitors

O Papp, V Jordán, S Hetey, R Balázs… - npj Systems Biology …, 2024 - nature.com
Combination therapy is well established as a key intervention strategy for cancer treatment,
with the potential to overcome monotherapy resistance and deliver a more durable efficacy …

Mining high average-utility sequential rules to identify high-utility gene expression sequences in longitudinal human studies

A Segura-Delgado, A Anguita-Ruiz, R Alcalá… - Expert Systems with …, 2022 - Elsevier
High-utility sequential pattern mining techniques have demonstrated good performance in
identifying associations between mRNA levels in microarray experiments taking into account …

[HTML][HTML] Identification of cancer related genes using feature selection and association rule mining

C Gakii, R Rimiru - Informatics in Medicine Unlocked, 2021 - Elsevier
High throughput sequencing generates large volumes of high dimensional data. Identifying
informative features from the generated big data is always a challenge. Feature selection …

MinePath: mining for phenotype differential sub-paths in molecular pathways

L Koumakis, A Kanterakis, E Kartsaki… - PLoS computational …, 2016 - journals.plos.org
Pathway analysis methodologies couple traditional gene expression analysis with
knowledge encoded in established molecular pathway networks, offering a promising …